Research Explorer

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Researcher

Jo Vandesompele

540 Results

2022

CIRCprimerXL : convenient and high-throughput PCR primer design for circular RNA quantification

Marieke VrommanJasper AnckaertJo VandesompelePieter-Jan Volders

A2 Journal Article in FRONTIERS IN BIOINFORMATICS

CiLiQuant : quantification of RNA junction reads based on their circular or linear transcript origin

Annelien MorlionEva HulstaertMarieke VrommanJasper AnckaertCeline EveraertJo VandesompelePieter Mestdagh

A2 Journal Article in FRONTIERS IN BIOINFORMATICS

Comprehensive RNA dataset of tissue and plasma from patients with esophageal cancer or precursor lesions

Kathleen SchoofsAnnouck PhilippronFrancisco Avila CobosJan KosterSteve LefeverJasper AnckaertDanny De LoozeJo VandesompelePiet PattynKatleen De Preter

A1 Journal Article in SCIENTIFIC DATA

RNA biomarkers from proximal liquid biopsy for diagnosis of ovarian cancer

Eva HulstaertKeren LevanonAnnelien MorlionStefan Van AelstAnthony-Alexander ChristidisRuben ZamarJasper AnckaertKimberly VerniersKeren Bahar-ShanyStav SapoznikJo VandesompelePieter Mestdagh

A1 Journal Article in NEOPLASIA

Reliable and scalable SARS-CoV-2 qPCR testing at a high sample throughput : lessons learned from the Belgian initiative

Steven Van VoorenJames GraysonMarc Van RanstElisabeth DequekerLies LaenenReile JanssenLaurent GilletFabrice BureauWouter CoppietersNathalie DevosBenjamin HengchenPierre WattiauSibylle MéhaudenYvan VerlindenKurt Van BaelenTheresa PatteryJean-Pierre ValentinKris JanssenMartine GeraertsJohn SmeragliaJan HellemansPieter WytynckPieter MestdaghNienke BesbruggeRené HöferFriedel NolletJo VandesompelePieter De SmetJohn LebonEmmanuel VandewynckeleSteven VerstrepenWouter UtenArnaud CapronHugues MalonneJeroen PoelsEmmanuel André

A1 Journal Article in LIFE-BASEL

The long non-coding RNA SAMMSON is essential for uveal melanoma cell survival

Shanna DewaeleLouis DelhayeBoel De PaepeEric de Bony de LavergneJilke De WildeKatrien VanderheydenJasper AnckaertNurten YigitJustine NuytensEveline Vanden EyndeJoél SmetMaxime VerschooreFariba NematiDidier DecaudinManuel RodriguesPeihua ZhaoAart JochemsenEleonora LeucciJo VandesompeleJo Van DorpeJean-Christophe MarineRudy Van CosterSven EyckermanPieter Mestdagh

A1 Journal Article in ONCOGENE

The long non-coding RNA SAMMSON is essential for uveal melanoma cell survival (Sept, 10.1038/s41388-021-02006-x, 2021)

Shanna DewaeleLouis DelhayeBoel De PaepeEric James de BonyJilke De WildeKatrien VanderheydenJasper AnckaertNurten YigitJustine NuytensEveline Vanden EyndeJoél SmetMaxime VerschooreFariba NematiDidier DecaudinManuel RodriguesPeihua ZhaoAart JochemsenEleonora LeucciJo VandesompeleJo Van DorpeJean-Christophe MarineRudy Van CosterSven EyckermanPieter Mestdagh

Transient nuclear lamin A/C accretion aids in recovery from vapor nanobubble-induced permeabilisation of the plasma membrane

Gaëlle HouthaeveGerardo García-Díaz BarrigaStephan StremerschHerlinde De KeersmaeckerJuan FraireJo VandesompelePieter MestdaghStefaan De SmedtKevin BraeckmansWinnok De Vos

A1 Journal Article in CELLULAR AND MOLECULAR LIFE SCIENCES

Unraveling the therapeutic potential of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaelePieter MestdaghJo Vandesompele

2021

A G316A polymorphism in the ornithine decarboxylase gene promoter modulates MYCN-driven childhood neuroblastoma

Laura D. GambleStefania PurgatoMichelle J. HendersonSimone Di GiacomoAmanda J. RussellPaolo PiginiJayne MurrayEmanuele ValliGiorgio MilazzoFederico M. GiorgiMark CowleyLesley J. AshtonJaydutt BhalshankarGudrun SchleiermacherAli RihaniTom Van MaerkenJo VandesompeleFranki SpelemanRogier VersteegJan KosterAngelika EggertRosa NogueraRaymond L. StallingsGian Paolo ToniniKwun FongZalman VaksmanSharon J. DiskinJohn M. MarisWendy B. LondonGlenn M. MarshallDavid S. ZieglerMichael D. HogartyGiovanni PeriniMurray D. NorrisMichelle Haber

A1 Journal Article in CANCERS

Candidate RNA biomarkers in biofluids for early diagnosis of ovarian cancer : a systematic review

Eva HulstaertAnnelien MorlionKeren LevanonJo VandesompelePieter Mestdagh

A1 Journal Article in GYNECOLOGIC ONCOLOGY

Charting regulatory RNAs in the human transcriptome using RNA-sequencing

Lucia LorenziPieter MestdaghJo Vandesompele

Circulating RNA biomarkers in diffuse large B-cell lymphoma : a systematic review

Philippe DecruyenaereFritz OffnerJo Vandesompele

A1 Journal Article in EXPERIMENTAL HEMATOLOGY & ONCOLOGY

Circulating bacterial vesicles : from discovery towards clinical application

Joeri TulkensAn HendrixJo Vandesompele

Closing the circle : current state and perspectives of circular RNA databases

Marieke VrommanJo VandesompelePieter-Jan Volders

A1 Journal Article in BRIEFINGS IN BIOINFORMATICS

Custom long non-coding RNA capture enhances detection sensitivity in different human sample types

Annelien MorlionCeline EveraertJustine NuytensEva HulstaertJo VandesompelePieter Mestdagh

A1 Journal Article in RNA BIOLOGY

Evaluating diagnostic accuracy of saliva sampling methods for severe acute respiratory syndrome coronavirus 2 reveals differential sensitivity and association with viral load

Pieter MestdaghMichel GillardSharonjit K. DhillonJean-Paul PirnayJeroen PoelsJan HellemansVeronik HutseCeline VermeirenMaxime BoutierVeerle De WeverPatrick SoentjensSarah DjebaraHugues MalonneEmmanuel AndréMarc ArbynJohn SmeragliaJo Vandesompele

A1 Journal Article in JOURNAL OF MOLECULAR DIAGNOSTICS

Exploring RNA signatures in human biofluids as novel liquid biopsy tool

Eva HulstaertPieter MestdaghLieve BrochezJo Vandesompele

Genome-wide study of the effect of blood collection tubes on the cell-free DNA methylome

Ruben Van PaemelAndries De KokerChrista CaggianoAnnelien MorlionPieter MestdaghBram De WildeJo VandesompeleKatleen De Preter

A1 Journal Article in EPIGENETICS

MISpheroID : a knowledgebase and transparency tool for minimum information in spheroid identity

Arne PeirsmanEva BlondeelTasdiq AhmedJasper AnckaertDominique AudenaertTom BoterbergKrisztina BuzasNeil CarragherGastone CastellaniFlávia CastroVirginie Dangles-MarieJohn DawsonPascal De TullioElly De VlieghereSandor DedeyneHerman DepypereAkos DiosdiRuslan DmitrievHelmut DolznigSuzanne FischerChristian GespachVera GoossensJyrki HeinoAn HendrixPeter HorvathLeoni A. Kunz-SchughartSebastiaan MaesChristophe MangodtPieter MestdaghSoňa MichlíkováMaria José OliveiraFrancesco PampaloniFilippo PiccininiCláudio PinheiroJennifer RahnStephen M. RobbinsElina SiljamäkiPatrick SteigemannGwen SysShuichi TakayamaAnna TeseiJoeri TulkensMichiel Van WaeyenbergeJo VandesompeleGlenn WagemansClaudia WeindorferNurten YigitNina ZablowskyMichele ZanoniPhillip BlondeelOlivier De Wever

A1 Journal Article in NATURE METHODS

Messenger RNA capture sequencing of extracellular RNA from human biofluids using a comprehensive set of spike-in controls

Eva HulstaertAnneleen DecockAnnelien MorlionCeline EveraertKimberly VerniersJustine NuytensNele NijsGary P. SchrothScott KuerstenStephen M. GrossPieter MestdaghJo Vandesompele

A2 Journal Article in STAR PROTOCOLS

Minimally invasive classification of pediatric solid tumors using reduced representation bisulfite sequencing of cell-free DNA : a proof-of-principle study

Ruben Van PaemelAndries De KokerCharlotte VandeputteLieke van ZogchelTim LammensGenevieve LaureysJo VandesompeleGudrun SchleiermacherMathieu ChicardNadine Van RoyAles VichaGodelieve A. M. TytgatNico CallewaertKatleen De PreterBram De Wilde

A1 Journal Article in EPIGENETICS

Recurrent chromosomal imbalances provide selective advantage to human embryonic stem cells under enhanced replicative stress conditions

Liselot MusStéphane Van HaverMina PopovicWim TrypsteenSteve LefeverNadja ZeltnerYudelca OgandoEva JacobsGeertrui DeneckerEllen SandersChristophe Van NesteSuzanne VanhauwaertBieke DecaestekerDieter DeforceFilip Van NieuwerburghPieter MestdaghJo VandesompeleBjörn MentenKatleen De PreterLorenz StuderBjörn HeindryckxKaat DurinckStephen RobertsFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Robust sequential biophysical fractionation of blood plasma to study variations in the biomolecular landscape of systemically circulating extracellular vesicles across clinical conditions

Glenn VergauwenJoeri TulkensCláudio PinheiroFrancisco Avila CobosSandor DedeyneMarie-Angélique De ScheerderLinos VandekerckhoveFrancis ImpensIlkka MiinalainenGeert BraemsKris GevaertPieter MestdaghJo VandesompeleHannelore DenysOlivier De WeverAn Hendrix

A1 Journal Article in JOURNAL OF EXTRACELLULAR VESICLES

Selection and validation of reference genes for accurate RT-qPCR gene expression normalization in cacao beans during fermentation

Jocelyn De WeverTibo De ConinckHelena EveraertEmmanuel Ohene AfoakwaFrauke CoppietersHayley RottiersStephen Yaw OpokuSamuel LoworKoen DewettinckJo VandesompeleSteve LefeverKathy Messens

A1 Journal Article in TREE GENETICS & GENOMES

Targeted therapy of TERT-rearranged neuroblastoma with BET bromodomain inhibitor and proteasome inhibitor combination therapy

Jingwei ChenChristopher NelsonMatthew WongAndrew E. TeePei Y. LiuTing LaJamie I. FletcherAlvin KamiliChelsea MayohChristoph BartenhagenToby N. TrahairNing XuNisitha JayatillekeMarie WongHui PengBernard AtmadibrataBelamy B. CheungQing LanTracy M. BryanPieter MestdaghJo VandesompeleValerie CombaretValentina BoevaJenny Y. WangIsabelle Janoueix-LeroseyMark J. CowleyKaren L. MacKenzieAlla DolnikovJinyan LiPatsie PollyGlenn M. MarshallRoger R. ReddelMurray D. NorrisMichelle HaberMatthias FischerXu D. ZhangHilda A. PickettTao Liu

A1 Journal Article in CLINICAL CANCER RESEARCH

The MicroRNA landscape of acute beta cell destruction in type 1 diabetic recipients of intraportal islet grafts

Geert MartensGeert StangéLorenzo PiemontiJasper AnckaertZhidong LingDaniel G. PipeleersFrans K. GorusPieter MestdaghDieter De SmetJo VandesompeleBart KeymeulenSarah Roels

A1 Journal Article in CELLS

The RNA Atlas expands the catalog of human non-coding RNAs

Lucia LorenziHua-Sheng ChiuFrancisco Avila CobosStephen GrossPieter-Jan VoldersRobrecht CannoodtJustine NuytensKatrien VanderheydenJasper AnckaertSteve LefeverAidan TayEric de BonyWim TrypsteenFien GysensMarieke VrommanTine GoovaertsThomas Birkballe HansenScott KuerstenNele NijsTom TaghonKarim VermaelenKen BrackeYvan SaeysTim De MeyerNandan P. DeshpandeGovardhan AnandeTing-Wen ChenMarc R. WilkinsAshwin UnnikrishnanKatleen De PreterJørgen KjemsJan KosterGary P. SchrothJo VandesompelePavel SumazinPieter Mestdagh

A1 Journal Article in NATURE BIOTECHNOLOGY

2020

Cautionary note on contamination of reagents used for molecular detection of SARS-CoV-2

JF HuggettV BenesSA BustinJA GarsonK HarrisM KammelM KubistaTD McHughJ Moran-GiladT NolanMW PfafflM SalitG ShipleyPM ValloneJo VandesompeleC WittwerH Zeichhardt

A1 Journal Article in CLINICAL CHEMISTRY

Charting extracellular transcriptomes in the human biofluid RNA atlas

Eva HulstaertAnnelien MorlionFrancisco Avila CobosKimberly VerniersJustine NuytensEveline Vanden EyndeNurten YigitJasper AnckaertAnja GeertsPieter HindryckxPeggy JacquesGuy BrusselleKen BrackeTania MaesThomas MalfaitThierry DerveauxVirginie NinclausCaroline Van CauwenberghKristien RoelensEllen RoetsDimitri HemelsoetKelly TillemanLieve BrochezS KuerstenLM SimonS KargA Kautzky-WillersM LeutnerC NöhammerO SlabyRW PrinsJ KosterSteve LefeverGP SchrothJo VandesompelePieter Mestdagh

A1 Journal Article in CELL REPORTS

Development of extracellular RNA sequencing technologies and applications for cancer diagnosis and monitoring

Celine EveraertPieter MestdaghJo Vandesompele

Distinct Notch1 and BCL11B requirements mediate human γδ/αβ T cell development

Anne-Catherine DolensKaat DurinckMarieke LavaertJoni Van der MeulenImke VelgheJelle De MedtsKarin WeeningJuliette RoelsKatrien De MulderPieter-Jan VoldersKatleen De PreterTessa KerreBart VandekerckhoveGeorges LeclercqJo VandesompelePieter MestdaghPieter Van VlierbergheFranki SpelemanTom Taghon

A1 Journal Article in EMBO REPORTS

Increased levels of systemic LPS-positive bacterial extracellular vesicles in patients with intestinal barrier dysfunction

Joeri TulkensGlenn VergauwenJan Van DeunEdward GeeurickxBert DhondtLien LippensMarie-Angélique De ScheerderIlkka MiinalainenPekka RappuBruno De GeestKatrien VandecasteeleDebby LaukensLinos VandekerckhoveHannelore DenysJo VandesompeleOlivier De WeverAn Hendrix

A1 Journal Article in GUT

Localization and expression of nuclear factor of activated T-cells 5 in myoblasts exposed to pro-inflammatory cytokines or hyperosmolar stress and in biopsies from myositis patients

Sandrine HerbeletElly De VlieghereAmanda GonçalvesBoel De PaepeKarsten SchmidtEline NysLaurens WeynantsJoachim WeisGert Van PeerJo VandesompeleOlivier De WeverJan De Bleecker

Bookchapter in Myokines, adipokines, cytokines in muscle pathophysiology

Minimally invasive classification of pediatric solid tumors using reduced representation bisulfite sequencing of cell-free DNA

Ruben Van PaemelAndries De KokerCharlotte VandeputteLieke Van ZogchelTim LammensGenevieve LaureysJo VandesompeleGudrun SchleiermacherMatthieu ChicardNadine Van RoyAles VichaGodelieve A. M. TytgatNico CallewaertBram De WildeKatleen De Preter

On the utility of RNA sample pooling to optimize cost and statistical power in RNA sequencing experiments

Alemu Takele AssefaJo VandesompeleOlivier Thas

A1 Journal Article in BMC GENOMICS

Performance assessment of total RNA sequencing of human biofluids and extracellular vesicles

Celine EveraertHetty HelsmoortelAnneleen DecockEva HulstaertRuben Van PaemelKimberly VerniersJustine NuytensJasper AnckaertNele NijsJoeri TulkensBert DhondtAn HendrixPieter MestdaghJo Vandesompele

SPsimSeq : semi-parametric simulation of bulk and single-cell RNA-sequencing data

Alemu Takele AssefaJo VandesompeleOlivier Thas

A1 Journal Article in BIOINFORMATICS

Statistical methods for testing differential gene expression in bulk and single-cell RNA sequencing data

Alemu Takele AssefaOlivier ThasJo Vandesompele

Substantial performance differences among RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control study-important considerations for liquid biopsies

Anneleen DecockJasper AnckaertCeline EveraertJustine NuytensScott KuerstenAn HendrixJo VandesompelePieter MestdaghBert DhondtRuben Van PaemelKimberly VerniersGary SchrothCarolina FierroNurten YigitKathleen SchoofsAnnelien MorlionJill DeleuEva HulstaertFrancisco Avila CobosNele NijsEveline Vanden EyndeHetty HelsmoortelOlivier De WeverAnnouck Philippron

The digital MIQE guidelines update : minimum information for publication of quantitative digital PCR experiments for 2020

Jim F. HuggettAlexandra S. WhaleWard De SpiegelaereAfif Abdel NourYoung-Kyung BaeVladimir BenesDaniel BurkeMegan ClevelandPhilippe CorbisierAlison S. DevonshireLianhua DongDaniela DrandiCarole A. FoyJeremy A. GarsonHua-Jun HeJan HellemansMikael KubistaAntoon LievensMike G. MakrigiorgosMojca MilavecReinhold D. MuellerTania NolanDenise M. O'SullivanMichael W. PfafflStefan RoedigerErica L. RomsosGregory L. ShipleyValerie TalyAndreas UntergasserCarl T. WittwerStephen A. BustinJo Vandesompele

A1 Journal Article in CLINICAL CHEMISTRY

Vapor nanobubble is the more reliable photothermal mechanism for inducing endosomal escape of siRNA without disturbing cell homeostasis

Juan FraireGaëlle HouthaeveJing LiuLaurens RaesLotte VermeulenStephan StremerschToon BransGerardo Garcia-Diaz BarrigaSarah De KeulenaerFilip Van NieuwerburghRiet De RyckeJo VandesompelePieter MestdaghKoen RaemdonckWinnok H. De VosStefaan De SmedtKevin Braeckmans

A1 Journal Article in JOURNAL OF CONTROLLED RELEASE

When DNA gets in the way : a cautionary note for DNA contamination in extracellular RNA-seq studies

Jasper VerwiltWim TrypsteenRuben Van PaemelKatleen De PreterMD GiraldezPieter MestdaghJo Vandesompele

A1 Journal Article in PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

2019

Benchmarking the impact of data transformation, pre-processing and choice of method in the computational deconvolution of transcriptomics data

Francisco Avila CobosJosé Alquicira-HernandezJo VandesompeleJoseph PowellPieter MestdaghKatleen De Preter

Cost-effective and robust genotyping using double-mismatch allele-specific quantitative PCR

Steve LefeverAli RihaniJoni Van der MeulenFilip PattynTom Van MaerkenJo Van DorpeJan HellemansJo Vandesompele

A1 Journal Article in SCIENTIFIC REPORTS

Deciphering complete cancer transcriptomes from bulk to single cell level

Karen VerboomFranki SpelemanJo VandesompeleKaat Durinck

Discovery and validation of a serum microRNA signature to characterize oligo- and polymetastatic prostate cancer : not ready for prime time

Bert DhondtElise De BleserTom ClaeysSarah BuelensNicolaas LumenJo VandesompeleAnneleen BeckersValerie FonteyneKim Van der EeckenAurélie De BruyckerJérôme PaulPierre GrammePiet Ost

A1 Journal Article in WORLD JOURNAL OF UROLOGY

Dramatic differences in RNA purification kit performance in the extracellular RNA quality control study : important considerations for liquid biopsies

Annelien MorlionJasper AnckaertFrancisco Avila CobosAnneleen DecockOlivier De WeverBert DhondtCeline EveraertCarolina FierroHetty HelsmoortelAn HendrixEva HulstaertScott KuerstenPieter MestdaghNele NijsJustine NuytensAnnouck PhilippronGary SchrothEveline Vanden EyndeJo VandesompeleRuben Van PaemelKimberly VerniersNurten Yigit

Dramatic differences in RNA purification kit performance in the extracellular RNA quality control study : important considerations for liquid biopsies

Annelien MorlionJasper AnckaertFrancisco Avila CobosAnneleen DecockOlivier De WeverBert DhondtCeline EveraertCarolina FierroHetty HelsmoortelAn HendrixEva HulstaertScott KuerstenPieter MestdaghNele NijsJustine NuytensAnnouck PhilippronGary SchrothEveline Vanden EyndeJo VandesompeleRuben Van PaemelKimberly VerniersNurten Yigit

Effect of methylprednisolone on NFAT5 in Duchenne muscular dystrophy fibroblasts

Sandrine HerbeletAmanda GonçalvesJo VandesompeleJan De Bleecker

Evaluating the applicability of mouse SINEs as an alternative normalization approach for RT-qPCR in brain tissue of the APP23 model for Alzheimer’s disease

Jana JanssensRené CransKathleen Van CraenenbroeckJo VandesompeleChristophe StoveDebby Van DamPeter P. De Deyn

A1 Journal Article in JOURNAL OF NEUROSCIENCE METHODS

Evaluating the impact of RNA purification kit and blood collection tube in the extracellular RNA quality control study : important considerations for liquid biopsies

Annelien MorlionJasper AnckaertFrancisco Avila CobosAnneleen DecockJill DeleuOlivier De WeverBert DhondtCeline EveraertCarolina FierroHetty HelsmoortelAn HendrixEva HulstaertScott KuerstenPieter MestdaghNele NijsJustine NuytensAnnouck PhilippronKathleen SchoofsGary SchrothEveline Vanden EyndeJo VandesompeleRuben Van PaemelKimberly VerniersNurten Yigit

Integrative analysis identifies lincRNAs up- and downstream of neuroblastoma driver genes

Dries RombautHua-Sheng ChiuBieke DecaestekerCeline EveraertNurten YigitAgathe PelthierIsabelle JanoueixChristophe BartenhagenMatthias FischerStephen RobertsNicky D'HaeneKatleen De PreterFranki SpelemanGeertrui DeneckerPavel SumazinJo VandesompeleSteve LefeverPieter Mestdagh

A1 Journal Article in SCIENTIFIC REPORTS

LNCipedia 5 : towards a reference set of human long non-coding RNAs

Pieter-Jan VoldersJasper AnckaertKenneth VerheggenJustine NuytensLennart MartensPieter MestdaghJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Long noncoding RNA expression profiling in cancer : challenges and opportunities

Lucia LorenziFrancisco Avila CobosAnneleen DecockCeline EveraertHetty HelsmoortelSteve LefeverKaren VerboomPieter-Jan VoldersFranki SpelemanJo VandesompelePieter Mestdagh

A1 Journal Article in GENES CHROMOSOMES & CANCER

Minimally invasive classification of pediatric solid tumors using reduced representation bisulfite sequencing of cell-free DNA : a proof-of-principle study

Ruben Van PaemelAndries De KokerCharlotte VandeputteLieke van ZogchelTim LammensGenevieve LaureysJo VandesompeleGudrun SchleiermacherMathieu ChicardNadine Van RoyAles VichaGodelieve A. M. TytgatNico CallewaertKatleen De PreterBram De Wilde

Non-invasive classification of pediatric tumor types using reduced representation bisulfite sequencing of cell-free DNA : a proof-of-principle study

Ruben Van PaemelA. De KokerCharlotte VandeputteL. M. J. van ZogchelM. ChicardTim LammensJo VandesompeleNadine Van RoyG. SchleiermacherG. A. M. TytgatA. VichaN. CallewaertKatleen De PreterBram De Wilde

PCR based target enrichment for variant confirmation, gene panels and multiplex PCR sample tracking in a whole exome sequencing workflow

Frauke CoppietersThalia Van LaethemMatthias De SmetPaul CouckeElfride De BaereKathleen ClaesBjörn MentenJo VandesompeleSteve Lefever

Performance assessment of total RNA sequencing of human biofluids and extracellular vesicles

Celine EveraertHetty HelsmoortelAnneleen DecockEva HulstaertRuben Van PaemelKimberly VerniersJustine NuytensJasper AnckaertNele NijsJoeri TulkensBert DhondtAn HendrixPieter MestdaghJo Vandesompele

A1 Journal Article in SCIENTIFIC REPORTS

Purification of high-quality RNA from a small number of fluorescence activated cell sorted zebrafish cells for RNA sequencing purposes

Siebe LoontiensLisa DepestelSuzanne VanhauwaertGivani DewynCharlotte GistelinckKaren VerboomWouter Van LoockeFilip MatthijssensAndy WillaertJo VandesompeleFranki SpelemanKaat Durinck

A1 Journal Article in BMC GENOMICS

RNA-based liquid biopsies for better clinical management of Barrett’s esophagus and esophageal adenocarcinoma

Kathleen SchoofsAnnouck PhilippronPhilippe NafteuxLieven DepyperePiet PattynJo VandesompeleKatleen De Preter

RNAcentral : a hub of information for non-coding RNA sequences

Blake A SweeneyAnton I PetrovBoris BurkovRobert D FinnAlex BatemanMaciej SzymanskiWojciech M KarlowskiJan GorodkinStefan E SeemannJamie J CannoneRobin R GutellPetra FeySiddhartha BasuSimon KayGuy CochraneKostantinos BillisDavid EmmertSteven J MarygoldRachael P HuntleyRuth C LoveringAdam FrankishPatricia P ChanTodd M LoweElspeth BrufordRuth SealJo VandesompelePieter-Jan VoldersMaria ParaskevopoulouLina MaZhang ZhangSam Griffiths-JonesJanusz M BujnickiPietro BoccalettoJudith A BlakeCarol J BultRunsheng ChenYi ZhaoValerie WoodKim RutherfordElena RivasJames ColeStanley J F LaulederkindMary ShimoyamaMarc E GillespieMarija Orlic-MilacicIoanna KalvariEric NawrockiStacia R EngelJ Michael CherrySILVA TeamTanya Z BerardiniArtemis HatzigeorgiouDimitra KaragkouniKevin HowePaul DavisMarcel DingerShunmin HeMaki YoshihamaNaoya KenmochiPeter F StadlerKelly P Williams

A1 Journal Article in NUCLEIC ACIDS RESEARCH

SMARTer single cell total RNA sequencing

Karen VerboomCeline EveraertNathalie BolducKenneth LivakNurten YigitDries RombautJasper AnckaertMorten VenøJørgen KjemsFranki SpelemanPieter MestdaghJo Vandesompele

SMARTer single cell total RNA-sequencing

Karen VerboomCeline EveraertNathalie BolducKenneth LivakNurten YigitDries RombautJasper AnckaertSimon LeeMorten VenøJørgen KjemsFranki SpelemanPieter MestdaghJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Searching for liquid RNA biomarkers for esophageal adenocarcinoma

Kathleen SchoofsAnnouck PhilippronPhilippe NafteuxLieven DepyperePiet PattynJo VandesompeleKatleen De Preter

The RNA Atlas, a single nucleotide resolution map of the human transcriptome

Lucia LorenziHua-Sheng ChiuFrancisco Avila CobosStephen GrossPieter-Jan VoldersRobrecht CannoodtJustine NuytensKatrien VanderheydenJasper AnckaertSteve LefeverTine GoovaertsThomas Birkballe HansenScott KuerstenNele NijsTom TaghonKarim VermaelenKen BrackeYvan SaeysTim De MeyerNandan DeshpandeGovardhan AnandeTing-Wen ChenMarc R. WilkinsAshwin UnnikrishnanKatleen De PreterJørgen KjemsJan KosterGary P. SchrothJo VandesompelePavel SumazinPieter Mestdagh

The generation and use of recombinant extracellular vesicles as biological reference material

Edward GeeurickxJoeri TulkensBert DhondtJan Van DeunLien LippensGlenn VergauwenElisa HeyrmanDelphine De SutterKris GevaertFrancis ImpensIlkka MiinalainenPieter-Jan Van BockstalThomas De BeerMarca HM WaubenEsther NM Nolte-‘t-HoenKatarzyna BlochJohannes V SwinnenEdwin van der PolRienk NieuwlandGeert BraemsNico CallewaertPieter MestdaghJo VandesompeleHannelore DenysSven EyckermanOlivier De WeverAn Hendrix

A1 Journal Article in NATURE COMMUNICATIONS

The human biofluid RNA atlas : expanding the liquid biopsy field beyond the blood stream

Eva HulstaertKimberly VerniersJustine NuytensEveline Vanden EyndeNurten YigitJasper AnckaertAnja GeertsPeggy JacquesGuy BrusselleThierry DerveauxVirginie NinclausCaroline Van CauwenberghKristien RoelensEllen RoetsPaul RamaekersThomas MalfaitDimitri HemelsoetPieter HindryckxJo VandesompelePieter Mestdagh

The long noncoding RNA lncNB1 promotes tumorigenesis by interacting with ribosomal protein RPL35

Pei Y LiuAndrew E TeeGiorgio MilazzoKatherine M HannanJesper MaagSujanna MondalBernard AtmadibrataNenad BartonicekHui PengNicholas HoChelsea MayohRoberto CiaccioYuting SunMichelle J HendersonJixuan GaoCeline EveraertAmy J HulmeMatthew WongQing LanBelamy B CheungLeming ShiJenny Y WangThorsten SimonMatthias FischerXu D ZhangGlenn M MarshallMurray D NorrisMichelle HaberJo VandesompeleJinyan LiPieter MestdaghRoss D HannanMarcel E DingerGiovanni PeriniTao Liu

A1 Journal Article in NATURE COMMUNICATIONS

The proliferation of Duchenne muscular dystrophy fibroblasts cultured under inflammatory conditions is reduced by methylprednisolone through modulation of NFAT5 localization in the cell

Sandrine HerbeletAmanda GonçalvesJo VandesompeleJan De Bleecker

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenBoel De PaepeLouis DelhayeFariba NematiDidier DecaudinSven EyckermanRudy Van CosterJo VandesompelePieter Mestdagh

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenBoel De PaepeLouis DelhayeFariba NematiDidier DecaudinSven EyckermanRudy Van CosterJo VandesompelePieter Mestdagh

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenBoel De PaepeLouis DelhayeFariba NematiDidier DecaudinSven EyckermanRudy Van CosterJo VandesompelePieter Mestdagh

2018

A comprehensive inventory of TLX1 controlled long non-coding RNAs in T-cell acute lymphoblastic leukemia through polyA+ and total RNA sequencing

Karen VerboomWouter Van LoockePieter-Jan VoldersBieke DecaestekerFrancisco Avila CobosSimon BornscheinCharles E de BockZeynep Kalender AtakEmmanuelle ClappierStein AertsJan CoolsJean SoulierTom TaghonPieter Van VlierbergheJo VandesompeleFranki SpelemanKaat Durinck

A1 Journal Article in HAEMATOLOGICA

A high-throughput 3’ UTR reporter screening identifies microRNA interactomes of cancer genes

Gert Van PeerEvelien MetsShana ClaeysInes De PuntSteve LefeverMaté OngenaertPieter RondouFranki SpelemanPieter MestdaghJo Vandesompele

A1 Journal Article in PLOS ONE

A mechanistic classification of clinical phenotypes in neuroblastoma

S AckermannM CartolanoB HeroA RoderwieserC BartenhagenC RosswogF HertwigT SimonA EggertFranki SpelemanR BuettnerR O'sullivanR ThomasF BertholdJo VandesompeleA SchrammF WestermannJ SchulteM PeiferM Fischer

A mechanistic classification of clinical phenotypes in neuroblastoma

S AckermannM CartolanoB HeroA RoderwieserC BartenhagenC RosswogF HertwigT SimonA EggertFranki SpelemanR BuettnerR O'SullivanR ThomasF BertholdJo VandesompeleA SchrammF WestermannJ SchulteM PeiferM Fischer

A mechanistic classification of clinical phenotypes in neuroblastoma.

Sandra AckermannMaria CartolanoBarbara HeroAnne WelteYvonne KahlertAndrea RoderwieserChristoph BartenhagenEsther WalterJudith GechtLaura KerschkeRuth VollandRoopika MenonJohannes M HeuckmannMoritz GartlgruberSabine HartliebKai-Oliver HenrichKonstantin OkonechnikovJanine AltmüllerPeter NürnbergSteve LefeverBram De WildeFrederik SandFakhera IkramCarolina RosswogJanina FischerJessica TheissenFalk HertwigAatur D SinghiThorsten SimonWenzel VogelSven PernerBarbara KrugMatthias SchmidtSven RahmannViktor AchterUlrich LangChristian VokuhlMonika OrtmannReinhard BüttnerAngelika EggertFranki SpelemanRoderick J O'SullivanRoman K ThomasFrank BertholdJo VandesompeleAlexander SchrammFrank WestermannJohannes H SchulteMartin PeiferMatthias Fischer

A1 Journal Article in SCIENCE

Assessing the biological signal of different RNA fractions for computational deconvolution of healthy tissues

Francisco Avila CobosLucia LorenziJo VandesompeleGary SchrothKatleen De PreterPieter Mestdagh

Assessment of risk refinement strategies for improved clinical outcome of neuroblastoma patients

Fjoralba ZekaJo VandesompelePieter Mestdagh

Circulating microRNA biomarkers for metastatic disease in neuroblastoma patients

Fjoralba ZekaAnneleen DecockAlan Van GoethemKatrien VanderheydenFleur DemuynckTim LammensHetty HelsmoortelJoëlle VermeulenRosa NogueraAna P. BerbegallValérie CombaretGudrun SchleiermacherGenevieve LaureysAlexander SchrammJohannes H. SchulteSven RahmannJulie Bienertová-VaškůPavel MazánekMarta JeisonShifra AshMichael D. HogartyMirthala Moreno-SmithEveline BarbieriJason ShohetFrank BertholdTom Van MaerkenFranki SpelemanMatthias FischerKatleen De PreterPieter MestdaghJo Vandesompele

A1 Journal Article in JCI INSIGHT

Circulating microRNA biomarkers for metastatic neuroblastoma

Fjoralba ZekaAlan Van GoethemTim LammensAnneleen DecockHetty HelsmoortelGenevieve LaureysMichael HogartyEveline BarbieriJason ShohetFrank BertholdFranki SpelemanMatthias FischerTom Van MaerkenKatleen De PreterPieter MestdaghJo Vandesompele

Comparative analysis of naive, primed and ground state pluripotency in mouse embryonic stem cells originating from the same genetic background

Sabitri GhimireMargot Van der JeughtJitesh NeupaneMatthias S RoostJasper AnckaertMina PopovicFilip Van NieuwerburghPieter MestdaghJo VandesompeleDieter DeforceBjörn MentenSusana Chuva de Sousa LopesPetra De SutterBjörn Heindryckx

A1 Journal Article in SCIENTIFIC REPORTS

Computational deconvolution of transcriptomics data from mixed cell populations

Francisco Avila CobosJo VandesompelePieter MestdaghKatleen De Preter

A1 Journal Article in BIOINFORMATICS

Cross-cohort analysis identifies a TEAD4-MYCN positive-feedback loop as the core regulatory element of high-risk neuroblastoma

Presha RajbhandariGonzalo LopezClaudia CapdevilaBeatrice SalvatoriJiyang YuRuth Rodriguez-BarruecoDaniel MartinezMark YarmarkovichNina Weichert-LeaheyBrian J AbrahamMariano J AlvarezArchana IyerJo Lynne HarenzaDerek OldridgeKatleen De PreterJan KosterShahab AsgharzadehRobert C SeegerJun S WeiJaved KhanJo VandesompelePieter MestdaghRogier VersteegA Thomas LookRichard A YoungAntonio IavaroneAnna LasorellaJose M SilvaJohn M MarisAndrea Califano

A1 Journal Article in CANCER DISCOVERY

Data analysis methods for digital PCR quantification

Matthijs VynckOlivier ThasJo Vandesompele

Detecting long non-coding RNA biomarkers in prostate cancer liquid biopsies : hype or hope?

Hetty HelsmoortelCeline EveraertNicolaas LumenPiet OstJo Vandesompele

A2 Journal Article in NON-CODING RNA RESEARCH

Differential gene expression analysis of RNA-sequencing data : evaluation of DGE tools for long non-coding RNA-sequencing data

Alemu Takele AssefaJo VandesompeleOlivier Thas

Differential gene expression analysis tools exhibit substandard performance for long non-coding RNA-sequencing data

Alemu Takele AssefaKatrijn De PaepeCeline EveraertPieter MestdaghOlivier ThasJo Vandesompele

A1 Journal Article in GENOME BIOLOGY

Expressed repetitive elements are broadly applicable reference targets for normalization of reverse transcription-qPCR data in mice

Marjolijn RenardSuzanne VanhauwaertMarine VanhomwegenAli RihaniNiels VandammeSteven GoossensGeert BerxPieter Van VlierbergheJody J HaighBieke DecaestekerJolien Van LaereIrina LambertzFranki SpelemanJo VandesompeleAndy Willaert

A1 Journal Article in SCIENTIFIC REPORTS

Fusion gene detection and variant calling in formalin-fixed paraffin-embedded tumor tissue using mRNA capture sequencing

Anneleen DecockDavid CreytensJoni Van der MeulenSandra SteyaertKimberly VerniersKatrien VanderheydenManuel LuypaertThibaut D’huyvetterIsabelle RottiersJo Van DorpeJo Vandesompele

In silico discovery of a FOXM1 driven embryonal signaling pathway in therapy resistant neuroblastoma tumors

Suzanne VanhauwaertBieke DecaestekerSara De BrouwerCarina LeonelliKaat DurinckPieter MestdaghJo VandesompeleKaren SermonGeertrui DeneckerChristophe Van NesteFranki SpelemanKatleen De Preter

A1 Journal Article in SCIENTIFIC REPORTS

Isolation of high-quality RNA from fluorescent activated cell sorted (FACS) zebrafish cells for RNA sequencing purposes

Siebe LoontiensSuzanne VanhauwaertLisa DepestelGivani DewynCharlotte GistelinckKaren VerboomEls JanssensFilip MatthijssensAndy WillaertJo VandesompeleFranki SpelemanKaat Durinck

Localization and expression of nuclear factor of activated T-cells 5 in myoblasts exposed to pro-inflammatory cytokines or hyperosmolar stress and in biopsies from myositis patients

Sandrine HerbeletElly De VlieghereAmanda GonçalvesBoel De PaepeKarsten SchmidtEline NysLaurens WeynantsJoachim WeisGert Van PeerJo VandesompeleJens SchmidtOlivier De WeverJan De Bleecker

A1 Journal Article in FRONTIERS IN PHYSIOLOGY

Longitudinal evaluation of murine serum microRNAs as biomarkers for neuroblastoma burden and therapeutic TP53 reactivation

Alan Van GoethemNurten YigitCeline EveraertMyrthala Moreno-SmithSanjeev A VasudevanFjoralba ZekaFleur DemunckEveline BarbieriFranki SpelemanPieter MestdaghJason ShohetJo VandesompeleTom Van Maerken

Non-invasive differential diagnosis of neuroblastoma with other paediatric solid tumors using methylation profiling of circulating cell-free DNA

Ruben Van PaemelAnneleen DecockCharlotte VandeputteTim LammensGenevieve LaureysFranki SpelemanWim Van CriekingeNadine Van RoyJo VandesompeleKatleen De PreterBram De Wilde

Non-invasive differential diagnosis of neuroblastoma with other paediatric solid tumors using methylation profiling of circulating cell-free DNA

Ruben Van PaemelAnneleen DecockCharlotte VandeputteTim LammensGenevieve LaureysFranki SpelemanWim Van CriekingeNadine Van RoyJo VandesompeleKatleen De PreterBram De Wilde

Non-invasive differential diagnosis of neuroblastoma with other paediatric solid tumors using methylation profiling of circulating cell-free DNA

Ruben Van PaemelAnneleen DecockCharlotte VandeputteTim LammensGenevieve LaureysFranki SpelemanWim Van CriekingeNadine Van RoyJo VandesompeleKatleen De PreterBram De Wilde

On determining the power of digital PCR experiments

Matthijs VynckJo VandesompeleOlivier Thas

A1 Journal Article in ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Pharmacological restoration of tumour suppressor protein p53 in neuroblastoma : seeking synergy and non-invasive biomarkers

Alan Van GoethemJo VandesompeleTom Van Maerken

A2 Journal Article in BELGIAN JOURNAL OF MEDICAL ONCOLOGY

Prognostic and therapeutic implications of circulating androgen receptor gene copy number in prostate cancer patients using droplet digital polymerase chain reaction

Sarah BuelensTom ClaeysBert DhondtFilip PoelaertMatthijs VynckNurten YigitOlivier ThasPiet OstJo VandesompeleNicolaas LumenCandy Kumps

A1 Journal Article in CLINICAL GENITOURINARY CANCER

Recombinant extracellular vesicles : biological reference material to standardize extracellular vesicle research

Edward GeeurickxElisa HeyrmanJan Van DeunLien LippensJoeri TulkensBert DhondtGlenn VergauwenKris GevaertFrancis ImpensIlkka MiinalainenPieter-Jan Van BockstalThomas De BeerMarca WaubenEster Nolte-'t HoenJohan SwinnenSven EyckermanPieter MestdaghJo VandesompeleGeert BraemsHannelore DenysMarc BrackeOlivier De WeverAn Hendrix

Recombinant extracellular vesicles : biological reference material to standardize extracellular vesicle research

Edward GeeurickxElisa HeyrmanJan Van DeunLien LippensJoeri TulkensBert DhondtGlenn VergauwenKris GevaertFrancis ImpensIlkka MiinalainenPieter-Jan Van BockstalThomas De BeerMarca WaubenEsther Nolte-'t-HoenJohan SwinnenSven EyckermanPieter MestdaghJo VandesompeleGeert BraemsHannelore DenysOlivier De WeverAn Hendrix

TLX1 controlled long non-coding RNAs in T-cell acute lymphoblastic leukemia

Karen VerboomWouter Van LoockeJo VandesompeleNiels VandammeGeert BerxLiesbet MartensYvan SaeysPieter Van VlierbergheFranki SpelemanKaat Durinck

Targeted genomic screen reveals focal long non-coding RNA copy number alterations in cancer cell lines

Pieter-Jan VoldersSteve LefeverShalina BauteJustine NuytensKatrien VanderheydenBjörn MentenPieter MestdaghJo Vandesompele

A2 Journal Article in NON-CODING RNA

The TLX1 oncogene modules the enhancer RNA landscape in T-ALL

Karen VerboomWouter Van LoockeJo VandesompeleNiels VandammeGeert BerxYvan SaeysLiesbet MartensPieter Van VlierbergheFranki SpelemanKaat Durinck

The cancer-associated microprotein CASIMO1 controls cell proliferation and interacts with squalene epoxidase modulating lipid droplet formation

Maria Polycarpou-SchwarzMatthias GroßPieter MestdaghJohanna SchottStefanie E GrundCatherina HildenbrandJoachim RomSebastian AulmannHans-Peter SinnJo VandesompeleSven Diederichs

A1 Journal Article in ONCOGENE

The extracellular RNA quality control (exRNAQC) study : controlling pre-analytical variables of RNA sequencing in blood-based precision medicine

Francisco Avila CobosAnneleen DecockKatleen De PreterOlivier De WeverBram De WildeBert DhondtCeline EveraertCarolina FierroHetty HelsmoortelAn HendrixEva HulstaertPieter MestdaghNele NijsAnnouck PhilippronThomas PiofczykJo VandesompeleRuben Van PaemelKimberly VerniersNurten Yigit

The mutational landscape of MYCN, Lin28b and ALKF1174L driven murine neuroblastoma mimics human disease

Bram De WildeAnneleen BeckersSven LindnerKristina AlthoffKatleen De PreterPauline DepuydtPieter MestdaghTom SanteSteve LefeverFalk HertwigZhiyu PengLe-ming ShiSangkyun LeeElien VandermarliereLennart MartensBjörn MentenAlexander SchrammMatthias FischerJohannes SchulteJo VandesompeleFranki Speleman

A2 Journal Article in ONCOTARGET

The neuroblastoma-specific lncRNA NESPR activates PHOX2B expression and is essential for neuroblastoma cell survival

Dries RombautTiago França BrazaoLouis DelhayeEva D'haeneGiorgio MilazzoRoberto CiaccioNurten YigitCeline EveraertMatthias FischerThorsten SimonJohan Van NesRogier VersteegBjörn MentenGiovanni PerriniJo VandesompeleSven EyckermanSteve LefeverPieter Mestdagh

The ornithine decarboxylase G316A promoter polymorphism impacts neuroblastoma clinical outcome and may identify patients particularly susceptible to polyamine inhibition

Laura GambleStefania PurgatoSimone Di GiacomoAmanda RussellPaolo PiginiEmanuele ValliLesley AshtonTom Van MaerkenJo VandesompeleRogier VersteegAngelika EggertRosa NogueraRay StallingsGian Paolo ToniniKwun FongWendy LondonMichael D HogartyGiovanni PeriniMichelle HaberMurray Norris

The potential of methylome sequencing in the diagnostic work : up of pediatric solid tumors

Ruben Van PaemelCharlotte VandeputteBram De WildeKatleen De PreterNadine Van RoyJo VandesompeleTim LammensWim Van CriekingeP. UltzNico CallewaertArthur DekokerAnneleen Decock

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenBoel De PaepeFariba NematiSergio Roman RomanRudy Van CosterJo VandesompelePieter Mestdagh

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenBoel De PaepeFariba NematiSergio Roman RomanRudy Van CosterJo VandesompelePieter Mestdagh

Zipper plot : visualizing transcriptional activity of genomic regions

Francisco Avila CobosJasper AnckaertPieter-Jan VoldersCeline EveraertDries RombautJo VandesompeleKatleen De PreterPieter Mestdagh

2017

A unified censored normal regression model for qPCR differential gene expression analysis

Peter PipelersLieven ClementMatthijs VynckJan HellemansJo VandesompeleOlivier Thas

A1 Journal Article in PLOS ONE

Androgen receptor gene copy number detection using droplet digital PCR and its therapeutic consequences in prostate cancer patients

Sarah BuelensTom ClaeysCandy KumpsBert DhondtFilip PoelaertNurten YigitMatthijs VynckOlivier ThasPiet OstJo VandesompeleNicolaas Lumen

Differential expression of lncRNAs during the HIV replication cycle: an underestimated layer in the HIV-host interplay (vol 6, 36111, 2016)

Wim TrypsteenPejman MohammadiClarissa Van HeckePieter MestdaghSteve LefeverYvan SaeysPieter De BleserJo VandesompeleAngela CiuffiLinos VandekerckhoveWard De Spiegelaere

Direct comparison of distinct naive pluripotent states in human embryonic stem cells

Sharat WarrierMargot Van der JeughtGalbha DuggalLaurentijn TillemanElla SutherlandJasin TaelmanMina PopovicSylvie LiermanSusana Marina Chuva de Sousa LopesAnn Van SoomLuc PeelmanFilip Van NieuwerburghDieter De ConinckBjörn MentenPieter MestdaghJo VandesompeleDieter DeforcePetra De SutterBjörn Heindryckx

A1 Journal Article in NATURE COMMUNICATIONS

Direct detection of circulating microRNAs unveiled the absence of microRNA-218-5p in smoker subjects : reply

Griet ConickxPieter MestdaghJo VandesompeleGuy BrusselleKen Bracke

A1 Journal Article in AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Dual targeting of MDM2 and BCL2 as a therapeutic strategy in neuroblastoma

Alan Van GoethemNurten YigitMyrthala Moreno-SmithSanjeev A VasudevanEveline BarbieriFranki SpelemanJason ShohetJo VandesompeleTom Van Maerken

A1 Journal Article in ONCOTARGET

EV-TRACK : transparent reporting and centralizing knowledge in extracellular vesicle research

Jan Van DeunPieter MestdaghPatrizia AgostinisÖzden AkaySushma AnandJasper AnckaertZoraida Andreu MartinezTine BaetensEls BegheinLaurence BertierGeert BerxJanneke BoereStephanie BoukourisMichel BremerDominik BuschmannJames B ByrdClara CasertLesley ChengAnna CmochDelphine DavelooseEva De SmedtSeyma DemirsoyVictoria DepoorterBert DhondtTom A P DriedonksAleksandra DudekAbdou ElsharawyIlaria FlorisAndrew D FoersKathrin GärtnerAbhishek D GargEdward GeeurickxJan GettemansFarzaneh GhazaviBernd GiebelTom Groot KormelinkGrace HancockHetty HelsmoortelAndrew F HillVincent HyenneHina KalraDavid KimJoanna KowalSandra KraemerPetra LeidingerCarina LeonelliYaxuan LiangLien LippensShu LiuAlessandra Lo CiceroShaun MartinSuresh MathivananPrabhu MathiyalaganTámas MatusekGloria MilaniMarta Monguió-TortajadaLiselot MusDillon C MuthAndrea NémethEsther N M Nolte-'t HoenLorraine O'DriscollRoberta PalmulliMichael W PfafflBjarke Primdal-BengtsonErminia RomanoQuentin RousseauSusmita SahooNatalia SampaioMonisha SamuelBenjamin SciclunaBieke SoenAnneleen SteelsJohannes V SwinnenMaarit TakataloSafia ThaminyClotilde ThéryJoeri TulkensIsabel Van AudenhoveSusanne van der GreinAlan Van GoethemMartijn J van HerwijnenGuillaume Van NielNadine Van RoyAlexander R Van VlietNiels VandammeSuzanne VanhauwaertGlenn VergauwenFrederik VerweijAnnelynn WallaertMarca WaubenKenneth W WitwerMarijke I ZonneveldOlivier De WeverJo VandesompeleAn Hendrix

A1 Journal Article in NATURE METHODS

Evaluation of relative quantification of alternatively spliced transcripts using droplet digital PCR

Mattias Van HeetveldeWouter Van LoockeWim TrypsteenAnnelot BaertKatrien VanderheydenBrecht CrombezJo VandesompeleKim De LeeneerKathleen Claes

A2 Journal Article in BIOMOLECULAR DETECTION AND QUANTIFICATION

High-throughput PCR assay design for targeted resequencing using primerXL

Steve LefeverFilip PattynBram De WildeFrauke CoppietersSarah De KeulenaerJan HellemansJo Vandesompele

A1 Journal Article in BMC BIOINFORMATICS

Influence of microRNAs and long non-coding RNAs in cancer chemoresistance

Duncan AyersJo Vandesompele

A1 Journal Article in GENES

Long non-coding RNAs in cutaneous melanoma : clinical perspectives

Eva HulstaertLieve BrochezPieter-Jan VoldersJo VandesompelePieter Mestdagh

A1 Journal Article in ONCOTARGET

MicroRNA expression analysis using small RNA sequencing discovery and RT-qPCR-based validation

Alan Van GoethemPieter MestdaghTom Van MaerkenJo Vandesompele

Bookchapter in Functional genomics : methods and protocols

MicroRNA profiling reveals a role for microRNA-218-5p in the pathogenesis of chronic obstructive pulmonary disease

Griet ConickxPieter MestdaghFrancisco Avila CobosFien VerhammeTania MaesBart M VanaudenaerdeLeen SeysLies LahousseRichard Y KimAlan C HsuPeter A WarkPhilip M HansbroGuy JoosJo VandesompeleKen BrackeGuy Brusselle

A1 Journal Article in AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

MicroRNA-184 is a downstream effector of albuminuria driving renal fibrosis in rats with diabetic nephropathy

Cristina ZanchiDaniela MacconiPiera TrionfiniSusanna TomasoniDaniela RottoliMonica LocatelliMichael RudnickiJo VandesompelePieter MestdaghGiuseppe RemuzziAriela BenigniCarlamaria Zoja

A1 Journal Article in DIABETOLOGIA

Model-based classification for digital PCR : your Umbrella for rain

Bart JacobsEls GoetghebeurJo VandesompeleAriane De GanckNele NijsAnneleen BeckersNina PapazovaNancy H RoosensLieven Clement

A1 Journal Article in ANALYTICAL CHEMISTRY

Noncoding after all : biases in proteomics data do not explain observed absence of lncRNA translation products

Kenneth VerheggenPieter-Jan VoldersPieter MestdaghGerben MenschaertPetra Van DammeKris GevaertLennart MartensJo Vandesompele

A1 Journal Article in JOURNAL OF PROTEOME RESEARCH

Nonparametric simulation to evaluate the performance of statistical methods for differential gene expression analysis of long non-coding RNA-seq data in cancer studies

Alemu Takele AssefaOlivier ThasJo VandesompeleKatrijn De Paepe

PAN-cancer identification of ncRNAs with a high therapeutic and diagnostic potential

Celine EveraertJo VandesompelePieter Mestdagh

Pancreatic cancer : hope to improve prognosis through thorough analysis of DNA and RNA biomarkers for detection and therapy monitoring in liquid biopsies

Greet WiemeFrederik BerrevoetAude VanlanderMarc De ManKaren GeboesJo Van DorpeAnne HoorensMalaïka Van Der LindenJurgen Van LimmenAnn De BruyneCeline EveraertAnneleen DecockJo VandesompeleBjörn MentenKathleen Claes

Quality control of digital PCR assays and platforms

Matthijs VynckJo VandesompeleOlivier Thas

A1 Journal Article in ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Restoration of p53 in neuroblastoma : seeking synergy and non-invasive biomakers

Alan Van GoethemTom Van MaerkenJo Vandesompele

Second hit landscape in BRCA-associated breast cancer

Mattias Van HeetveldeMieke Van BockstalTrees LepezSteve LefeverLeen PietersKathleen LambeinMarleen PraetIvo Van Den BergheFrauke CoppietersNadine Van RoyJo VandesompeleDieter DeforceAnne VralBruce PoppeKim De LeeneerJo Van DorpeKathleen Claes

Secretome analysis of breast cancer-associated adipose tissue to identify paracrine regulators of breast cancer growth

Lore LapeireAn HendrixEvelyne LecoutereMieke Van BockstalJo VandesompeleDawn MaynardGeert BraemsRudy Van den BroeckeCathérine MüllerMarc BrackeVeronique CocquytHannelore DenysOlivier De Wever

A1 Journal Article in ONCOTARGET

Stage 4S neuroblastoma tumors show a characteristic DNA methylation portrait

Anneleen DecockMaté OngenaertBram De WildeBénédicte BrichardRosa NogueraFranki SpelemanJo Vandesompele

The extracellular RNA quality control (exRNAQC) study : testing and controlling pre-analytical variables of RNA sequencing on liquid biopsies

Anneleen DecockOlivier De WeverBert DhondtThibaut D'huyvetterHetty HelsmoortelAn HendrixAnnouck PhilippronKimberly VerniersPieter MestdaghJo Vandesompele

The occurrence and therapeutic consequences of androgen receptor copy number gain in prostate cancer patients using Droplet Digital PCR

Sarah BuelensTom ClaeysCandy KumpsBert DhondtFilip PoelaertY NurtenMatthijs VynckOlivier ThasPiet OstJo VandesompeleNicolaas Lumen

The transcriptome of lung tumor-infiltrating dendritic cells reveals a tumor-supporting phenotype and a microRNA signature with negative impact on clinical outcome

Lotte PyfferoenElisabeth BrabantsCeline EveraertNancy De CabooterKelly HeynsKim DeswarteManon VanheerswynghelsSofie De PrijckGlenn WaegemansMelissa DullaersHamida HammadOlivier De WeverPieter MestdaghJo VandesompeleBart LambrechtKarim Vermaelen

A1 Journal Article in ONCOIMMUNOLOGY

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenJo VandesompelePieter Mestdagh

Therapeutic applications of SAMMSON lncRNA inhibition in uveal melanoma

Shanna DewaeleKatrien VanderheydenBoel De PaepeFariba NematiSergio Roman RomanRudy Van CosterJo VandesompelePieter Mestdagh

Thermodynamic framework to assess low abundance DNA mutation detection by hybridization

Hanny WillemsAn JacobsWahyu Wijaya HadiwikartaTom VenkenDirk ValkenborgNadine Van RoyJo VandesompeleJef Hooyberghs

A1 Journal Article in PLOS ONE

Zipper plot : visualizing transcriptional activity of genomic regions

Francisco Avila CobosJasper AnckaertPieter-Jan VoldersCeline EveraertDries RombautJo VandesompeleKatleen De PreterPieter Mestdagh

A1 Journal Article in BMC BIOINFORMATICS

decodeRNA-predicting non-coding RNA functions using guilt-by-association

Steve LefeverJasper AnckaertPieter-Jan VoldersManuel LuypaertJo VandesompelePieter Mestdagh

A1 Journal Article in DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION

lncRNA discovery in the HIV replication cycle adds new layer in HIV-host interplay

Wim TrypsteenMohammadi PejmanClarissa Van HeckePieter MestdaghSteve LefeverPieter De BleserJo VandesompeleAngela CiuffiWard De SpiegelaereLinos Vandekerckhove

mRNA capture sequencing enabled liquid biopsy screening

Jo Vandesompele

mRNA capture sequencing enabled liquid biopsy screening

Anneleen DecockOlivier De WeverBert DhondtCarolina FierroAn HendrixHetty HelsmoortelScott KuerstenPieter MestdaghNele NijsPiet OstThomas PiofczykAnouk PhilippronGary SchrothSandra SteyaertJo VandesompeleGlenn Vergauwen

miSTAR : miRNA target prediction through modeling quantitative and qualitative miRNA binding site information in a stacked model structure

Gert Van PeerAyla De PaepeMichiel StockJasper AnckaertPieter-Jan VoldersJo VandesompeleBernard De BaetsWillem Waegeman

A1 Journal Article in NUCLEIC ACIDS RESEARCH

2016

An embryonic stem cell activated FOXM1 transcriptional program marks ultra-high-risk primary neuroblastoma patients for FDI-6 small molecule inhibition

Suzanne VanhauwaertCarina LeonelliSara De BrouwerJolien De WynAnneleen BeckersKaren SermonJo VandesompeleFranki SpelemanKatleen De Preter

Asthma inflammatory phenotypes show differential microRNA expression in sputum

Tania MaesFrancisco Avila CobosFlorence SchleichValentina SorbelloMonique HenketKatleen De PreterKen BrackeGriet ConickxClaire MesnilJo VandesompeleLies LahousseFabrice BureauPieter MestdaghGuy JoosFabio LM RicciardoloGuy BrusselleRenaud Louis

A1 Journal Article in JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Benchmarking of RNA-sequencing analysis workflows using whole-transcriptome RT-qPCR expression data

Celine EveraertAriane De GanckJAN HELLEMANSJo VandesompelePieter Mestdagh

DNA methylation profiling of primary neuroblastoma tumors using methyl-CpG-binding domain sequencing

Anneleen DecockMaté OngenaertWim Van CriekingeFranki SpelemanJo Vandesompele

A1 Journal Article in SCIENTIFIC DATA

Decoding cancer transcriptomes using public RNA sequencing data

Celine EveraertJo VandesompelePieter Mestdagh

Decoding cancer transcriptomes using public RNA sequencing data

Celine EveraertJo VandesompelePieter Mestdagh

Decoding cancer transcriptomes using public RNA sequencing data

Celine EveraertJo VandesompelePieter Mestdagh

Depletion of tRNA-halves enables effective small RNA sequencing of low-input murine serum samples

Alan Van GoethemNurten YigitCeline EveraertMyrthala Moreno-SmithLiselot MusEveline BarbieriFranki SpelemanPieter MestdaghJason ShohetTom Van MaerkenJo Vandesompele

A1 Journal Article in SCIENTIFIC REPORTS

Differential expression of lncRNAs during the HIV replication cycle : an underestimated layer in the HIV-host interplay

Wim TrypsteenPejman MohammadiClarissa Van HeckePieter MestdaghSteve LefeverYvan SaeysPieter De BleserJo VandesompeleAngela CiuffiLinos VandekerckhoveWard De Spiegelaere

A1 Journal Article in SCIENTIFIC REPORTS

Dissecting the NOTCH1 driven transcriptional landscape in T-cell acute lymphoblastic leukemia at single cell level

Karen VerboomKaat DurinckCeline EveraertRobrecht CannoodtPieter Van VlierbergheJo VandesompeleFranki Speleman

EV-TRAQ: tracking transparent reporting and quality to boost standardized extracellular vesicle research

Jan Van DeunPieter MestdaghJasper AnckaertJo VandesompeleOlivier De WeverAn Hendrix

Endogenous controls for miRNA analysis in renal cells and tissue

Michael RudnickiNinella SchweibertAnneleen BeckersStefan SchneebergerAlfred KoenigsrainerGeorg BoehmigJo VandesompeleGert MayerJohannes Leierer

Eradication of neuroblastoma by suppressing the expression of a single long noncoding RNA

Pei Y LiuAndrew E TeeBernard AtmadibrataPieter MestdaghJo VandesompeleMarcel DingerTao Liu

Expanding the TLX1 regulome in T-cell acute lymphoblastic leukemia towards long noncoding RNAs

Kaat DurinckWouter Van LoockeInge Van de WalleJoni Van der MeulenPieter-Jan VoldersNadine Van RoyYves BenoitBruce PoppePieter MestdaghJo VandesompelePieter RondouTom TaghonJean SoulierPieter Van VlierbergheFranki Speleman

Exploring the neuroblastoma DNA methylome: from biology to biomarker

Anneleen DecockJo VandesompeleFranki SpelemanMaté Ongenaert

Flexible analysis of digital PCR experiments using generalized linear mixed models

Matthijs VynckJo VandesompeleNele NijsBjörn MentenAriane De GanckOlivier Thas

A2 Journal Article in BIOMOLECULAR DETECTION AND QUANTIFICATION

Identification of non-invasive biomarkers for treatment response in neuroblastoma by circulating miRNA profiling

Alan Van GoethemNurten YigitMythala Moreno-SmithCeline EveraertOlivier DelattrePieter MestdaghSaurabh AgarwalEveline BarbieriIsabelle Janoueix-LeroseyJason ShohetFranki SpelemanTom Van MaerkenJo Vandesompele

LncRNAs in the context of Chronic Obstructive Pulmonary Disease (COPD) are associated to immune response and metabolism of xenobiotics

Francisco Avila CobosKen BrackeJo VandesompeleKimberly VerniersGuy JoosKatleen De PreterGuy BrussellePieter Mestdagh

Long non-coding RNA expression profiling in the NCI60 cancer cell line panel using high-throughput RT-qPCR

Pieter MestdaghSteve LefeverPieter-Jan VoldersStefaan DerveauxJan HellemansJo Vandesompele

A1 Journal Article in SCIENTIFIC DATA

Long non-coding RNAs as novel components in the TP53 pathway

Dries RombautSteve LefeverJan KosterJohannes SchulteRogier VersteegPeter van SluisJo VandesompelePieter Mestdagh

Long non-coding RNAs as novel components in the TP53 pathway

Dries RombautSteve LefeverJan KosterSven LindnerJohannes SchulteRogier VersteegPeter van SluisJo VandesompelePieter Mestdagh

Long noncoding RNA signatures define oncogenic subtypes in T-cell acute lymphoblastic leukemia

Annelynn WallaertKaat DurinckWouter Van LoockeInge Van de WalleFilip MatthijssensPieter-Jan VoldersFrancisco Avila CobosDries RombautPieter RondouPieter MestdaghJo VandesompeleBruce PoppeTom TaghonJean SoulierPieter Van VlierbergheFranki Speleman

A1 Journal Article in LEUKEMIA

Mapping the methodological diversity of EV isolation and characterization

Jan Van DeunPieter MestdaghJo VandesompeleOlivier De WeverAn Hendrix

Melanoma addiction to the long non-coding RNA SAMMSON

Eleonora LeucciRoberto VendraminMarco SpinazziPatrick LauretteMark FiersJasper WoutersEnrico RadaelliSven EyckermanCarina LeonelliKatrien VanderheydenAljosja RogiersEls HermansPieter BaatsenStein AertsFrederic AmantStefan Van AelstJoost van den OordBart de StrooperIrwin DavidsonDenis LJ LafontaineKris GevaertJo VandesompelePieter MestdaghJean-Christophe Marine

A1 Journal Article in NATURE

Methyl-CpG-binding domain sequencing reveals a prognostic methylation signature in neuroblastoma

Anneleen DecockMaté OngenaertRobrecht CannoodtKimberly VerniersBram De WildeGenevieve LaureysNadine Van RoyAna Pilar BerbegallJulie Bienertova-VaskuNick BownNathalie ClémentValérie CombaretMichelle HaberClaire HoyouxJayne MurrayRosa NogueraGaëlle PierronGudrun SchleiermacherJohannes H SchulteRay L StallingsDeborah A TweddleKatleen De PreterFranki SpelemanJo Vandesompele

A1 Journal Article in ONCOTARGET

Methyl-CpG-binding domain sequencing reveals a prognostic methylation signature in neuroblastoma

Anneleen DecockMaté OngenaertRobrecht CannoodtKimberly VerniersBram De WildeGenevieve LaureysNadine Van RoyAna Pilar BerbegallJulie Bienertova-VaskuNick BownNathalie ClémentValérie CombaretMichelle HaberClaire HoyouxJayne MurrayRosa NogueraGaëlle PierronGudrun SchleiermacherJohannes H SchulteRay L StallingsDeborah A TweddleKatleen De PreterFranki SpelemanJo Vandesompele

Microrna-218-5p is implicated in the pathogenesis of chronic obstructive pulmonary disease

Griet ConickxPieter MestdaghFrancisco Avila CobosFien VerhammeTania MaesBM VanaudenaerdeLies LahousseGuy JoosJo VandesompeleKen BrackeGuy Brusselle

NFAT5 in Duchenne muscular dystrophy cultured myoblasts after exposure to hyperosmolar salt conditions

Sandrine HerbeletAmanda GonçalvesElly De VlieghereGert Van PeerBoel De PaepeChris GuerinJo VandesompeleOlivier De WeverJan De Bleecker

PAN-cancer identification of ncRNAs with a high therapeutic and diagnostic potential

Celine EveraertJo VandesompelePieter Mestdagh

PAN-cancer identification of ncRNAs with a high therapeutic and diagnostic potential

Celine EveraertJo VandesompelePieter Mestdagh

PAN-cancer therapeutic target identification by omics data integration

Celine EveraertJo VandesompelePieter Mestdagh

Quantitative and functional requirements for bioluminescent cancer models

Lynn FeysBenedicte DescampsChristian VanhoveStefan VermeulenJo VandesompeleKatrien VanderheydenKathy MessensMarc BrackeOlivier De Wever

A1 Journal Article in IN VIVO

RT-qPCR gene expression analysis in zebrafish : preanalytical precautions and use of expressed repetitive elements for normalization

Suzanne VanhauwaertSteve LefeverPaul CouckeFranki SpelemanAnne De PaepeJo VandesompeleAndy Willaert

A1 Journal Article in Methods in Cell Biology

Rol van microRNA in neutrofiel astma

Tania MaesFrancisco Avila CobosFlorence SchleichValentina SorbelloMonique HenketKatleen De PreterKen BrackeGriet ConickxClaire MesnilJo VandesompeleLies LahousseFabrice BureauPieter MestdaghGuy JoosFabio LM RicciardoloGuy BrusselleRenaud Louis

A4 Journal Article in BLOEDVATEN HART LONGEN

Selective cross-cohort discovery of transcriptional mechanisms presiding over high-risk neuroblastoma subtype state maintenance

Presha RajbhandariGonzalo LopezJiyang YuRuth Rodriguez-BarruecoMariano AlvarezDaniel MartinezMark YarmarkovichJo VandesompelePieter MestdaghJose M SilvaAnna LasorellaAntonio LavaroneJohn M MansAndrea Califano

Stage 4S neuroblastoma tumors show a characteristic DNA methylation portrait

Anneleen DecockMaté OngenaertBram De WildeBénédicte BrichardRosa NogueraFranki SpelemanJo Vandesompele

A1 Journal Article in EPIGENETICS

Straightforward and sensitive RT-qPCR based gene expression analysis of FFPE samples

Fjoralba ZekaKatrien VanderheydenEls De SmetClaude CuvelierPieter MestdaghJo Vandesompele

A1 Journal Article in SCIENTIFIC REPORTS

Targeted resequencing and variant validation using pxlence PCR assays

Frauke CoppietersKimberly VerniersKim De LeeneerJo VandesompeleSteve Lefever

A2 Journal Article in BIOMOLECULAR DETECTION AND QUANTIFICATION

The T-ALL oncogene TLX1 controls enhancer lncRNA expression

Karen VerboomKaat DurinckWouter Van LoockeFilip MatthijssensInge Van de WalleAnnelynn WallaertPieter-Jan VoldersNadine Van RoyYves BenoitBruce PoppePieter RondouPieter MestdaghJo VandesompeleWouter De LaatJean-Jacques SoulierTom TaghonPieter Van VlierbergheFranki Speleman

The core protein to myogenesis NFAT5 forms aggresomes in normal and Duchenne muscular dystrophy myotubes exposed to cell stressors

Sandrine HerbeletElly De VlieghereGert Van PeerBoel De PaepeEline NysLaurens WeynantsJo VandesompeleOlivier De WeverJens SchmidtJan De Bleecker

Thorough second hit analysis in BRCA1/2 associated breast cancer

Mattias Van HeetveldeTrees LepezLeen PietersSteve LefeverJo Van DorpeKathleen LambeinMarleen Praetivo Van Den BergheFrauke CoppietersJo VandesompeleNadine Van RoyDieter DeforceAnne VralKim De LeeneerKathleen Claes

Thorough second-hit analysis in BRCA1/2-associated breast cancer

Mattias Van HeetveldeTrees LepezLeen PietersSteve LefeverJo Van DorpeKathleen LambeinMarleen PraetIvo Van Den BergheFrauke CoppietersJo VandesompeleNadine Van RoyDieter DeforceAnne VralKim De LeeneerKathleen Claes

2015

Alternative routes to induce naive pluripotency in human embryonic stem cells

Galbha DuggalSharat WarrierSabitri GhimireDorien BroekaertMargot Van der JeughtSylvie LiermanTom DerooLuc PeelmanAnn Van SoomMaria CornelissenBjörn MentenPieter MestdaghJo VandesompeleMatthias RoostRoderick C SliekerBastiaan T HeijmansDieter DeforcePetra De SutterSusana Marina Chuva de Sousa LopesBjörn Heindryckx

A1 Journal Article in STEM CELLS

An embryonic stem cell activated FOXM1 transcriptional program marks ultra-high-risk primary neuroblastoma patients for FDI-6 small molecule inhibition

Suzanne VanhauwaertCarina LeonelliSara De BrouwerJolien De WynAnneleen BeckersNeuroblastoma Research consortiumJo VandesompeleKaren SermonFranki SpelemanKatleen De Preter

An update on LNCipedia : a database for annotated human lncRNA sequences

Pieter-Jan VoldersKenneth VerheggenGerben MenschaertKlaas VandepoeleLennart MartensJo VandesompelePieter Mestdagh

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Best-in-class PCR based target enrichment for NGS panels and Sanger variant confirmation

Steve LefeverFrauke CoppietersJo Vandesompele

Comparison of RNA-seq and microarray-based models for clinical endpoint prediction

Wenqian ZhangYing YuFalk HertwigJean Thierry-MiegWenwei ZhangDanielle Thierry-MiegJian WangCesare FurlanelloViswanath DevanarayanJie ChengYouping DengBarbara HeroHuixiao HongMeiwen JiaLi LiSimon M LinYuri NikolskyAndré OberthuerTao QingZhenqiang SuRuth VollandCharles WangMay D WangJunmei AiDavide AlbaneseShahab AsgharzadehSmadar AvigadWenjun BaoMarina BessarabovaMurray H BrilliantBenedikt BrorsMarco ChiericiTzu-Ming ChuJibin ZhangRichard G GrundyMin Max HeScott HebbringHoward L KaufmanSamir LababidiLee J LancashireYan LiXin X LuHeng LuoXiwen MaBaitang NingRosa NogueraMartin PeiferJohn H PhanFrederik RoelsCarolina RosswogSusan ShaoJie ShenJessica TheissenGian Paolo ToniniJo VandesompelePo-Yen WuWenzhong XiaoJoshua XuWeihong XuJiekun XuanYong YangZhan YeZirui DongKe K ZhangYe YinChen ZhaoYuanting ZhengRussell D WolfingerTieliu ShiLinda H MalkasFrank BertholdJun WangWeida TongLeming ShiZhiyu PengMatthias Fischer

A1 Journal Article in GENOME BIOLOGY

Data analysis of droplet digital PCR with generalized linear mixed models

Olivier ThasMatthijs VynckJo Vandesompele

Exploring lncRNAs in cancer : tools for discovery and characterization of cancer associated lncRNAs

Pieter-Jan VoldersJo VandesompeleKris Gevaert

Flexible, scalable, and efficient targeted resequencing on a benchtop sequencer for variant detection in clinical practice

Kim De LeeneerJan HellemansWouter SteyaertSteve LefeverInge VereeckeEveline DebalsBrecht CrombezMachteld BaetensMattias Van HeetveldeFrauke CoppietersJo VandesompeleAnnelies De JaegherElfride De BaerePaul CouckeKathleen Claes

A1 Journal Article in HUMAN MUTATION

GLMMs for nucleic acid concentration estimation in digital droplet PCR

Matthijs VynckJo VandesompeleOlivier Thas

Genome wide expression profiling of p53 regulated miRNAs in neuroblastoma

Ali RihaniAlan Van GoethemMaté OngenaertSara De BrouwerPieter-Jan VoldersSaurabh AgarwalKatleen De PreterPieter MestdaghJason ShohetFranki SpelemanJo VandesompeleTom Van Maerken

A1 Journal Article in SCIENTIFIC REPORTS

Identification of miRNAs contributing to neuroblastoma chemoresistance

Duncan AyersPieter MestdaghTom Van MaerkenJo Vandesompele

A1 Journal Article in COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL

Improving accuracy and precision of dPCR experiments by relying on multiple reference genes

Matthijs VynckJo VandesompeleOlivier Thas

Individual patient risk stratification of high-risk neuroblastomas using a two-gene score suited for clinical use

Kristoffer von StedingkKatleen De PreterJo VandesompeleRosa NogueraIngrid ØraJan KosterRogier VersteegSven PåhlmanDavid LindgrenHåkan Axelson

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Inhibition of CDK4/6 as a novel therapeutic option for neuroblastoma

Ali RihaniJo VandesompeleFranki SpelemanTom Van Maerken

A1 Journal Article in CANCER CELL INTERNATIONAL

Integrated and cross-species omics analyses identify the DNA damage response pathway as an important vulnerable pathway in aggressive neuroblastoma tumors

Katleen De PreterAnneleen BeckersSuzanne VanhauwaertAnnelies FieuwSara De BrouwerPieter MestdaghJo VandesompeleFranki Speleman

Long non-coding RNAs as upstream regulators and downstream effectors of TP53 activity in neuroblastoma

Dries RombautSteve LefeverJan KosterJohannes SchulteRogier VersteegPeter van SluisJo VandesompelePieter Mestdagh

MYCN-driven regulatory mechanisms controlling LIN28B in neuroblastoma

Anneleen BeckersGert Van PeerDaniel R CarterMoritz GartlgruberCarl HerrmannSaurabh AgarwalHetty HelsmoortelKristina AlthoffJan J MolenaarBelamy B CheungJohannes H SchulteYves BenoitJason M ShohetFrank WestermannGlenn M MarshallJo VandesompeleKatleen De PreterFranki Speleman

A1 Journal Article in CANCER LETTERS

MYCN-targeting miRNAs are predominantly downregulated during MYCN-driven neuroblastoma tumor formation

Anneleen BeckersGert Van PeerDaniel R CarterKristina AlthoffBelamy B CheungJohannes H SchultePieter MestdaghJo VandesompeleGlenn M MarshallKatleen De PreterFranki Speleman

A1 Journal Article in ONCOTARGET

Massively parallel sequencing technologies in neuroblastoma research

Bram De WildeJo VandesompeleFranki Speleman

Methyl-CpG-binding domain sequencing reveals a prognostic methylation signature in neuroblastoma

Anneleen DecockMaté OngenaertRobrecht CannoodtKimberly VerniersBram De WildeGenevieve LaureysNadine Van RoyAna Pilar BerbegallJulie Bienertova-VaskuNick BownNathalie ClémentValérie CombaretMichelle HaberClaire HoyouxJayne MurrayRosa NogueraGaelle PierronGudrun SchleiermacherJohannes H SchulteRay L StallingsDeborah A TweddleKatleen De PreterFranki SpelemanJo Vandesompele

MiR-34a deficiency accelerates medulloblastoma formation in vivo

Theresa ThorAnnette KünkeleKristian W PajtlerAnnika K WefersHarald StephanPieter MestdaghLukas HeukampWolfgang HartmannJo VandesompeleNatalie SadowskiLore BeckerLillian GarrettSabine M HölterMarion HorschJulia Calzada-WackTanja Klein-RodewaldIldiko RaczAndreas ZimmerJohannes BeckersFrauke NeffThomas KlopstockPasqualino De AntonellisMassimo ZolloWolfgang WurstHelmut FuchsValérie Gailus-DurnerUlrich SchüllerMartin Hrabě de AngelisAngelika EggertAlexander SchrammJohannes H Schulte

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

MicroRNA-193b-3p acts as a tumor suppressor by targeting the MYB oncogene in T-cell acute lymphoblastic leukemia

Evelien MetsJoni Van der MeulenGert Van PeerMichael BoicePieter MestdaghInge Van de WalleTim LammensSteven GoossensBarbara De MoerlooseYves BenoitNadine Van RoyEmmanuelle ClappierBruce PoppeJo VandesompeleHans-Guido WendelTom TaghonPieter RondouJean SoulierPieter Van VlierbergheFranki Speleman

A1 Journal Article in LEUKEMIA

Non-coding RNAs and respiratory disease

Pieter MestdaghJo VandesompeleGuy BrusselleKarim Vermaelen

A1 Journal Article in THORAX

Non-coding RNAs in the pathogenesis of COPD

Elise De SmetPieter MestdaghJo VandesompeleGuy BrusselleKen Bracke

A1 Journal Article in THORAX

Oncogenic dysregulations in neuroblastoma are associated with distal large chromosomal aberrations

Gonzalo LopezMariano AlvarezJames ChenPresha RajbhandariKristina A ColeEdward F AttiyehSharon DiskinPieter MestdaghJo VandesompeleJohn M MarisAndrea Califano

RDML-Ninja and RDMLdb for standardized exchange of qPCR data

Jan M RuijterSteve LefeverJasper AnckaertJan HellemansMichael W PfafflVladimir BenesStephen A BustinJo VandesompeleAndreas Untergasser

A1 Journal Article in BMC BIOINFORMATICS

RNA expression signatures and posttranscriptional regulation in diabetic nephropathy

Michael RudnickiAnneleen BeckersHannes NeuwirtJo Vandesompele

A1 Journal Article in NEPHROLOGY DIALYSIS TRANSPLANTATION

RT-qPCR-based quantification of small non-coding RNAs

Fjoralba ZekaPieter MestdaghJo Vandesompele

Bookchapter in Small non-coding RNAs : methods and protocols

Renal microRNA- and RNA-profiles in progressive chronic kidney disease

Michael RudnickiPaul PercoBarbara D′haeneJohannes LeiererAndreas HeinzelIrmgard MühlbergerNinella SchweibertJudith SunzenauerHeinz RegeleAndreas KronbichlerPieter MestdaghJo VandesompeleBernd MayerGert Mayer

A1 Journal Article in EUROPEAN JOURNAL OF CLINICAL INVESTIGATION

Revised risk estimation and treatment stratification of low- and intermediate-risk neuroblastoma patients by integrating clinical and molecular prognostic markers

André OberthuerDilafruz JuraevaBarbara HeroRuth VollandCarolina SterzRene SchmidtAndreas FaldumYvonne KahlertAnne EngesserShahab AsgharzadehRobert C SeegerMiki OhiraAkira NakagawaraPaola ScaruffiGian Paolo ToniniIsabelle Janoueix-LeroseyOlivier DelattreGudrun SchleiermacherJo VandesompeleFranki SpelemanRosa NogueraMarta PiquerasJean BénardAlexander ValentSmadar AvigadIsaac YanivRichard Guy GrundyMonika OrtmannChunxuan ShaoManfred SchwabRoland EilsThorsten SimonJessica TheissenFrank BertholdFrank WestermannBenedikt BrorsMatthias Fischer

A1 Journal Article in CLINICAL CANCER RESEARCH

lncRNAs as upstream regulators and downstream effectors of TP53 in neuroblastoma

Dries RombautSteve LefeverPieter-Jan VoldersJan KosterSven LindnerJohannes SchulteAlan Van GoethemRogier VersteegPeter van SluisJo VandesompelePieter Mestdagh

miR-542-3p exerts tumor suppressive functions in neuroblastoma by downregulating Survivin

Kristina AlthoffSven LindnerAndrea OderskyPieter MestdaghAnneleen BeckersSarah KarczewskiJan J MolenaarAnna BohrerShirley KnauerFranki SpelemanMatthias EppleDiana KozlovaSena YoonKwanghee BaekJo VandesompeleAngelika EggertAlexander SchrammJohannes H Schulte

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

miRNome-wide high-throughput microRNA target identification

Gert Van PeerJo VandesompelePieter Mestdagh

2014

A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium

Zhenqiang SuPawel P LabajSheng LiJean Thierry-MiegDanielle Thierry-MiegWei ShiCharles WangGary P SchrothRobert A SetterquistJohn F ThompsonWendell D JonesWenzhong XiaoWeihong XuRoderick V JensenReagan KellyJoshua XuAna ConesaCesare FurlanelloHanlin GaoHuixiao HongNadereh JafariStan LetovskyYang LiaoFei LuEdward J OakeleyZhiyu PengCraig A PraulJavier Santoyo-LopezAndreas SchererTieliu ShiGordon K SmythFrank StaedtlerPeter SykacekXin-Xing TanE Aubrey ThompsonJo VandesompeleMay D WangJian WangRussell D WolfingerJiri ZavadilScott S AuerbachWenjun BaoHans BinderThomas BlomquistMurray H BrilliantPierre R BushelWeimin CainJennifer G CatalanoChing-Wei ChangTao ChenGeng ChenRong ChenMarco ChiericiTzu-Ming ChuDjork-Arné ClevertYouping DengAdnan DertiViswanath DevanarayanZirui DongJoaquin DopazoTingting DuHong FangYongxiang FangMario FasoldAnita FernandezMatthias FischerPedro Furió-TariJames C FuscoeFlorian CaimetStan GajJorge GandaraHuan GaoWeigong GeYoichi GondoBinsheng GongMeihua GongZhuolin GongBridgett GreenChao GuoLei GuoLi-Wu GuoJames HadfieldJan HellemansSepp HochreiterMeiwen JiaMin JianCharles D JohnsonSuzanne KayJos KleinjansSamir LababidiShawn LevyQuan-Zhen LiLi LiPeng LiYan LiHaiqing LiJianying LiShiyong LiSimon M LinFrancisco J LópezXin LuHeng LuoXiwen MaJoseph MeehanDalila B MegherbiNan MeiBing MuBaitang NingAkhilesh PandeyJavier Pérez-FloridoRoger G PerkinsRyan PetersJohn H PhanMehdi PiroozniaFeng QianTao QingLucille RainbowPhilippe Rocca-SerraLaure SambourgSusanna-Assunta SansoneScott SchwartzRuchir ShahJie ShenTodd M SmithOliver StegleNancy Stralis-PaveseElia StupkaYutaka SuzukiLee T SzkotnickiMatthew TinningBimeng TuJoost van DeftAlicia Vela-BozaElisa VenturiniStephen J WalkerLiqing WanWei WangJinhui WangJun WangEric D WiebenJames C WilleyPo-Yen WuJiekun XuanYong YangZhan YeYe YinYing YuYate-Ching YuanJohn ZhangKe K ZhangWenqian ZhangWenwei ZhangYanyan ZhangChen ZhaoYuanting ZhengYiming ZhouPaul ZumboWeida TongDavid P KreilChristopher E MasonLeming Shi

A1 Journal Article in NATURE BIOTECHNOLOGY

CASP8 SNP D302H (rs1045485) is associated with worse survival in MYCN-amplified neuroblastoma patients

Ali RihaniBram De WildeFjoralba ZekaGenevieve LaureysNadine FrancotteGian Paolo ToniniSimona CocoRogier VersteegRosa NogueraJohannes SchulteAngelika EggertRaymond StallingsFranki SpelemanJo VandesompeleTom Van Maerken

CASP8 SNP D302H (rs1045485) is associated with worse survival in MYCN-amplified neuroblastoma patients

Ali RihaniBram De WildeFjorabla ZekaGenevieve LaureysNadine FrancotteGian Paolo ToniniSimona CocoRogier VersteegRosa NogueraJohannes H SchulteAngelika EggertRaymond L StallingsFranki SpelemanJo VandesompeleTom Van Maerken

A1 Journal Article in PLOS ONE

CASP8 SNP D302H (rs1045485) is associated with worse survival in MYCN-amplified neuroblastoma patients

Ali RihaniBram De WildeFjoralba ZekaGenevieve LaureysNadine FrancotteGian Paolo ToniniSimona CocoRogier VersteegRosa NogueraJohannes SchulteAngelika EggertRaymond StallingsFranki SpelemanJo VandesompeleTom Van Maerken

Cancer-associated adipose tissue promotes breast cancer progression by paracrine Oncostatin M and JAK3/STAT3 signaling

Lore LapeireAn HendrixKathleen LambeinMieke Van BockstalGeert BraemsRudy Van den BroeckeRidha LimamePieter MestdaghJo VandesompeleChristian VanhoveDawn MaynardCatherine MullerPhilippe ValetChristian GespachVeronique CocquytMarc BrackeHannelore DenysOlivier De Wever

Cancer-associated adipose tissue promotes breast cancer progression by paracrine Oncostatin M and Jak/STAT3 signaling

Lore LapeireAn HendrixKathleen LambeinMieke Van BockstalGeert BraemsRudy Van den BroeckeRIDHA LIMAMEPieter MestdaghJo VandesompeleChristian VanhoveDawn MaynardCamille LehuédéCatherine MullerPhilippe ValetChristian GespachMarc BrackeVeronique CocquytHannelore DenysOlivier De Wever

A1 Journal Article in CANCER RESEARCH

Characterization of the p53 network and new therapeutic opportunities in neuroblastoma

Ali RihaniJo VandesompeleTom Van Maerken

Early targets of miR-34a in neuroblastoma

Pasqualino De AntonellisMarianeve CarotenutoJonathan VandenbusscheGennaro De VitaVeronica FerrucciChiara MedagliaIolanda BoffaAlessandra GalieroSarah Di SommaDaniela MagliuloNadia AieseAlessandro AlonziDaniela SpanoLucia LiguoriCristina ChiarollaAntonio VerricoJohannes H SchultePieter MestdaghJo VandesompeleKris GevaertMassimo Zollo

A1 Journal Article in MOLECULAR & CELLULAR PROTEOMICS

Ectopic microRNA-150-5p transcription sensitizes glucocorticoid therapy response in MM1S multiple myeloma cells but fails to overcome hormone therapy resistance in MM1R cells

Ajay PalaganiKen Op de BeeckStefan NaulaertsJolien DiddensChandra Sekhar ChirumamillaGuy Van CampKris LaukensKaren HeyninckSarah GerloPieter MestdaghJo VandesompeleWim Vanden Berghe

A1 Journal Article in PLOS ONE

Evaluation of quantitative miRNA expression platforms in the microRNA quality control (miRQC) study

Pieter MestdaghNicole HartmannLukas BaeriswyDitte AndreasenNathalie BernardCaifu ChenDavid CheoPetula D'AndradeMike DeMayoLucas DennisStefaan DerveauxYun FengStephanie Fulmer-SmentekBernhard GerstmayerJulia GouffonChris GrimleyEric LaderKathy Y LeeShujun LuoPeter MouritzenAishwarya NarayananSunali PatelSabine PeifferSilvia RubergGary SchrothDave SchusterJonathan M ShafferElliot J SheltonScott SilveriaUmberto UlmanellaVamsi VeeramachaneniFrank StaedtlerThomas PetersToumy GuettoucheLinda WongJo Vandesompele

A1 Journal Article in NATURE METHODS

Evaluation of targeted drugs in combination with the MDM2 antagonist RG7388 in neuroblastoma

Alan Van GoethemGwen NicholsFranki SpelemanJo VandesompeleTom Van Maerken

Evaluation of targeted drugs in combination with the MDM2 antagonist RG7388 in neuroblastoma

Alan Van GoethemGwen NicholsFranki SpelemanJo VandesompeleTom Van Maerken

Evaluation of targeted drugs in combination with the MDM2 antagonist RG7388 in neuroblastoma

Alan Van GoethemGwen NicholsFranki SpelemanJo VandesompeleTom Van Maerken

Evaluation of targeted drugs in combination with the MDM2 antagonist RG7388 in neuroblastoma

Alan Van GoethemGwen NicholsFranki SpelemanJo VandesompeleTom Van Maerken

Expressed repeat elements improve RT-qPCR normalization across a wide range of zebrafish gene expression studies

Suzanne VanhauwaertGert Van PeerAli RihaniEls JanssensPieter RondouSteve LefeverAnne De PaepePaul CouckeFranki SpelemanJo VandesompeleAndy Willaert

A1 Journal Article in PLOS ONE

Genetisch geïnspireerde toekomstperspectieven voor de therapie van het neuroblastoom

Bram De WildeTom Van MaerkenKatleen De PreterNadine Van RoyGenevieve LaureysJo VandesompeleFranki Speleman

A2 Journal Article in TIJDSCHRIFT VOOR GENEESKUNDE

Genome-wide methylation analysis unravels differential DNA methylation patterns between (prognostic) neuroblastoma patient subgroups

Anneleen DecockMaté OngenaertAna BerbegallRosa NogueraJayne MurrayMichele HaberRaymond L StallingsJohannes H SchulteValérie CombaretGudrun SchleiermacherNathalie ClémentDeborah TweddleKatleen De PreterFranki SpelemanJo Vandesompele

Illumina sequencing of 15 deafness genes using fragmented amplicons

Filip Van NieuwerburghSarah De KeulenaerJoachim De SchrijverJo VandesompeleWim Van CriekingePaul CouckeDieter Deforce

A2 Journal Article in BMC RESEARCH NOTES

Integrative analysis of the NOTCH1 regulatory network identifies key downstream lncRNAs in acute T-cell lymphoblastic leukemia and normal T-cell development

Annelynn WallaertKaat DurinckPieter RondouInge Van de WalleWouter Van LoockePieter-Jan VoldersMaté OngenaertNadine Van RoyBruce PoppeYves BenoitJo VandesompeleTom TaghonPieter Van VlierbergheFranki Speleman

Lack of association between MDM2 promoter SNP309 and clinical outcome in patients with neuroblastoma

Ali RihaniTom Van MaerkenBram De WildeFjoralba ZekaGenevieve LaureysKoen NorgaGian Paolo ToniniSimona CocoRogier VersteegRosa NogueraJohannes H SchulteAngelika EggertRaymond L StallingsFranki SpelemanJo Vandesompele

A1 Journal Article in PEDIATRIC BLOOD & CANCER

LncRNA profiling in T-cell acute lymphoblastic leukemia predicts a functional connection between lncRNAs and the major T-ALL genetic subgroups

Annelynn WallaertKaat DurinckWouter Van LoockePieter-Jan VoldersYves BenoitBruce PoppePieter MestdaghJo VandesompeleJean SoulierJan CoolsPieter Van VlierberghePieter RondouFranki Speleman

Lung tumours reprogram pulmonary dendritic cell immunogenicity at the microRNA level

Lotte PyfferoenPieter MestdaghKarl VergoteNancy De CabooterJo VandesompeleBart LambrechtKarim Vermaelen

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

MYCN safeguards its upregulated expression through negatively controlling its upstream miRNAs

Anneleen BeckersGert Van PeerDaniel CarterBelamy CheungJo VandesompeleGlenn MarshallKatleen De PreterFranki Speleman

MicroRNA-128-3p is a novel oncomiR targeting PHF6 in T-cell acute lymphoblastic leukemia

Evelien MetsGert Van PeerJoni Van der MeulenMichael BoiceTom TaghonSteven GoossensPieter MestdaghYves BenoitBarbara De MoerlooseNadine Van RoyBruce PoppeJo VandesompeleHans-Guido WendelPieter Van VlierbergheFranki SpelemanPieter Rondou

A1 Journal Article in HAEMATOLOGICA

Pharmacologic activation of wild-type p53 by nutlin therapy in childhood cancer

Tom Van MaerkenAli RihaniAlan Van GoethemAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in CANCER LETTERS

Promoter DNA-methylation in the TH-MYCN neuroblastoma mouse model

Anneleen BeckersWouter Van LoockeAnneleen DecockMaté OngenaertJo VandesompeleFranki SpelemanKatleen De Preter

Reduced DICER1 functionality in neuroblastoma through reduced expression levels or somatic mutations

Bram De WildeJohannes H SchulteAnneleen BeckersAlexander SchrammAnnelies FieuwDaniel CarterBelamy CheungGlenn MarshallAngelika EggertKatleen De PreterPieter MestdaghJo VandesompeleFranki Speleman

Selecting potent antisense oligonucleotides for lncRNA knockdown using generalized additive models

Pieter-Jan VoldersJo VandesompelePieter Mestdagh

Selecting potent antisense oligonucleotides for lncRNA silencing in vitro using thermodynamic properties and target RNA structure

Pieter-Jan VoldersPieter MestdaghJo Vandesompele

Selection of reliable reference genes for RT-qPCR analysis

JAN HELLEMANSJo Vandesompele

Bookchapter in Qualntitative real-time PCR : methods and protocols

Some cautionary notes on the petite 'Holy Grail' of molecular diagnostics

Jo VandesompelePieter Mestdagh

Editorial material

Target enrichment using parallel nanoliter quantitative PCR amplification

Bram De WildeSteve LefeverWes DongJude DunneSyed HusainStefaan DerveauxJan HellemansJo Vandesompele

A1 Journal Article in BMC GENOMICS

Targeted analysis of TP53 pathway SNPs in neuroblastoma patients

Ali RihaniBram De WildeFjoralba ZekaGenevieve LaureysNadine FrancotteGian Paolo ToniniSimona CocoRogier VersteegRosa NogueraJohannes SchulteAngelika EggertRaymond StallingsFranki SpelemanJo VandesompeleTom Van Maerken

The MYCN/miR-26a-5p/LIN28B regulatory axis controls MYCN-driven LIN28B upregulation in neuroblastoma

Anneleen BeckersAndrew LudwigGert Van PeerDaniel CarterBelamy CheungSara De BrouwerJo VandesompeleKatleen De PreterJason ShohetFranki Speleman

The MYCN/miR-26a-5p/LIN28B regulatory axis explains MYCN driven LIN28B upregulation during mouse neuroblastoma development

Anneleen BeckersDaniel CarterAndrew LudwigGert Van PeerBelamy CheungJo VandesompeleGlenn MarshallJason ShohetKatleen De PreterFranki Speleman

The NOTCH1 driven long non-coding RNA repertoire in T-cell acute lymphoblastic leukemia

Annelynn WallaertKaat DurinckPieter RondouInge Van de WalleWouter VanloockePieter-Jan VoldersSuzanne VanhauwaertEllen GeerdensMaté OngenaertNadine Van RoyBruce PoppeYves BenoitJan CoolsJo VandesompeleJean SoulierPieter Van VlierbergheTom TaghonFranki Speleman

The Notch driven long non-coding RNA repertoire in T-cell acute lymphoblastic leukemia

Kaat DurinckAnnelynn WallaertInge Van de WalleWouter Van LoockePieter-Jan VoldersSuzanne VanhauwaertEllen GeerdensYves BenoitNadine Van RoyBruce PoppeJean SoulierJan CoolsPieter MestdaghJo VandesompelePieter RondouPieter Van VlierbergheTom TaghonFranki Speleman

A1 Journal Article in HAEMATOLOGICA

The first lncRNA landscape of major genetic T-ALL subsets and guilt-by-association analysis for ETP-ALL specific lncRNAs

Annelynn WallaertKaat DurinckWouter Van LoockePieter-Jan VoldersInge Van de WalleYves BenoitBruce PoppeJo VandesompeleTom TaghonJean SoulierJan CoolsPieter RondouPieter Van VlierbergheFranki Speleman

The impact of disparate isolation methods for extracellular vesicles on downstream RNA profiling

Jan Van DeunPieter MestdaghRaija SormunenLotte PyfferoenKarim VermaelenVeronique CocquytJo VandesompeleMarc BrackeOlivier De WeverAn Hendrix

The impact of disparate isolation methods for extracellular vesicles on downstream RNA profiling

Jan Van DeunPieter MestdaghRaija SormunenVeronique CocquytKarim VermaelenJo VandesompeleMarc BrackeOlivier De WeverAn Hendrix

A2 Journal Article in JOURNAL OF EXTRACELLULAR VESICLES

Time-resolved transcriptome analysis of TH-MYCN driven hyperplastic ganglia and tumors marks BRD3 as a novel candidate oncogene

Anneleen BeckersDaniel CarterCheung BelamyJo VandesompeleGlen MarshallKatleen De PreterFranki Speleman

Unique lncRNA signatures mark the major T-ALL genetic subgroups

Annelynn WallaertKaat DurinckWouter Van LoockePieter-Jan VoldersYves BenoitBruce PoppePieter MestdaghJo VandesompeleJean SoulierJan CoolsPieter Van VlierberghePieter RondouFranki Speleman

miRBase Tracker : keeping track of microRNA annotation changes

Gert Van PeerSteve LefeverJasper AnckaertAnneleen BeckersAli RihaniAlan Van GoethemPieter-Jan VoldersFjoralba ZekaMaté OngenaertPieter MestdaghJo Vandesompele

A1 Journal Article in DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION

2013

A bioinformatics analysis of renal miRNA- and mRNA-expression signatures in progressive chronic kidney disease

Michael RudnickiPaul PercoBarbara D'haeneJohannes LeiererJudith SunzenauerRaul FecheteAndreas HeinzelPieter MestdaghJo VandesompeleBernd MayerGert Mayer

CLL cells respond to B-cell receptor stimulation with a microRNA/mRNA signature associated with MYC activation and cell cycle progression

Valerie PedeAns RomboutJOLIEN VERMEIREEvelien NaessensPieter MestdaghNore RobberechtHanne VanderstraetenNadine Van RoyJo VandesompeleFranki SpelemanJan PhilippéBruno Verhasselt

A1 Journal Article in PLOS ONE

DNA methylation silences miR-132 in prostate cancer

A FormosaAM LenaEK MarkertS CortelliR MianoA MaurielloN CroceJo VandesompelePieter MestdaghE Finazzi-AgròAJ LevineG MelinoS BernardiniE Candi

A1 Journal Article in ONCOGENE

Dynamic regulation of miRNAs implicated in the MYCN-EZH2 regulatory axis during neuroblastoma tumor initiation and progression in a MYCN mouse model

Anneleen BeckersKatleen De PreterBelamy CheungDaniel CarterGert Van PeerSara De BrouwerPieter MestdaghGenevieve LaureysJo VandesompeleGlenn MarshallFranki Speleman

Effective Alu repeat based RT-qPCR normalization in cancer cell perturbation experiments

Ali RihaniTom Van MaerkenFilip PattynGert Van PeerAnneleen BeckersSara De BrouwerCandy KumpsEvelien MetsJoni Van der MeulenPieter RondouCarina LeonelliPieter MestdaghFranki SpelemanJo Vandesompele

A1 Journal Article in PLOS ONE

Evaluation of qPCR curve analysis methods for reliable biomarker discovery: bias, resolution, precision, and implications

Jan M RuijterMichael W PfafflSheng ZhaoAndrej N SpiessGregory BoggyJochen BlomRobert G RutledgeDavide SistiAntoon LievensKatleen De PreterStefaan DerveauxJan HellemansJo Vandesompele

A1 Journal Article in METHODS

Expanding the TLX1 regulate in T-cell acute lymphoblastic leukemia towards long non-coding RNAs

Kaat DurinckJoni Van der MeulenMaté OngenaertPieter-Jan VoldersAnnelynn WallaertNadine Van RoyYves BenoitBruce PoppePieter MestdaghJo VandesompelePieter RondouJean SoulierPieter Van VlierbergheFranki Speleman

Expanding the TLX1-regulome in T cell acute lymphoblastic leukemia towards long non-coding RNAs

Kaat DurinckJoni Van der MeulenMaté OngenaertPieter-Jan VoldersAnnelynn WallaertNadine Van RoyYves BenoitBruce PoppePieter MestdaghJo VandesompelePieter RondouJean SoulierPieter Van VlierbergheFranki Speleman

Focal DNA copy number changes in neuroblastoma target MYCN regulated genes

Candy KumpsAnnelies FieuwPieter MestdaghBjörn MentenSteve LefeverFilip PattynSara De BrouwerTom SanteJohannes Hubertus SchulteAlexander SchrammNadine Van RoyTom Van MaerkenRosa NogueraValérie CombaretChristine DevalckFrank WestermannGenevieve LaureysAngelika EggertJo VandesompeleKatleen De PreterFranki Speleman

A1 Journal Article in PLOS ONE

Genome wide expression, mutation and methylation analysis validates three new mouse models for neuroblastoma targeting MYCN, ALK and LIN28B for pre-clinical studies

Anneleen BeckersBram De WildeMaté OngenaertCandy KumpsJohannes H SchulteJo VandesompeleKatleen De PreterFranki Speleman

Genome-wide promoter methylation analysis in neuroblastoma identifies prognostic methylation biomarkers

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeRuth LadensteinJohannes H SchulteRosa NogueraRaymond L StallingsAn Van DammeGenevieve LaureysJoëlle VermeulenTom Van MaerkenFranki SpelemanJo Vandesompele

Genome-wide promoter methylation analysis in neuroblastoma identifies prognostic methylation biomarkers

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeRuth LadensteinJohannes H SchulteRosa NogueraRaymond L StallingsAn Van DammeGenevieve LaureysTom Van MaerkenFranki SpelemanJo Vandesompele

High-throughput lncRNA expression profiling identifies candidate cancer lncRNAs

Pieter MestdaghSteve LefeverKristina AlthoffCarina LeonelliJan HellemansJean-Christophe MarineJohannes SchulteJo Vandesompele

Identification and functional characterization of lncRNAs in cancer

Pieter MestdaghSteve LefeverKristina AlthoffCarina LeonelliJan HellemansJean-Christophe MarineJohannes SchulteJo Vandesompele

Identification of miR-145 as a key regulator of the pigmentary process

Peter DynoodtPieter MestdaghGert Van PeerJo VandesompeleKaren GoossensLuc PeelmanBarbara GeusensReinhart SpeeckaertJo LambertMireille Van Gele

A1 Journal Article in JOURNAL OF INVESTIGATIVE DERMATOLOGY

Identification of miRNAs implicated in neuroblastoma tumor initiation and progression through cross-species integrated genomic analysis

Anneleen BeckersKatleen De PreterBelamy CheungSara De BrouwerGert Van PeerPieter MestdaghGenevieve LaureysJo VandesompeleGlenn MarshallFranki Speleman

Identifying and validating DNA methylation biomarkers: the example of neuroblastoma

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeRuth LadensteinJohannes H SchulteRosa NogueraRaymond L StallingsAn Van DammeGenevieve LaureysJoëlle VermeulenTom Van MaerkenFranki SpelemanJo Vandesompele

Improved outcome prediction of children with neuroblastoma using an integrated miRNA and DNA methylation signature

Anneleen DecockFjoralba ZekaKatleen De PreterFranki SpelemanJo Vandesompele

LNCipedia 2.0: a database for annotated human lncRNA transcript sequences and structures

Pieter-Jan VoldersKenny HelsensXiaowei WangLennart MartensKris GevaertJo VandesompelePieter Mestdagh

LNCipedia 2.0: a database for annotated human lncRNA transcript sequences and structures

Pieter-Jan VoldersKenny HelsensXiaowei WangLennart MartensKris GevaertJo VandesompelePieter Mestdagh

LNCipedia : a database for annotated human lncRNA transcript sequences and structures

Pieter-Jan VoldersKenny HelsensXiaowei WangBjörn MentenLennart MartensKris GevaertJo VandesompelePieter Mestdagh

A1 Journal Article in NUCLEIC ACIDS RESEARCH

LNCipedia: a database for annotated human lncRNA transcript sequences and structures

Pieter-Jan VoldersKenny HelsensXiaowei WangLennart MartensKris GevaertJo VandesompelePieter Mestdagh

MYCN and ALKF1174L are sufficient to drive neuroblastoma development from neural crest progenitor cells

JH SchulteS LindnerA BohrerJ MaurerKatleen De PreterSteve LefeverL HeukampS SchulteJ MolenaarR VersteegT ThorA KünkeleJo VandesompeleFranki SpelemanH SchorleA EggertA Schramm

A1 Journal Article in ONCOGENE

MiR-128 is a novel PHF6 targeting regulatory non-coding RNA acting as a T-ALL oncogene

Evelien MetsJoni Van der MeulenGert Van PeerMichael BoicePieter MestdaghTom TaghonDavid AvranBarbara De MoerlooseYves BenoitBruce PoppeJean SoulierJo VandesompelePieter Van VlierberghePieter RondouHans-Guido WendelFranki Speleman

Modulation of neuroblastoma disease pathogenesis by an extensive network of epigenetically regulated microRNAs

S DasK BryanPG BuckleyO PiskarevaIM BrayN FoleyJ RyanJ LynchL CreeveyJ FayS PrenterJ KosterP van SluisR VersteegA EggertJH SchulteA SchrammPieter MestdaghJo VandesompeleFranki SpelemanRL Stallings

A1 Journal Article in ONCOGENE

Of flies, mice and men : a systematic approach to understanding the early life origins of chronic lung disease

Susanne Krauss-EtschmannAndrew BushSaverio BellusciGuy BrusselleSven Erik K DahlénStefan DehmelOliver EickelbergGreg GibsonMachteld N HylkemaPetra KnausMelanie KönigshoffClare M LloydPaolo MacciariniArnaud MailleuxBenjamin J MarslandDirkje S PostmaGraham RobertsChristos SamakovlisJanet StocksJo VandesompeleMatthias WjstJohn Holloway

A1 Journal Article in THORAX

Reference loci for RT-qPCR analysis of differentiating human embryonic stem cells

Liesbeth VossaertThomas O'LearyChristophe Van NesteBjörn HeindryckxJo VandesompelePetra De SutterDieter Deforce

A1 Journal Article in BMC MOLECULAR BIOLOGY

Regulatory microRNA network identification in bovine blastocyst development

Karen GoossensPieter MestdaghSteve LefeverMario Van PouckeAlex Van ZeverenAnn Van SoomJo VandesompeleLuc Peelman

A1 Journal Article in STEM CELLS AND DEVELOPMENT

Selective inhibition of the p53–MDM2 interaction by nutlin drugs: a new therapeutic perspective for neuroblastoma

Tom Van MaerkenAli RihaniAlan Van GoethemAnne De PaepeFranki SpelemanJo Vandesompele

A2 Journal Article in PROCEEDINGS OF THE BELGIAN ROYAL ACADEMIES OF MEDICINE

Single-nucleotide polymorphisms and other mismatches reduce performance of quantitative PCR assays

Steve LefeverFilip PattynJan HellemansJo Vandesompele

A1 Journal Article in CLINICAL CHEMISTRY

The MYCN driven murine and human neuroblastoma methylome and dynamic regulation of chromatin regulators as a guide for epigenetic therapy

Anneleen BeckersAnneleen DecockBelamy CheungDaniel CarterGert Van PeerSara De BrouwerGenevieve LaureysJo VandesompeleJohannes H SchulteGlenn MarshallMaté OngenaertKatleen De PreterFranki Speleman

The digital MIQE guidelines : minimum information for publication of quantitative digital PCR experiments

Jim F HuggettCarole A FoyVladimir BenesKerry EmslieJeremy A GarsonRoss HaynesJan HellemansMikael KubistaReinhold D MuellerTania NolanMichael W PfafflGregory L ShipleyJo VandesompeleCarl T WittwerStephen A Bustin

A1 Journal Article in CLINICAL CHEMISTRY

The need for transparency and good practices in the qPCR literature

Stephen A BustinVladimir BenesJeremy GarsonJan HellemansJim HuggettMikael KubistaReinhold MuellerTania NolanMichael W PfafflGregory ShipleyCarl T WittwerPeter SchjerlingPhilip J DayMónica AbreuBegoña AguadoJean-François BeaulieuAnneleen BeckersSarah BogaertJohn A BrowneFernando Carrasco-RamiroLiesbeth CeelenKate CiborowskiPieter CornillieStephanie CoulonAnn CuypersSara De BrouwerLeentje De CeuninckJurgen De CraeneHélène De NaeyerWard De SpiegelaereKato DeckersAnnelies DheedeneKaat DurinckMargarida Ferreira-TeixeiraAnnelies FieuwJack M GallupSandra Gonzalo-FloresKaren GoossensFemke HeindryckxElizabeth HerringHans HoenickaLaura IcardiRolf JaggiFarzad JavadMichail KarampeliasFrederick KibengeMolly KibengeCandy KumpsIrina LambertzTim LammensAmelia MarkeyPeter MessiaenEvelien MetsSofia MoraisAlberto Mudarra-RubioJustine NakiwalaHilde NelisPal A OlsvikClaudina Perez NovoMichelle PlusquinTony RemansAli RihaniPaulo Rodrigues-SantosPieter RondouRebecca SandersKatharina Schmidt-BleekKerstin SkovgaardKaren SmeetsLaura TaberaStefan ToegelTim Van AckerWim Van Den BroeckJoni Van der MeulenMireille Van GeleGert Van PeerMario Van PouckeNadine Van RoySarah VergultJoris WaumanMarina Tshuikina-WiklanderErik WillemsSara ZaccaraFjoralba ZekaJo Vandesompele

A1 Journal Article in NATURE METHODS

miR-137 functions as a tumor suppressor in neuroblastoma by downregulating KDM1A

Kristina AlthoffAnneleen BeckersAndrea OderskyPieter MestdaghJohannes KösterIsabella BrayKenneth BryanJo VandesompeleFranki SpelemanRaymond StallingsAlexander SchrammAngelika EggertAnnika SprüsselJohannes Schulte

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

miRNAs distinguish children with myelodysplastic syndrome from healthy donors

Hetty HelsmoortelTim LammensPieter MestdaghNadine Van RoyAnne UyttebroeckAlina FersterYves BenoitJo VandesompeleFranki SpelemanPieter Van VlierbergheBarbara De Moerloose

miRNAs distinguish children with myelodysplastic syndrome from healthy donors

Hetty HelsmoortelTim LammensPieter MestdaghNadine Van RoyAnne UyttebroeckAlina FersterYves BenoitJo VandesompeleFranki SpelemanPieter Van VlierbergheBarbara De Moerloose

2012

ALK(F1174L) is a driving oncogene of neuroblastoma in transgenic mice

Johannes SchulteLukas HeukampTheresa ThorCandy KumpsKatleen De PreterBram De WildeJo VandesompeleFranki SpelemanAlexander SchrammAngelika Eggert

Accurate RT-qPCR gene expression analysis on cell culture lysates

Gert Van PeerPieter MestdaghJo Vandesompele

A1 Journal Article in SCIENTIFIC REPORTS

Cancer gene prioritization for targeted resequencing using fitSNP scores

Annelies FieuwBram De WildeFranki SpelemanJo VandesompeleKatleen De Preter

A1 Journal Article in PLOS ONE

Development of bioinformatics tools for high-throughput PCR applications

Steve LefeverJo Vandesompele

Dickkopf-3 is regulated by the MYCN-induced miR-17-92 cluster in neuroblastoma

Sara De BrouwerPieter MestdaghIrina LambertzFilip PattynAnne De PaepeFrank WestermannChristina SchroederJohannes H SchulteAlexander SchrammKatleen De PreterJo VandesompeleFranki Speleman

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Exon-level expression analyses identify MYCN and NTRK1 as major determinants of alternative exon usage and robustly predict primary neuroblastoma outcome

A SchrammB SchoweK FielitzM HeilmannM MartinT MarschallJ KösterJo VandesompeleJoëlle VermeulenKatleen De PreterJ KosterR VersteegR NogueraFranki SpelemanS RahmannA EggertK MorikJH Schulte

A1 Journal Article in BRITISH JOURNAL OF CANCER

Genome-wide promoter methylation analysis in neuroblastoma identifies prognostic methylation biomarkers.

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeRuth LadensteinJohannes H SchulteRosa NogueraRaymond L StallingsAn Van DammeGenevieve LaureysJoëlle VermeulenTom Van MaerkenFranki SpelemanJo Vandesompele

A1 Journal Article in GENOME BIOLOGY

Genomic profiling of MYCN and ALKF1174L transgenic neuroblastoma mouse models provides insights into the dynamic process of tumor formation

Katleen De PreterAnneleen BeckersCandy KumpsPieter MestdaghAngelika EggertJo VandesompeleFranki SpelemanJohannes H Schulte

Identification of a novel recurrent 1q42.2-1qter deletion in high risk MYCN single copy 11q deleted neuroblastomas

Annelies FieuwCandy KumpsAlexander SchrammFilip PattynBjörn MentenFrancesca AntonacciPeter SudmantJohannes H SchulteNadine Van RoySarah VergultPatrick G BuckleyAnne De PaepeRosa NogueraRogier VersteegRaymond StallingsAngelika EggertJo VandesompeleKatleen De PreterFranki Speleman

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Improved risk stratification and outcome prediction in children with average risk 1 precursor-B acute lymphoblastic leukemia using a 19-microRNA signature

Farzaneh GhazaviTim LammensStefan SuciuGenevieve LaureysMarleen BakkusAlina FersterAnne UyttebroeckPatrick LutzHélène CavéGeneviève PlatNicole DastugueMarie-Françoise DresseJoni Van der MeulenPieter MestdaghJo VandesompeleFranki SpelemanBarbara De MoerlooseYves Benoit

Improved risk-stratification and outcome prediction in children with average risk precursor-B acute lymphoblastic leukemia using a 19-microRNA signature

Farzaneh GhazaviTim LammensStefan SuciuGenevieve LaureysMarleen BakkusAlina FersterAnne UyttebroeckPatrick LutzHélène CavéGeneviève PlatNicole DastugueMarie-Françoise DresseJoni Van der MeulenPieter MestdaghJo VandesompeleFranki SpelemanBarbara De MoerlooseYves Benoit

Integrative genome analyses identify key somatic driver mutations of small-cell lung cancer

Martin PeiferLynnette Fernández-CuestaMartin L SosJulie GeorgeDanila SeidelLawryn H KasperDennis PlenkerFrauke LeendersRuping SunThomas ZanderRoopika MenonMirjam KokerIlona DahmenChristian MüllerVincenzo Di CerboHans-Ulrich SchildhausJanine AltmüllerIngelore BaessmannChristian BeckerBram De WildeJo VandesompeleDiana BöhmSascha AnsénFranziska GablerInes WilkeningStefanie HeynckJohannes M HeuckmannXin LuScott L CarterKristian CibulskisShantanu BanerjiGad GetzKwon-Sik ParkDaniel RauhChristian GrütterMatthias FischerLaura PasqualucciGavin WrightZoe WainerPrudence RussellIver PetersenYuan ChenErich StoelbenCorinna LudwigPhilipp SchnabelHans HoffmannThomas MuleyMichael BrockmannWalburga Engel-RiedelLucia A MuscarellaVito M FazioHarry GroenWim TimensHannie SietsmaErik ThunnissenEgbert SmitDaniëlle AM HeidemanPeter JF SnijdersFederico CappuzzoClaudia LigorioStefania DamianiJohn FieldSteinar SolbergOdd Terje BrustugunMarius Lund-IversenJörg SängerJoachim H ClementAlex SoltermannHolger MochWalter WederBenjamin SolomonJean-Charles SoriaPierre ValidireBenjamin BesseElisabeth BrambillaChristian BrambillaSylvia LantuejoulPhilippe LorimierPeter M SchneiderMichael HallekWilliam PaoMatthew MeyersonJulien SageJay ShendureRobert SchneiderReinhard BüttnerJürgen WolfPeter NürnbergSven PernerLukas C HeukampPaul K BrindleStefan HaasRoman K Thomas

A1 Journal Article in NATURE GENETICS

LIN28B induces neuroblastoma and enhances MYCN levels via let-7 suppression

Jan J MolenaarRaquel Domingo-FernándezMarli E EbusSven LindnerJan KosterKsenjia DrabekPieter MestdaghPeter van SluisLinda J ValentijnJohan van NesMarloes BroekmansFranciska HaneveldRichard VolckmannIsabella BrayLukas HeukampAnnika SprüsselTheresa ThorKristina KieckbuschLudger Klein-HitpassMatthias FischerJo VandesompeleAlexander SchrammMax M van NoeselLuigi VaresioFranki SpelemanAngelika EggertRaymond L StallingsHuib N CaronRogier VersteegJohannes H Schulte

A1 Journal Article in NATURE GENETICS

LNCipedia: a novel databse for annotated lncRNA sequences and structures

Pieter-Jan VoldersPieter MestdaghJo Vandesompele

Large-scale and targeted genomic screen reveals focal lncRNA copy number alterations in cancer cells

Pieter-Jan VoldersPieter MestdaghBjörn MentenJo Vandesompele

Lncipedia: a novel database for annotated lncRNA sequences and structures

Pieter-Jan VoldersKenny HelsensXiaowei WangLennart MartensKris GevaertJo VandesompelePieter Mestdagh

Lysine-specific demethylase 1 restricts hematopoietic progenitor proliferation and is essential for terminal differentiation

A SprüsselJH SchulteS WeberM NeckeK HändschkeT ThorKW PajtlerA SchrammK KönigL DiehlPieter MestdaghJo VandesompeleFranki SpelemanH JastrowLC HeukampR SchüleU DührsenR BuettnerA EggertJR Göthert

A1 Journal Article in LEUKEMIA

MYCN directly regulates long non-coding RNA expression in neuroblastoma

Pieter MestdaghJohannes SchulteFilip PattynFrank WestermannGenevieve LaureysFranki SpelemanJo Vandesompele

Mapping the neuroblastoma epigenome

Maté OngenaertAnneleen DecockJo VandesompeleFranki Speleman

Mapping the neuroblastoma epigenome: perspectives for improved prognostic biomarkers

Maté OngenaertAnneleen DecockGenevieve LaureysJo VandesompeleFranki Speleman

Mapping the neuroblastoma epigenome: perspectives for improved prognostic biomarkers

Maté OngenaertAnneleen DecockJo VandesompeleFranki Speleman

Massively parallel sequencing for early molecular diagnosis in Leber congenital amaurosis

Frauke CoppietersBram De WildeSteve LefeverEllen De MeesterNina De RockerCaroline Van CauwenberghFilip PattynFrançoise MeireBart LeroyJan HellemansJo VandesompeleElfride De Baere

A1 Journal Article in GENETICS IN MEDICINE

Molecular diagnostics for congenital hearing loss including 15 deafness genes using a next generation sequencing platform

Sarah De KeulenaerJan HellemansSteve LefeverJean-Pierre RenardJoachim De SchrijverHendrik Van de VoordeMohammad Amin TabatabaiefarFilip Van NieuwerburghDaisy FlamezFilip PattynBieke ScharlakenDieter DeforceSofie BekaertWim Van CriekingeJo VandesompeleGuy Van CampPaul Coucke

A1 Journal Article in BMC MEDICAL GENOMICS

N-Cadherin in neuroblastoma disease : expression and clinical significance

Tim LammensKatrien SwertsLara DeryckeANNEMIE DE CRAEMERSara De BrouwerKatleen De PreterNadine Van RoyJo VandesompeleFranki SpelemanJan PhilippéYves BenoitKlaus BeiskeMarc BrackeGenevieve Laureys

A1 Journal Article in PLOS ONE

Oncogenic activation of FOXR1 by 11q23 intrachromosomal deletion-fusions in neuroblastoma

EE SantoME EbusJ KosterJH SchulteA LakemanP van SluisJ VermeulenD GisselssonI ØraS LindnerPG BuckleyRL StallingsJo VandesompeleA EggertHN CaronR VersteegJJ Molenaar

A1 Journal Article in ONCOGENE

Promoter methylation analysis identifies prognostic methylation biomarkers in neuroblastoma

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeRuth LadensteinJohannes H SchulteRosa NogueraRaymond L StallingsAn Van DammeGenevieve LaureysJoëlle VermeulenTom Van MaerkenFranki SpelemanJo Vandesompele

Semi-high-throughput epigenetic validation using MSP on a real-time qPCR platform

Anneleen DecockMaté OngenaertJo VandesompeleFranki Speleman

Synthetic lethality between Rb, p53 and Dicer or miR-17-92 in retinal progenitors suppresses retinoblastoma formation

David NittnerIrina LambertzFrederic ClermontPieter MestdaghCorinna KöhlerSøren Jensby NielsenAart JochemsenFranki SpelemanJo VandesompeleMichael A DyerAlexander SchrammJohannes H SchulteJean-Christophe Marine

A1 Journal Article in NATURE CELL BIOLOGY

Targeted expression of mutated ALK induces neuroblastoma in transgenic mice

Lukas C HeukampTheresa ThorAlexander SchrammKatleen De PreterCandy KumpsBram De WildeAndrea OderskyMartin PeiferSven LindnerAnnika SpruesselFilip PattynPieter MestdaghBjörn MentenSteffi Kuhfittig-KulleAnnette KünkeleKatharina KönigLydia MederSampurna ChatterjeeRoland T UllrichStefanie SchulteJo VandesompeleFranki SpelemanReinhard BüttnerAngelika EggertJohannes H Schulte

A1 Journal Article in SCIENCE TRANSLATIONAL MEDICINE

Whole-genome RT-qPCR microRNA expression profiling

Pieter MestdaghStefaan DerveauxJo Vandesompele

Bookchapter in Functional genomics : methods and protocols

miRNA expression profiling: from reference genes to global mean normalization

Barbara D'haenePieter MestdaghJan HellemansJo Vandesompele

Bookchapter in Next-generation microRNA expression profiling technology : methods and protocols

microRNAs in colon cancer : a roadmap for discovery

Simona RossiAntonio Fabio Di NarzoPieter MestdaghBart JacobsFredrik T BosmanBengt GustavssonBernard MajoieArnaud RothJo VandesompeleIsidore RigoutsosMauro DelorenziSabine Tejpar

A1 Journal Article in FEBS LETTERS

2011

EVI1-mediated down regulation of MIR449A is essential for the survival of EVI1 positive leukaemic cells

An De WeerJoni Van der MeulenPieter RondouTom TaghonTorsten A KonradKatleen De PreterPieter MestdaghTom Van MaerkenNadine Van RoyMarta JeisonIsaac YanivBarbara CauwelierLucien NoensHélène-Antoine PoirelPeter VandenbergheFrédéric LambertAnne De PaepeMaria García SánchezMaria OderoBruno VerhasseltJan PhilippéJo VandesompeleRotraud WieserNicole DastuguePieter Van VlierbergheBruce PoppeFranki Speleman

A1 Journal Article in BRITISH JOURNAL OF HAEMATOLOGY

Ewings sarcoma and prostate cancer: different yet similar

Heinrich KovarStephan NiedanSven BilkeRaphaela SchwentnerJozef BanMaximilian KauerPieter MestdaghJo VandesompelePaul Meltzer

Exploring the neuroblastoma methylome using MBD2-seq

Maté OngenaertAnneleen DecockJo VandesompeleFranki Speleman

Functional analysis of the p53 pathway in neuroblastoma cells using the small-molecule MDM2 antagonist Nutlin-3

Tom Van MaerkenAli RihaniDaniel DreidaxSarah De ClercqNurten YigitJean-Christophe MarineFrank WestermannAnne De PaepeJo VandesompeleFranki Speleman

A1 Journal Article in MOLECULAR CANCER THERAPEUTICS

High ALK receptor tyrosine kinase expression supersedes ALK mutation as a determining factor of an unfavorable phenotype in primary neuroblastoma

Johannes H SchulteHagen S BachmannBent BrockmeyerKatleen De PreterAndré OberthürSandra AckermannYvonne KahlertKristian PajtlerJessica TheissenFrank WestermannJo VandesompeleFranki SpelemanFrank BertholdAngelika EggertBenedikt BrorsBarbara HeroAlexander SchrammMatthias Fischer

A1 Journal Article in CLINICAL CANCER RESEARCH

Hsa-mir-145 is the top EWS-FLI1-repressed microRNA involved in a positive feedback loop in Ewing's sarcoma

J BanG JugPieter MestdaghR SchwentnerM KauerDNT AryeeK-L SchaeferF NakataniK ScotlandiM ReiterD StrunkFranki SpelemanJo VandesompeleH Kovar

A1 Journal Article in ONCOGENE

Identification of a new rare recurrent 1q42.2-qter deletion in neuroblastoma

Annelies FieuwCandy KumpsAlexander SchrammBjörn MentenJohannes SchulteNadine Van RoySarah VergultRosa NogueraRogier VersteegR StallingsA EggertJo VandesompeleKatleen De PreterFranki Speleman

Mapping the neuroblastoma epigenome

Maté OngenaertAnneleen DecockJo VandesompeleFranki Speleman

Measurable impact of RNA quality on gene expression results from quantitative PCR

Joëlle VermeulenKatleen De PreterSteve LefeverJustine NuytensFanny De VloedStefaan DerveauxJan HellemansFranki SpelemanJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

MicroRNA expression in induced sputum of smokers and patients with chronic obstructive pulmonary disease

Geert Van PottelbergePieter MestdaghKen BrackeOlivier ThasYANNICK VAN DURMEGuy JoosJo VandesompeleGuy Brusselle

A1 Journal Article in AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

MicroRNA miR-885-5p targets CDK2 and MCM5, activates p53 and inhibits proliferation and survival

EA AfanasyevaPieter MestdaghCandy KumpsJo VandesompeleV EhemannJ TheissenMark ZapatkaBenedikt BrorsL SavelyevaV SagulenkoManfred SchwabFranki SpelemanFrank Westermann

A1 Journal Article in CELL DEATH AND DIFFERENTIATION

Molecular portraits of non-coding RNAs in neuroblastoma

Pieter MestdaghJo VandesompeleFranki Speleman

Neuroblastoma epigenetics : from candidate gene approaches to genome-wide screenings

Anneleen DecockMaté OngenaertJo VandesompeleFranki Speleman

A1 Journal Article in EPIGENETICS

Neuroblastoma genetics and phenotype: a tale of heterogeneity

Franki SpelemanKatleen De PreterJo Vandesompele

A1 Journal Article in SEMINARS IN CANCER BIOLOGY

New options for molecular therapy of neuroblastoma: from p53 to gene therapy

Tom Van MaerkenFranki SpelemanJo Vandesompele

Pharmacological activation of p53 and gene therapy as emerging treatment options for neuroblastoma

Tom Van MaerkenAli RihaniAnne De PaepeJo VandesompeleFranki Speleman

A2 Journal Article in BELGIAN JOURNAL OF MEDICAL ONCOLOGY

Pharmacological activation of the p53 pathway by nutlin-3 inhibits medulloblastoma cell proliferation in vitro and in vivo

Annette KünkeleKatleen De PreterJo VandesompeleTheresa ThorKristian PajtlerWolfgang HartmannLukas HeukampAlexander SchrammAngelika EggertJohannes H Schulte

Practical tools to implement massive parallel pyrosequencing of PCR products in next generation molecular diagnostics

Kim De LeeneerJoachim De SchrijverLieven ClementMachteld BaetensSteve LefeverSarah De KeulenaerWim Van CriekingeDieter DeforceFilip Van NieuwerburghSofie BekaertFilip PattynBram De WildePaul CouckeJo VandesompeleKathleen ClaesJan Hellemans

A1 Journal Article in PLOS ONE

Primer sequence disclosure : a clarification of the MIQE guidelines

Stephen A BustinVladimir BenesJeremy A GarsonJan HellemansJim HuggettMikael KubistaReinhold MuellerTania NolanMichael W PfafflGregory L ShipleyJo VandesompeleCarl T Wittwer

A1 Journal Article in CLINICAL CHEMISTRY

Regulatory networks governed by microRNAs in T-ALL oncogenesis and normal T-cell development

Joni Van der MeulenEvelien MetsPieter MestdaghPeter PipelersTom TaghonDavid Camacho TrujilloDavid AvranGert Van PeerNadine Van RoyOlivier ThasYves BenoitJo VandesompeleBruce PoppePieter Van VlierberghePieter RondouJean SoulierFranki Speleman

Selectieve inhibitie van de p53–MDM2 interactie door nutlin-3 als een nieuwe therapeutische strategie voor neuroblastoom

Tom Van MaerkenAli RihaniAnne De PaepeJo VandesompeleFranki Speleman

A2 Journal Article in TIJDSCHRIFT VAN DE BELGISCHE KINDERARTS = JOURNAL DU PEDIATRE BELGE

Semi-high throughput epigenetic validation using MSP on a real-time qPCR platform

Anneleen DecockMaté OngenaertJo VandesompeleFranki Speleman

Semi-high throughput epigenetic validation using MSP on a real-time qPCR platform

Anneleen DecockMaté OngenaertJo VandesompeleFranki Speleman

The miR-17-92 microRNA cluster regulates multiple components of the TGF-β pathway in neuroblastoma

Pieter MestdaghAna-Karin BostromFrancis ImpensErik FredlundGert Van PeerPaquito De AntonelisKristoffer Von StedingkBart GhesquièreStefanie SchulteMichael DewsAndrei Thomas-TikhonenkoJohannes SchulteMassimo ZolloAlexander SchrammKris GevaertHakan AxelsonsFranki SpelemanJo Vandesompele

The microRNA body map : dissecting microRNA function through integrative genomics

Pieter MestdaghSteve LefeverFilip PattynDana RidzonErik FredlundAnnelies FieuwMaté OngenaertJoëlle VermeulenAnne De PaepeLinda WongFranki SpelemanCaiFu ChenJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

miRNA Expression profiling enables risk stratification in archived and fresh neuroblastoma tumor samples

Katleen De PreterPieter MestdaghJoëlle VermeulenFjoralba ZekaAlene NaranjoIsabella BrayVictoria CastelCaifu ChenElzbieta DrozynskaAngelika EggertMichael D HogartyEwa Iżycka-SwieszewskaWendy B LondonRosa NogueraMarta PiquerasKenneth BryanBenjamin SchowePeter van SluisJan J MolenaarAlexander SchrammJohannes H SchulteRaymond L StallingsRogier VersteegGenevieve LaureysNadine Van RoyFranki SpelemanJo Vandesompele

A1 Journal Article in CLINICAL CANCER RESEARCH

2010

Accurate Outcome Prediction in Neuroblastoma across Independent Data Sets Using a Multigene Signature

Katleen De PreterJoëlle VermeulenB BrorsO DelattreA EggertM FischerI Janoueix-LeroseyC LavarinoJM MarisJ MoraA NakagawaraA OberthuerM OhiraG SchleiermacherA SchrammJH SchulteQ WangF WestermannFranki SpelemanJo Vandesompele

A1 Journal Article in CLINICAL CANCER RESEARCH

Accurate and objective copy number profiling using real-time quantitative PCR

B D'haeneJo VandesompeleJan Hellemans

A1 Journal Article in METHODS

Accurate prediction of neuroblastoma outcome based on miRNA expression profiles

Johannes H SchulteBenjamin SchowePieter MestdaghLars KaderaliPrabhav KalaghatgiStefanie SchlierfJoëlle VermeulenBent BrockmeyerKristian PajtlerTheresa ThorKatleen De PreterFranki SpelemanKatharina MorikAngelika EggertJo VandesompeleAlexander Schramm

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Accurate prediction of neuroblastoma outcome based on miRNA expression profiles

Johannes SchulteBenjamin SchowePieter MestdaghLars KaderaliPrabhav KalaghatgiStefanie SchlierfJoëlle VermeulenBent BrockmeyerKristian PajtlerTheresa ThorKatleen De PreterFranki SpelemanKatharina MarikAngelika EggertJo VandesompeleAlexander Schramm

An integrated genomics approach unravels a role for micro-RNAs in EWS-FLI1 driven Ewings sarcoma pathogenesis

Heinrich KovarPieter MestdaghMax KauerJozef BanSven BilkeRaphaela SchwentnerFranki SpelemanPaul MeltzerJo Vandesompele

An integrative genomics screen uncovers ncRNA T-UCR functions in neuroblastoma tumours

Pieter MestdaghErik FredlundFilip PattynAli RihaniTom Van MaerkenJoëlle VermeulenCandy KumpsBjörn MentenKatleen De PreterAlexander SchrammJohannes SchulteRosa NogueraGudrun SchleiermacherIsabelle Janoueix-LeroseyGenevieve LaureysRob PowelDavid NittnerJean-Christophe MarineMarkus RignerFranki SpelemanJo Vandesompele

An integrative genomics screen uncovers ncRNA T-UCR functions in neuroblastoma tumours

Pieter MestdaghE FredlundFilip PattynAli RihaniTom Van MaerkenJoëlle VermeulenCandy KumpsBjörn MentenKatleen De PreterA SchrammJ SchulteR NogueraG SchleiermacherI Janoueix-LeroseyGenevieve LaureysR PowelDavid NittnerJean-Christophe MarineM RingnerFranki SpelemanJo Vandesompele

A1 Journal Article in ONCOGENE

Analysing 454 amplicon resequencing experiments using the modular and database oriented Variant Identification Pipeline

Joachim De SchrijverKim De LeeneerSteve LefeverNick SabbeFilip PattynFilip Van NieuwerburghPaul CouckeDieter DeforceJo VandesompeleSofie BekaertJan HellemansWim Van Criekinge

A1 Journal Article in BMC BIOINFORMATICS

Chromosomal and microRNA expression patterns reveal biologically distinct subgroups of 11q- neuroblastoma

Patrick G BuckleyLeah AlcockKenneth BryanIsabella BrayJohannes H SchulteAlexander SchrammAngelika EggertPieter MestdaghKatleen De PreterJo VandesompeleFranki SpelemanRaymond L Stallings

A1 Journal Article in CLINICAL CANCER RESEARCH

Deep sequencing reveals differential expression of microRNAs in favorable versus unfavorable neuroblastoma

Johannes H SchulteTobias MarschallMarcel MartinPhilipp RosenstielPieter MestdaghStefanie SchlierfTheresa ThorJo VandesompeleAngelika EggertStefan SchreiberSven RahmannAlexander Schramm

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Deep sequencing reveals differential expression of microRNAs in favourable versus unfavourable neuroblastoma

Johannes SchulteTobias MarshallMarcel MartinPhilipp RosenstielPieter MestdaghStefanie SchlierfTheresa ThorJo VandesompeleAngelika EggertStefan SchreiberSven RahmannAlexander Schramm

Different mucosal expression of Th17 related genes in the small and large bowel of IBD patients

Sarah BogaertDebby LaukensHarald PeetersLode MelisKim OlievierNico BoonJo VandesompeleDirk ElewautMartine De Vos

Differential mucosal expression of Th17-related genes between the inflamed colon and ileum of patients with inflammatory bowel disease

Sara BogaertDebby LaukensHarald PeetersLode MelisKim OlievierNico BoonAugust VerbruggenJo VandesompeleDirk ElewautMartine De Vos

A1 Journal Article in BMC IMMUNOLOGY

Exploring 3D pooled next-generation sequencing using SNP-Cub^3

Joachim De SchrijverBram De WildeGeert TrooskensJo VandesompeleWim Van Criekinge

High expression of the ALK receptor tyrosine kinase precedes mutation as a determining factor of unfavourable phenotype in primary neuroblastoma

Johannes SchulteHagen BachmannBent BrockmeyerSandra NowackiYvonne KahlertAndre OberthurKatleen De PreterKristian PajtlerJessica TheissenFrank WestermannFranki SpelemanJo VandesompeleFrank BertholdAngelika EggertBarbara HeroAlexander SchrammMatthias Fischer

How to do successful gene expression analysis using real-time PCR

Stefaan DerveauxJo VandesompeleJan Hellemans

A1 Journal Article in METHODS

Improved Molecular Diagnostics of Idiopathic Short Stature and Allied Disorders: Quantitative Polymerase Chain Reaction-Based Copy Number Profiling of SHOX and Pseudoautosomal Region 1

B D'haeneJan HellemansMargarita CraenJean De SchepperK DevriendtJP FrynsK KeymolenEveline DebalsA de KleinEM de JongK SegersAnne De PaepeGeert MortierJo VandesompeleElfride De Baere

A1 Journal Article in JOURNAL OF CLINICAL ENDOCRINOLOGY & METABOLISM

MYCN/c-MYC-induced microRNAs repress coding gene networks associated with poor outcome in MYCN/c-MYC-activated tumors

Pieter MestdaghE FredlundFilip PattynJH SchulteD MuthJoëlle VermeulenCandy KumpsS SchlierfKatleen De PreterNadine Van RoyR NogueraGenevieve LaureysA SchrammA EggertF WestermannFranki SpelemanJo Vandesompele

A1 Journal Article in ONCOGENE

Meta-analysis of neuroblastomas reveals a skewed ALK mutation spectrum in tumors with MYCN amplification

Sara De BrouwerKatleen De PreterCandy KumpsPiotr ZabrockiMichael PorcuEllen M WesterhoutArjan LakemanJo VandesompeleJasmien HoebeeckTom Van MaerkenAnne De PaepeGenevieve LaureysJohannes H SchulteAlexander SchrammCaroline Van den BroeckeJoëlle VermeulenNadine Van RoyKlaus BeiskeMarleen RenardRosa NogueraOlivier DelattreIsabelle Janoueix-LeroseyPer KognerTommy MartinssonAkira NakagawaraMiki OhiraHuib CaronAngelika EggertJan CoolsRogier VersteegFranki Speleman

A1 Journal Article in CLINICAL CANCER RESEARCH

MicroRNA expression profiling to identify and validate reference genes for relative quantification in colorectal cancer

KH ChangPieter MestdaghJo VandesompeleMJ KerinN Miller

A1 Journal Article in BMC CANCER

Monoallelic but not biallelic loss of Dicer1 promotes tumorigenesis in vivo

Irina LambertzDavid NittnerPieter MestdaghGeertrui DeneckerJo VandesompeleMA DyerJean-Christophe Marine

A1 Journal Article in CELL DEATH AND DIFFERENTIATION

Multiplex Amplicon Quantification (MAQ), a fast and efficient method for the simultaneous detection of copy number alterations in neuroblastoma

Candy KumpsNadine Van RoyL HeyrmanD GoossensJ Del-FaveroR NogueraJo VandesompeleFranki SpelemanKatleen De Preter

A1 Journal Article in BMC GENOMICS

Next generation sequencing: (r)evolutie in DNA sequenering en haar rol in de moderne geneeskunde

JAN HELLEMANSSofie BekaertJo VandesompelePaul CouckeAnne De Paepe

A2 Journal Article in TIJDSCHRIFT VOOR GENEESKUNDE

Pharmacologic activation of the P53 pathway by Nutlin-3 inhibits medulloblastoma cell proliferation in vitro

Annette KuenkeleKatleen De PreterJo VandesompeleKristian PajtlerLukas HeukampMichael GrotzerAlexander SchrammAngelika EggertJohannes Schulte

Predicting outcomes for children with neuroblastoma

Joëlle VermeulenKatleen De PreterPieter MestdaghGenevieve LaureysFranki SpelemanJo Vandesompele

A1 Journal Article in DISCOVERY MEDICINE

Prognostic impact of gene expression-based classification for neuroblastoma

Andre OberthuerBarbara HeroFrank BertholdDilafruz JuraevaAndreas FaldumYvonne KahlertShahab AsgharzadehRobert SeegerPaola ScaruffiGian Paolo ToniniIsabelle Janoueix-LeroseyOlivier DelattreGudrun SchleiermacherJo VandesompeleJoëlle VermeulenFranki SpelemanRosa NogueraMarta PiquerasJean BenardAlexander ValentSmadar AvigadIsaac YanivAxel WeberHolger ChristiansenRichard G GrundyKatharina SchardtManfred SchwabRoland EilsPatrick WarnatLars KaderaliThorsten SimonBoris DeCarolisJessica TheissenFrank WestermannBenedikt BrorsMatthias Fischer

A1 Journal Article in JOURNAL OF CLINICAL ONCOLOGY

The miR-17-92 MicroRNA Cluster regulates multiple components of the TGF-beta Pathway in neuroblastoma

Pieter MestdaghAnna-Karin BostromFrancis ImpensErik FredlundGert Van PeerPasqualino De AntonellisKristoffer von StedingkBart GhesquièreStefanie SchulteMichael DewsAndrei Thomas-TikhonenkoJohannes H SchulteMassimo ZolloAlexander SchrammKris GevaertHakan AxelsonFranki SpelemanJo Vandesompele

A1 Journal Article in MOLECULAR CELL

The miRNA body map: dissecting miRNA function through integrative genomics

Pieter MestdaghSteve LefeverFilip PattynDana RidzonErik FredlundAnnelies FieuwJoëlle VermeulenAnne De PaepeLinda WongFranki SpelemanCaifu ChenJo Vandesompele

methGraph: A genome visualization tool for PCR-based methylation assays

Steve LefeverJasmien HoebeeckFilip PattynGábor TusnádyAnne De PaepeFranki SpelemanTamás ArányiJo Vandesompele

A1 Journal Article in EPIGENETICS

miR-9, a MYC/MYCN-activated microRNA, regulates E-cadherin and cancer metastasis

L MaJ YoungH PrabhalaE PanPieter MestdaghD MuthJ Teruya-FeldsteinF ReinhardtTT OnderS ValastyanF WestermannFranki SpelemanJo VandesompeleRA Weinberg

A1 Journal Article in NATURE CELL BIOLOGY

mir-17-92 is a master regulator of TGFβ-pathway activity in neuroblastoma

Pieter MestdaghAnna-Karin BöstromFrancis ImpensErik FredlundKris Von StedingkBart GhesquièreStefanie SchlierfJohannes SchulteAlexander SchrammKris GevaertHakan AxelsonFranki SpelemanJo Vandesompele

2009

59-gene prognostic signature sub-stratifies high-risk neuroblastoma patients

Joëlle VermeulenKatleen De PreterGenevieve LaureysFranki SpelemanJo Vandesompele

Editorial material

A novel and universal method for microRNA RT-qPCR data normalization

Pieter MestdaghPieter Van VlierbergheAn De WeerDaniel MuthFrank WestermannFranki SpelemanJo Vandesompele

A1 Journal Article in GENOME BIOLOGY

ALK Mutation Analysis in Patients of the German Neuroblastoma Study

B BrockmeyerJH SchulteA OberthuerPieter MestdaghK PajtlerJ TheissenH BachmannB HeroJo VandesompeleF BertholdA EggertA SchrammM Fischer

Aberrant methylation of candidate tumor suppressor genes in neuroblastoma

Jasmien HoebeeckEvi MichelsFilip PattynValerie CombaretJoelle VermeulenNurten YigitClaire HoyouxGenevieve LaureysAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in CANCER LETTERS

Amphiregulin and Epiregulin mRNA expression in primary tumors predicts outcome in metastatic colorectal cancer treated with Cetuximab

Bart JacobsWendy De RoockHubert PiessevauxRobin Van OirbeekBart BiesmansJef De SchutterSteffen FieuwsJo VandesompeleMarc PeetersJean-Luc Van LaethemYves HumbletFrederique Penault-LlorcaGert De HertoghPierre Laurent-PuigEric Van CutsemSabine Tejpar

A1 Journal Article in JOURNAL OF CLINICAL ONCOLOGY

An assessment of air as a source of DNA contamination encountered when performing PCR

N WittG RodgerJo VandesompeleV BenesA ZumlaGA RookJF Huggett

A2 Journal Article in Journal of biomolecular techniques

Antitumor Activity of the Selective MDM2 Antagonist Nutlin-3 Against Chemoresistant Neuroblastoma With Wild-Type p53

Tom Van MaerkenLiesbeth FerdinandeJasmien TaildemanIrina LambertzNurten YigitLiesbeth VercruysseAli RihaniMartin MichaelisJindrich CinatlClaude CuvelierJean-Christophe MarineAnne De PaepeMarc BrackeFranki SpelemanJo Vandesompele

A1 Journal Article in JOURNAL OF THE NATIONAL CANCER INSTITUTE

Chromosome 3p microsatellite allelotyping in neuroblastoma: a report on the technical hurdles

Jasmien HoebeeckBram De WildeEvi MichelsValerie CombaretNurten YigitEls De SmetNadine Van RoyEric StanbridgeNing RuGenevieve LaureysAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in CANCER INVESTIGATION

Comparison of miRNA profiles of microdissected Hodgkin/Reed-Sternberg cells and Hodgkin cell lines versus CD77+ B-cells reveals a distinct subset of differentially expressed miRNAs

Pieter Van VlierbergheAn De WeerPieter MestdaghTom FeysKatleen De PreterAnne De PaepeKathleen LambeinJo VandesompeleNadine Van RoyBruno VerhasseltBruce PoppeFranki Speleman

A1 Journal Article in BRITISH JOURNAL OF HAEMATOLOGY

Correlation between porcine PPARGC1A mRNA expression and its downstream target genes in backfat and longissimus dorsi muscle

Tim ErkensJo VandesompeleAlex Van ZeverenLuc Peelman

A1 Journal Article in JOURNAL OF APPLIED GENETICS

Downregulation of miR-449a is essential for the survival of EVI1 positive leukemic cells through modulation of NOTCH1 and BCL2

An De WeerPieter MestdaghKatleen De PreterJoni Van der MeulenPieter Van VlierbergheTom Van MaerkenNadine Van RoyMarta JeisonIsaac YanivBarbara CauwelierLucien NoensHélène-Antoine PoirelPeter VandenbergheFrédéric LambertAnne De PaepeTorsten KonradRotraud WieserMaria Garcia SanchezMaria OderoBruno VerhasseltJan PhilippéJo VandesompeleNicole DastugueBruce PoppeFranki Speleman

EFFECT OF ZAP-70 ON MIRNA EXPRESSION PROFILE IN CHRONIC LYMPHOCYTIC LEUKEMIA

Valerie PedeJan PhilippéPieter MestdaghJo VandesompeleBruno Verhasselt

Escape from p53-mediated tumor surveillance in neuroblastoma: switching off the p14(ARF)-MDM2-p53 axis

Tom Van MaerkenJo VandesompeleAli RihaniAnne De PaepeFranki Speleman

A1 Journal Article in Cell Death & Differentiation

External oligonucleotide standards enable cross laboratory comparison and exchange of real-time quantitative PCR data

Joëlle VermeulenFilip PattynKatleen De PreterLiesbeth VercruysseStefaan DerveauxPieter MestdaghSteve LefeverJAN HELLEMANSFranki SpelemanJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Gebruik van genexpresieanalyse in de aanpak van neuroblastoom bij kinderen

Joëlle VermeulenKatleen De PreterPieter MestdaghFilip PattynAnne De PaepeNadine Van RoyGenevieve LaureysFranki SpelemanJo Vandesompele

A4 Journal Article in ONCO (NEDERLANDSE ED.)

Gene expression of PPARGC1A and several downstream target genes in porcine backfat and longissimus dorsi muscle

Tim ErkensJo VandesompeleMario Van PouckeAlex Van ZeverenLuc Peelman

Genetic analysis of PRNP, SPRN and RPSA in relation to prion disease resistance in sheep

Mario Van PouckeEvelyne LampoAlice Van den BroekeNicolas WilemarckDominique Vander DoncktCarolien RogiersTim ErkensKaren GoossensJo VandesompeleAlex Van ZeverenLuc Peelman

Improved outcome prediction of children with neuroblastoma using a multigene expression signature

Joëlle VermeulenJo VandesompeleFranki Speleman

MICRORNA SIGNATURES IN GENETIC SUBTYPES OF T-CELL ACUTE LYMPHOBLASTIC LEUKEMIA

Joni Van der MeulenPieter Van VlierberghePieter MestdaghJo VandesompeleBruce PoppeNadine Van RoyTom TaghonJean PlumB. CauwelierDLD SelleslagP HeimannP. VandenbergheN DastugueE DelabesseC GervaisMJ GregoireMJ MozziconacciC LefebvreJPP MeijerinkJ Buijs-GladdinesBarbara De MoerlooseYves BenoitAnne De PaepeFranki Speleman

MODULATION OF MIR-449A EXPRESSION DECREASES CELL VIABILITY, INCREASES APOPTOSIS AND INDUCES DIFFERENTIATION IN EVI1 DEREGULATED LEUKEMIA CELLS

An De WeerBruce PoppePieter MestdaghKatleen De PreterPieter Van VlierbergheNadine Van RoyM JeisonB CauwelierBruno VerhasseltJan PhilippéLucien NoensHA PoirelPieter VandenbergheF LambertAnne De PaepeN DastugueJo VandesompeleFranki Speleman

Meta-mining of Neuroblastoma and Neuroblast Gene Expression Profiles Reveals Candidate Therapeutic Compounds

Katleen De PreterSara De BrouwerTom Van MaerkenFilip PattynA SchrammA EggertJo VandesompeleFranki Speleman

A1 Journal Article in CLINICAL CANCER RESEARCH

Modeling neuroblastomagenesis from neural crest stem cells in vitro and in vivo

J SchulteA BohrerE MahlowJ MaurerH SchorleKatleen De PreterJo VandesompeleFranki SpelemanS SchlierfK PajtlerA SchrammA Eggert

Positive correlation between relative mRNA expression of PRNP and SPRN in cerebral and cerebellar cortex of sheep

Evelyne LampoMario Van PouckeJo VandesompeleTim ErkensAlex Van ZeverenLuc Peelman

A1 Journal Article in Molecular and Cellular Probes

Predicting outcomes for children with neuroblastoma using a multigene-expression signature: a retrospective SIOPEN/COG/GPOH study

Joëlle VermeulenKatleen De PreterArlene NaranjoLiesbeth VercruysseNadine Van RoyJAN HELLEMANSKatrien SwertsSophie BravoPaolo ScaruffiGian Paolo ToniniBruno De BernardiRosa NogueraMarta PiquerasAdela CaneteVictoria CastelIsobelle Janoueix-LeroseyOlivier DelattreGudrun SchleiermacherJean MichonValreie CombaretMatthias FischerAndre OberthuerPeter F AmbrosKlaus BeiskeJean BenardBarbara MarquesHerve RubieJanice KohlerUlrike PotschgerRuth LadensteinMichael D HogartyPatrick McGradyWendy B LondonGenevieve LaureysFranki SpelemanJo Vandesompele

A1 Journal Article in LANCET ONCOLOGY

Prognostic role and functional analyses of miRNA expression in neuroblastoma

S SchlierfPieter MestdaghT ThorKatleen De PreterM BaumannA EggertJo VandesompeleA SchrammJH Schulte

RDML : structured language and reporting guidelines for real-time quantitative PCR data

Steve LefeverJAN HELLEMANSFilip PattynDaniel R PrzybylskiChris TaylorRené GeurtsAndreas UntergasserJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

RNA pre-amplification enables large-scale RT-qPCR gene-expression studies on limiting sample amounts

Joëlle VermeulenStefaan DerveauxSteve LefeverEls De SmetKatleen De PreterNurten YigitAnne De PaepeFilip PattynFranki SpelemanJo Vandesompele

A2 Journal Article in BMC RESEARCH NOTES

RTPrimerDB : the portal for real-time PCR primers and probes

Steve LefeverJo VandesompeleFranki SpelemanFilip Pattyn

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Risk estimation of neuroblastoma patients by gene expression based classification

M FischerA OberthuerB BrorsF WestermannJ TheissenS AsgharzadehR SeegerP ScaruffiGP ToniniI Janoueix-LeroseyO DelattreJo VandesompeleFranki SpelemanR NogueraM PiquerasJ BenardA ValentS AvigadI YanivA WeberH ChristiansenR GrundyT SimonB HeroF Berthold

Selection of reference genes for quantitative real-time PCR in equine in vivo and in vitro blastocysts

Katrien SmitsKaren GoossensAnn Van SoomJan GovaereMaarten HoogewijsEmilie VanhaesebrouckCesare GalliSilvia ColleoniJo VandesompeleLuc Peelman

A2 Journal Article in BMC RESEARCH NOTES

Standardization of qPCR and RT-qPCR

SA BustinJo VandesompeleMW Pfaffl

A1 Journal Article in GENETIC ENGINEERING & BIOTECHNOLOGY NEWS

The MIQE Guidelines: Minimum Information for Publication of Quantitative Real-Time PCR Experiments

SA BustinV BenesJA GarsonJAN HELLEMANSJ HuggettM KubistaR MuellerT NolanMW PfafflGL ShipleyJo VandesompeleCT Wittwer

A1 Journal Article in CLINICAL CHEMISTRY

The emerging molecular pathogenesis of neuroblastoma : implications for improved risk assessment and targeted therapy

Nadine Van RoyKatleen De PreterJasmien HoebeeckTom Van MaerkenFilip PattynPieter MestdaghJoëlle VermeulenJo VandesompeleFranki Speleman

A1 Journal Article in GENOME MEDICINE

The miR-17-92 gene cluster is amplified and overexpressed in retinoblastoma

E BiewaldPieter MestdaghH StephanKatleen De PreterT ThorM BaumannD LohmannA EggertFranki SpelemanA SchrammJo VandesompeleJH Schulte

The miR-17-92 gene cluster is amplified and overexpressed in retinoblastoma

J SchulteE BiewaldPieter MestdaghH StephanKatleen De PreterD LohmannFranki SpelemanA SchrammJo VandesompeleA Eggert

Unreliable Real-Time PCR Analysis of Human Endogenous Retrovirus-W (HERV-W) RNA Expression and DNA Copy Number in Multiple Sclerosis

JA GarsonJF HuggettSA BustinMW PfafflV BenesJo VandesompeleGL Shipley

A1 Journal Article in AIDS RESEARCH AND HUMAN RETROVIRUSES

Using real-time qPCR to evaluate RNAi-mediated gene silencing

Tom Van MaerkenPieter MestdaghS De ClercqFilip PattynNurten YigitAnne De PaepeJ C MarineFranki SpelemanJo Vandesompele

A2 Journal Article in BioTechniques Protocol Guide

Widespread dysregulation of MiRNAs by MYCN amplification and chromosomal imbalances in neuroblastoma: association of miRNA expression with survival

I. BrayK. BryanS. PrenterP. G. BuckleyN. H. FoleyD. M. MurphyL. AlcockPieter MestdaghJo VandesompeleFranki SpelemanW. B. LondonP. W. McGradyD. G. HigginsA. O'MearaM. O'SullivanR. L. Stallings

A1 Journal Article in PLoS One

2008

A constitutional translocation t(1;17)(p36.2;q11.2) in a neuroblastoma patient disrupts the human NBPF1 and ACCN1 genes

Karl VandepoeleVanessa AndriesNadine Van RoyKatrien StaesJo VandesompeleGenevieve LaureysEls De SmetGeert BerxFranki SpelemanFrans Van Roy

A1 Journal Article in PLOS ONE

A constitutional translocation t(1;17)(p36.2;q11.2) in a neuroblastoma patient disrupts the the human NBPF1 and ACCN1 genes

Frans Van RoyKlaas VandepoeleNadine Van RoyVanessa AndriesKatrien StaesJo VandesompeleGenevieve LaureysEls De SmetGeert BerxFranki Speleman

Aberrant splicing of the PTPRD gene mimics microdeletions identified at this locus in neuroblastomas (vol 47, pg 197, 2008)

Prakash NairKatleen De PreterJo VandesompeleFranki SpelemanRaymond L Stallings

Aberrant splicing of the PTPRD gene mimics microdeletions identified-at locus this in neuroblastomas

Prakash NairKatleen De PreterJo VandesompeleFranki SpelemanRaymond L Stallings

A1 Journal Article in GENES CHROMOSOMES & CANCER

CADM1 is a strong neuroblastoma candidate gene that maps within a 3.72 Mb critical region of loss on 11q23

Evi MichelsJasmien HoebeeckKatleen De PreterAlexander SchrammBénédicte BrichardAnne De PaepeAngelika EggertGenevieve LaureysJo VandesompeleFranki Speleman

A1 Journal Article in BMC CANCER

Distinct transcriptional MYCN/c-MYC activities are associated with spontaneous regression or malignant progression in neuroblastomas

F WestermannD MuthA BennerT BauerKO HenrichA OberthuerB BrorsT BeissbarthJo VandesompeleFilip PattynB HeroR KonigM FischerM Schwab

A1 Journal Article in GENOME BIOLOGY

Expression profiling of a new class of non-coding RNAs in human neuroblastoma

Pieter MestdaghFilip PattynKatleen De PreterJoëlle VermeulenAnne De PaepeFranki SpelemanJo Vandesompele

Gene sets enrichment analysis of chromosomal regions

Katleen De PreterRoland BarriotFranki SpelemanJo VandesompeleYves Moreau

High resolution genome analysis for improved prognostic stratification and candidate gene selection in neuroblastoma

Evi MichelsFranki SpelemanJo Vandesompele

High throughput stem-loop RT-PCR miRNA expression profiling using minute amounts of input RNA reveals new insights in neuroblastoma pathogenesis

Pieter MestdaghJoëlle VermeulenKatleen De PreterFilip PattynGenevieve LaureysRosa NogueraMarta PiquerasFranki SpelemanJo Vandesompele

High-throughput stem-loop RT-PCR miRNA expression profiling using minute amounts of input RNA

Pieter MestdaghTom FeysNathalie BernardSimone GuentherCaifu ChenVladimir BenesFranki SpelemanJo Vandesompele

High-throughput stem-loop RT-qPCR miRNA expression profiling using minute amounts of input RNA

Pieter MestdaghTom FeysNathalie BernardSimone GuentherCaifu ChenFranki SpelemanJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Identification of 2 putative critical segments of 17q gain in neuroblastoma through integrative genomics

Jo VandesompeleEvi MichelsKatleen De PreterBjörn MentenAlexander SchrammAngelika EggertPeter F AmbrosValérie CombaretNadine FrancotteFrancesca AntonacciAnne De PaepeGenevieve LaureysFranki SpelemanNadine Van Roy

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Low-cost dedicated mini-arrays for high-throughput analysis of DNA copy-number alterations in neuroblastoma

Katleen De PreterBjörn MentenSara De BrouwerCandy KumpsEvi MichelsNadine Van RoyJo VandesompeleFranki Speleman

A1 Journal Article in CANCER LETTERS

MICRORNA PROFILING OF EVI1 DEREGULATED MYELOID LEUKEMIA

An De WeerBruce PoppePieter MestdaghPieter Van VlierbergheNadine Van RoyAnne De PaepeBruno VerhasseltJo VandesompeleFranki Speleman

MYCN regulates oncogenic and tumour suppressor miRNA networks in neuroblastoma

Pieter MestdaghJoëlle VermeulenFilip PattynLiesbeth VercruysseAnne De PaepeGenevieve LaureysFranki SpelemanJo Vandesompele

Positional gene enrichment analysis of gene sets for high-resolution identification of overrepresented chromosomal regions

Katleen De PreterRoland BarriotFranki SpelemanJo VandesompeleYves Moreau

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Positive correlation between relative mRNA expression of PRNP and SPRN in cerebral cortex of sheep

Evelyne LampoMario Van PouckeJo VandesompeleTim ErkensAlex Van ZeverenLuc Peelman

Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project

Chris F TaylorDawn FieldSusanna-Assunta SansoneJan AertsRolf ApweilerMichael AshburnerCatherine A BallPierre-Alain BinzMolly BogueTim BoothAlvis BrazmaRyan R BrinkmanAdam Michael ClarkEric W DeutschOliver FiehnJennifer FostelPeter GhazalFrank GibsonTanya GrayGraeme GrimesJohn M HancockNigel W HardyHenning HermjakobRandall K, Jr JulianMatthew KaneCarsten KettnerChristopher KinsingerEugene KolkerMartin KuiperNicolas Le NovèreJim Leebens-MackSuzanna E LewisPhillip LordAnn-Marie MallonNishanth MarthandanHiroshi MasuyaRuth McNallyAlexander MehrleNorman MorrisonSandra OrchardJohn QuackenbushJames M ReecyDonald G RobertsonPhilippe Rocca-SerraHenry RodriguezHeiko RosenfelderJavier Santoyo-LopezRichard H ScheuermannDaniel SchoberBarry SmithJason SnapeChristian J, Jr StoeckertKeith TiptonPeter SterkAndreas UntergasserJo VandesompeleStefan Wiemann

A1 Journal Article in NATURE BIOTECHNOLOGY

Real-time qPCR as a tool for evaluating RNAi-mediated gene silencing

Tom Van MaerkenPieter MestdaghSarah De ClercqFilip PattynNurten YigitAnne De PaepeJean-Christophe MarineFranki SpelemanJo Vandesompele

A2 Journal Article in Bioradiations

Selection and validation of a set of reliable reference genes for quantitative sod gene expression analysis in C-elegans

David HoogewijsKoen HouthoofdFilip MatthijssensJo VandesompeleJacques Vanfleteren

A1 Journal Article in BMC MOLECULAR BIOLOGY

Standardization of real-time PCR gene expression data from independent biological replicates

Erik WillemsLuc LeynsJo Vandesompele

Editorial material

Unmasking of epigenetically silenced microRNAs in neuroblastoma

Jasmien HoebeeckGeert DeclerckPieter MestdaghFilip PattynKatleen De PreterJoëlle VermeulenNurten YigitAnne De PaepeFranki SpelemanJo Vandesompele

2007

Array CGH analysis of subnanogram quantities of DNA using whole genome amplification: opportunities for detection of copy number alterations in Hodgkin's lymphoma

Tom FeysBart PoppeBruno VerhasseltPascale De PaepeBjörn MentenJo VandesompeleNadine Van RoyAnne De PaepeFranki Speleman

ArrayCGH based classification of neuroblastoma into genomic subgroups

Sara De BrouwerEvi MichelsJo VandesompeleKatleen De PreterJasmien HoebeeckJoëlle VermeulenAlexander SchrammJan J MolenaarBjörn MentenBarbara MarquesRaymond L StallingsValérie CombaretChristine DevalckAnne De PaepeRogier VersteegAngelika EggertGenevieve LaureysNadine Van RoyFranki Speleman

ArrayCGH-based classification of neuroblastoma into genomic subgroups

Evi MichelsJo VandesompeleKatleen De PreterJasmien HoebeeckJoëlle VermeulenAlexander SchrammJan J MolenaarBjörn MentenBarbara MarquesRaymond L StallingsValérie CombaretChristine DevalckAnne De PaepeRogier VersteegAngelika EggertGenevieve LaureysNadine Van RoyFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Genome wide promoter methylation analysis in neuroblastoma with perspectives for integrated molecular profiling

Jasmien HoebeeckMaté OngenaertEvi MichelsKatleen De PreterJoëlle VermeulenNurten YigitAnne De PaepeWim Van CriekingeFranki SpelemanJo Vandesompele

Genomic classification according to numerical and segmental chromosome instabilities is of strong prognostic relevance in neuroblastoma

Gudrun SchleiermacherIsabelle Janoueix-LeroseyEvi MichelsVeronique MosseriAgnes RibeiroDelphine LequinJoëlle VermeulenJo VandesompeleGaelle PierronJerome CouturierMichel PeuchmaurEmmanuel BarillotJean MichonJean BenardAlexandre ValentDominique PlantazHerve RubieDominique Valteau-Couanet

High resolution tiling-path BAC array deletion mapping suggests commonly involved 3p21-p22 tumor suppressor genes in neuroblastoma and more frequent tumors

Jasmien HoebeeckEvi MichelsBjörn MentenNadine Van RoyAngelika EggertAlexander SchrammKatleen De PreterNurten YigitEls De SmetAnne De PaepeGenevieve LaureysJo VandesompeleFranki Speleman

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Identification and expression analysis of genes associated with bovine blastocyst formation

Karen GoossensAnn Van SoomMario Van PouckeLeen VandaeleJo VandesompeleAlex Van ZeverenLuc Peelman

A1 Journal Article in BMC DEVELOPMENTAL BIOLOGY

Integrative genomics in neuroblastoma research

Franki SpelemanKatleen De PreterEvi MichelsJasmien HoebeeckFilip PattynJoëlle VermeulenNadine Van RoyAnne De PaepeGenevieve LaureysJo Vandesompele

MicroRNA profiling of EVI1 deregulated myeloid leukemia

An De WeerBruce PoppePieter MestdaghNadine Van RoyAnne De PaepeBruno VerhasseltJo VandesompeleFranki Speleman

Molecular dissection of isolated disease features in mosaic neurofibromatosis type 1

Ophélia MaertensSofie De SchepperJo VandesompeleHilde BremsIne HeynsSandra JanssensFranki SpelemanEric LegiusLudwine Messiaen

A1 Journal Article in AMERICAN JOURNAL OF HUMAN GENETICS

New insights into the genetic basis of neuroblastoma

Franki SpelemanKatleen De PreterJasmien HoebeeckNadine Van RoyJo Vandesompele

A4 Journal Article in VERHANDELINGEN VAN DE KONINKLIJKE ACADEMIE VOOR GENEESKUNDE VAN BELGIË

Rapid and easy prenatal diagnosis of sickle cell anemia using double-dye LNA probe technology

Hakim E. HousniJo VandesompelePascal VannuffelBeatrice GulbisJasmine ParmaPascale Cochaux

A1 Journal Article in BRITISH JOURNAL OF HAEMATOLOGY

Real-time PCR quality control for gene expression profiling on the LightCycler 480 System

Jasmien HoebeeckFilip PattynY NURTENE DE SMETFranki SpelemanJo Vandesompele

A3 Journal Article in Biochemica

Real-time quantitative PCR as an alternative to Southern blot or fluorescence in situ hybridization for detection of gene copy number changes.

Jasmien HoebeeckFranki SpelemanJo Vandesompele

Bookchapter in Methods in Molecular Biology

Report of a female patient with mental retardation and tall stature due to a chromosomal rearrangement disrupting the OPHN1 gene on Xq12

Björn MentenKaren BuysseStefan VermeulenValerie MeersschautJo VandesompeleBL NGNP CARTERGeert MortierFranki Speleman

A1 Journal Article in EUROPEAN JOURNAL OF MEDICAL GENETICS

Translating expression profiling into a clinically feasible test to predict neuroblastoma outcome

A SCHRAMMJo VandesompeleJH SCHULTES DREESMANNL KADERALIB BRORSR EILSFranki SpelemanA EGGERT

A1 Journal Article in CLINICAL CANCER RESEARCH

qBase relative quantification framework and software for management and automated analysis of real-time quantitative PCR data

JAN HELLEMANSGeert MortierAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in GENOME BIOLOGY

2006

Comprehensive NF1 screening on cultured Schwann cells from neurofibromas: towards an extensive study of the somatic mutation spectrum in neurofibromatosis type 1

Ophélia MaertensHilde BremsJo VandesompeleThomas De RaedtIne HeynsThorsten RosenbaumSofie De SchepperAnne De PaepeGeert MortierSandra JanssensFranki SpelemanEric LegiusLudwine Messiaen

A1 Journal Article in Human Mutation

Development of a new set of reference genes for normalization of real-time RT-PCR data of porcine backfat and Longissimus dorsi muscle, and evaluation with PPARGC1A

Tim ErkensMario Van PouckeJo VandesompeleKaren GoossensAlex Van ZeverenLuc Peelman

A1 Journal Article in BMC BIOTECHNOLOGY

Differential prion protein mRNA expression in sheep blood

Mario Van PouckeJo VandesompeleAdelheid De KetelaereKaren GoossensMarc MattheeuwsAlex Van ZeverenLuc Peelman

EVII is consistently expressed as principal transcript in common and rare recurrent 3q26 rearrangements

Bruce PoppeN DASTUGUEJo VandesompeleBarbara CauwelierB DE SMETNurten YigitAnne De PaepeJ CERVERAC RECHERV DE MASA HAGEMEIJERFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Emerging patterns of cryptic chromosomal imbalance in patients with idiopathic mental retardation and multiple congenital anomalies: a new series of 140 patients and review of published reports

Björn MentenN MAASB THIENPONTKaren BuysseJo VandesompeleC MELOTTET DE RAVELS VAN VOORENI BALIKOVAL BACKXSandra JanssensAnne De PaepeB DE MOORY MOREAUP MARYNENJP FRYNSGeert MortierK DEVRIENDTFranki SpelemanJR VERMEESCH

A1 Journal Article in JOURNAL OF MEDICAL GENETICS

Expression profiling suggests underexpression of the GABA(A) receptor subunit delta in the fragile X knockout mouse model

I GANTOISJo VandesompeleFranki SpelemanE REYNIERSR D'HOOGELA SEVERIJNENR WILLEMSENF TASSONERF KOOY

A1 Journal Article in NEUROBIOLOGY OF DISEASE

Genome wide measurement of DNA copy number changes in neuroblastoma: dissecting amplicons and mapping losses, gains and breakpoints

Evi MichelsJo VandesompeleJasmien HoebeeckBjörn MentenKatleen De PreterGenevieve LaureysNadine Van RoyFranki Speleman

A1 Journal Article in CYTOGENETIC AND GENOME RESEARCH

High throughput analyses for assessment of DNA copy number and methylation status for chromosome 3p genes in high-risk neuroblastoma

Jasmien HoebeeckFranki SpelemanJo Vandesompele

Human fetal neuroblast and neuroblastoma transcriptome analysis confirms neuroblast origin and highlights neuroblastoma candidate genes

Katleen De PreterJo VandesompelePierre HeimannNurten YigitSiv BeckmanAlexander SchrammAngelika EggertRaymond L StallingsYves BenoitMarleen RenardAnne De PaepeGenevieve LaureysSven PåhlmanFranki Speleman

A1 Journal Article in GENOME BIOLOGY

Identification of MYCN transcriptional target genes in neuroblastoma

Filip PattynFranki SpelemanJo Vandesompele

MethBLAST and methPrimerDB: web-tools for PCR based methylation analysis

Filip PattynJasmien HoebeeckPiet RobbrechtEvi MichelsAnne De PaepeG BOTTUD COORNAERTR HERZOGFranki SpelemanJo Vandesompele

A1 Journal Article in BMC BIOINFORMATICS

Murine m cells express annexin V specifically

Phebe VerbruggheWim WaelputBirger DieriksAnouk WaeytensJo VandesompeleClaude Cuvelier

A1 Journal Article in JOURNAL OF PATHOLOGY

PPARGC1A mRNA expression in backfat and longissimus dorsi muscle in the pig

Tim ErkensMario Van PouckeJo VandesompeleKaren GoossensAlex Van ZeverenLuc Peelman

PRNP polymorphisms in sheep with differential PRNP mRNA expression in blood

Mario Van PouckeJo VandesompeleAdelheid De KetelaereKaren GoossensAlex Van ZeverenLuc Peelman

Potential application of ELAVL4 real-time quantitative reverse transcription-PCR for detection of disseminated neuroblastoma cells

Katrien SwertsBarbara De MoerlooseCatharina DhoogeJo VandesompeleC HOYOUXK BEISKEYves BenoitGenevieve LaureysJan Philippé

A1 Journal Article in CLINICAL CHEMISTRY

RTPrimerDB : the real-time PCR primer and probe database, major update 2006

Filip PattynPiet RobbrechtAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Real-time quantitative allele discrimination assay using 3 ' locked nucleic acid primers for detection of low-percentage mosaic mutations

Ophélia MaertensE LEGIUSFranki SpelemanL MESSIAENJo Vandesompele

Editorial material

Small-molecule MDM2 antagonists as a new therapy concept for neuroblastoma

Tom Van MaerkenFranki SpelemanJ VERMEULENIrina LambertzSarah De ClercqEls De SmetNurten YigitV COPPENSJan PhilippéAnne De PaepeJean-Christophe MarineJo Vandesompele

A1 Journal Article in CANCER RESEARCH

The potential (radio-)biological impact of launch vibration

Philippe BaertTim Van CleynenbreugelJo VandesompeleSofie De SchynkelJos Vander SlotenPatric Van Oostveldt

A1 Journal Article in ACTA ASTRONAUTICA

The von Hippel-Lindau tumor suppressor gene expression level has prognostic value in neuroblastoma

Jasmien HoebeeckJo VandesompeleHelén NissonKatleen De PreterNadine Van RoyEls De SmetNurten YigitAnne De PaepeGenevieve LaureysSven PåhlmanFranki Speleman

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Translocation-excision-deletion-amplification mechanism leading to nonsyntenic coamplification of MYC and ATBF1

Nadine Van RoyJo VandesompeleBjörn MentenH NILSSONEls De SmetM ROCCHIAnne De PaepeS PAHLMANFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

2005

A dual fluorescent multiprobe assay for prion protein genotyping in sheep

Mario Van PouckeJo VandesompeleMarc MattheeuwsAlex Van ZeverenLuc Peelman

A1 Journal Article in BMC INFECTIOUS DISEASES

A dual fluorescent multiprobe assay for prion protein genotyping in sheep

Mario Van PouckeJo VandesompeleMarc MattheeuwsAlex Van ZeverenLuc Peelman

A new recurrent inversion, inv(7)(p15q34), leads to transcriptional activation of HOXA10 and HOXA11 in a subset of T-cell acute lymphoblastic leukemias

Franki SpelemanBarbara CauwelierN DASTUGUEJ COOLSBruno VerhasseltBruce PoppeNadine Van RoyJo VandesompeleC GRAUXA UYTTEBROECKM BOOGAERTSBarbara De MoerlooseYves BenoitD SELLESLAGJ BILLIETA ROBERTF HUGUETP VANDENBERGHEAnne De PaepeP MARYNENA HAGEMEIJER

A1 Journal Article in LEUKEMIA

Differential polyadenylation of ribosomal RNA during post-transcriptional processing in Leishmania

S DECUYPEREJo VandesompeleV YARDLEYS DE DONCKERT LAURENTS RIJALA LLANOS-CUENTASF CHAPPUISJ AREVALOJC DUJARDIN

A1 Journal Article in PARASITOLOGY

Identification of an unbalanced X-autosome translocation by array CGH in a boy with a syndromic form of chondrodysplasia punctata brachytelephalangic type

Björn MentenKaren BuysseJo VandesompeleEls De SmetAnne De PaepeFranki SpelemanGeert Mortier

A1 Journal Article in EUROPEAN JOURNAL OF MEDICAL GENETICS

Impact of RNA quality on reference gene expression stability

Claudina Perez NovoCindy ClaeysFranki SpelemanPaul Van CauwenbergeClaus BachertJo Vandesompele

A1 Journal Article in BIOTECHNIQUES

No evidence for correlation of DDX1 gene amplification with improved survival probability in patients with MYCN-amplified neuroblastomas

Katleen De PreterFranki SpelemanValérie CombaretJohn LunecJulien BoardAndy PearsonAnne De PaepeNadine Van RoyGenevieve LaureysJo Vandesompele

A1 Journal Article in JOURNAL OF CLINICAL ONCOLOGY

Positional and functional mapping of a neuroblastoma differentiation gene on chromosome 11

Katleen De PreterJo VandesompeleBjörn MentenPhilippa CarrHeike FieglerAnders EdsjöNigel P CarterNurten YigitWim WaelputNadine Van RoyScott BaderSven PåhlmanFranki Speleman

A1 Journal Article in BMC GENOMICS

Rapid detection of VHL exon deletions using real-time quantitative PCR

Jasmien HoebeeckR VAN DER LUIJTBruce PoppeEls De SmetNurten YigitKathleen ClaesR ZEWALDGJ DE JONGAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in LABORATORY INVESTIGATION

Selection of reference genes for quantitative real-time PCR in bovine preimplantation embryos

Karen GoossensMario Van PouckeAnn Van SoomJo VandesompeleAlex Van ZeverenLuc Peelman

A1 Journal Article in BMC DEVELOPMENTAL BIOLOGY

Unequivocal delineation of clinicogenetic subgroups and development of a new model for improved outcome prediction in neuroblastoma

Jo VandesompeleM BAUDISKatleen De PreterNadine Van RoyP AMBROSN BOWNC BRINKSCHMIDTH CHRISTIANSENV COMBARETM LASTOWSKAJ NICHOLSONA O'MEARAD PLANTAZR STALLINGSB BRICHARDCaroline Van den broeckeSylvia De BieAnne De PaepeGenevieve LaureysFranki Speleman

A1 Journal Article in JOURNAL OF CLINICAL ONCOLOGY

arrayCGHbase: an analysis platform for comparative genomic hybridization microarrays

Björn MentenFilip PattynKatleen De PreterPiet RobbrechtEvi MichelsKaren BuysseGeert MortierAnne De PaepeSteven van VoorenJoris VermeeschYves MoreauBart De MoorStefan VermeulenFranki SpelemanJo Vandesompele

A1 Journal Article in BMC BIOINFORMATICS

2004

Combined subtractive cDNA cloning and array CGH: an efficient approach for identification of overexpressed genes in DNA amplicons

Katleen De PreterFilip PattynGeert BerxKristin StrumaneBjörn MentenFrans Van RoyAnne De PaepeFranki SpelemanJo Vandesompele

A1 Journal Article in BMC GENOMICS

Expression analyses identify MLL as a prominent target of 11q23 amplification and support an etiologic role for MLL gain of function in myeloid malignancies

Bruce PoppeJo VandesompeleC SCHOCHC LINDVALLK MROZEKCD BLOOMFIELDHB BEVERLOOL MICHAUXN DASTUGUEC HERENSNurten YigitAnne De PaepeA HAGEMEIJERFranki Speleman

A1 Journal Article in BLOOD

Gene-expression profiling reveals distinct expression patterns for classic versus variant Merkel cell phenotypes and new classifier genes to distinguish Merkel cell from small-cell lung carcinoma

M VAN GELEGM BOYLEAL COOKJo VandesompeleTom BoonefaesPieter RottiersNadine Van RoyAnne De PaepePG PARSONSJH LEONARDFranki Speleman

A1 Journal Article in ONCOGENE

Loss-of-function mutations in LEMD3 result in osteopoikilosis, Buschke-Ollendorff syndrome and melorheostosis

JAN HELLEMANSO PREOBRAZHENSKAAndy WillaertP DEBEERPeter VerdonkT COSTAK JANSSENSBjörn MentenNadine Van RoyStefan VermeulenR SAVARIRAYANW VAN HULF VANHOENACKERD HUYLEBROECKAnne De PaepeJean NaeyaertJo VandesompeleFranki SpelemanK VERSCHUERENPaul CouckeGeert Mortier

A1 Journal Article in NATURE GENETICS

Neuroblastoma cells with overexpressed MYCN retain their capacity to undergo neuronal differentiation

A EDSJOH NILSSONJo VandesompeleJ KARLSSONFilip PattynLA CULPFranki SpelemanS PAHLMAN

A1 Journal Article in LABORATORY INVESTIGATION

No evidence for involvement of SDHD in neuroblastoma pathogenesis

Katleen De PreterJo VandesompeleJasmien HoebeeckCaroline VandenbroeckeJoél SmetAnnick NuytsGenevieve LaureysValérie CombaretNadine Van RoyFrank RoelsRudy Van CosterMarleen PraetAnne De PaepeFranki Speleman

A1 Journal Article in BMC CANCER

The human FOXL2 mutation database

Diane BeysenJo VandesompeleL MESSIAENAnne De PaepeElfride De Baere

A1 Journal Article in HUMAN MUTATION

2003

Application of laser capture microdissection in genetic analysis of neuroblastoma and neuroblastoma precursor cells

Katleen De PreterJo VandesompelePierre HeimannMark M KockxMireille Van GeleJasmien HoebeeckEls De SmetMartine DemarcheGenevieve LaureysNadine Van RoyAnne De PaepeFranki Speleman

A1 Journal Article in CANCER LETTERS

Evidence for involvement of a tumor suppressor gene on 1p in malignant peripheral nerve sheath tumors

Nadine Van RoyM VAN GELEJo VandesompeleLudwine MessiaenSimon Van BelleR SCIOTK MORTELEJ GYSELINCKE MICHIELSRamses ForsythE VAN MARCKAnne De PaepeFranki Speleman

A1 Journal Article in CANCER GENETICS AND CYTOGENETICS

Expression profiling reveals involvement of the GABA(A) receptor subunit delta in the fragile X syndrome

I GANTOISJo VandesompeleFranki SpelemanR D'HOOGEL SEVERIJNENR WILLEMSENF TASSONER KOOY

ID2 expression in neuroblastoma does not correlate to MYCN levels and lacks prognostic value

Jo VandesompeleAnders EdsjöKatleen De PreterHåkan AxelsonFranki SpelemanSven Påhlman

A1 Journal Article in ONCOGENE

More than 125 FOXL2 mutations and variants in BPES and POF patients in the human FOXL2 allelic variant database

DIANE BEYSENJo VandesompeleFilip PattynAnne De PaepeLudwine MessiaenElfride De Baere

Quantitative real time polymerase chain reaction for measurement of human interleukin-5 receptor alpha spliced isoforms mRNA

Claudina Perez NovoJo VandesompeleGabriële HoltappelsFranki SpelemanPhilippe GevaertPaul Van CauwenbergeClaus Bachert

A1 Journal Article in BMC BIOTECHNOLOGY

RTPrimerDB : the Real-Time PCR primer and probe database

Filip PattynFranki SpelemanAnne De PaepeJo Vandesompele

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Regulation of peroxisomal genes by DHEA and vitamin D

M DEPRETERJo VandesompeleS FERDINANDUSSEFranki SpelemanFrank Roels

A1 Journal Article in PEROXISOMAL DISORDERS AND REGULATION OF GENES

2002

A brief commentary on "Chromosomal aberrations in neuroblastoma cell lines identified by cross species color banding and chromosome painting".

Jo VandesompeleFranki Speleman

A1 Journal Article in CANCER GENETICS AND CYTOGENETICS

Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes

Jo VandesompeleKatleen De PreterFilip PattynBruce PoppeNadine Van RoyAnne De PaepeFranki Speleman

A1 Journal Article in GENOME BIOLOGY

Delineation of the heterogeneous pattern of genomic changes and identifacation of differentially expressed genes in neuroblastoma

Jo Vandesompele

Elimination of primer-dimer artifacts and genomic coamplification using a two-step SYBR green I real time RT-PCR.

Jo VandesompeleAnne De PaepeFranki Speleman

A1 Journal Article in ANALYTICAL BIOCHEMISTRY

Localization of the 17q breakpoint of a constitutional 1;17 translocation in a patient with neuroblastoma within a 25-kb segment located between the ACCN1 and TLK2 genes and near the distal breakpoints of two microdeletions in neurofibromatosis type I patients.

Nadine Van RoyJo VandesompeleGeert BerxK STAESMireille Van GeleEls De SmetAnne De PaepeGenevieve LaureysP VAN DER DRIFTR VERSTEEGFrans Van RoyFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Modulation of the peroxisomal gene expression pattern by dehydroepiandrosterone and vitamin D : therapeutic implications

Marianne DepreterJo VandesompeleMarc EspeelFranki SpelemanFrank Roels

A1 Journal Article in JOURNAL OF ENDOCRINOLOGY

Pathological splice mutations outside the invariant AG/GT splice sites of BRCA1 exon 5 increase alternative transcript levels in the 5 ' end of the BRCA1 gene.

Kathleen ClaesJo VandesompeleBruce PoppeK DAHANI COENEAnne De PaepeLudwine Messiaen

A1 Journal Article in ONCOGENE

Quantification of MYCN, DDX1, and NAG gene copy number in neuroblastoma using a real-time quantitative PCR assay.

Katleen De PreterFranki SpelemanV COMBARETJ LUNECGenevieve LaureysB EUSSENN FRANCOTTEJ BOARDA PEARSONAnne De PaepeNadine Van RoyJo Vandesompele

A1 Journal Article in MODERN PATHOLOGY

Quantification of NF1 transcripts reveals novel highly expressed splice variants.

Ina VandenbrouckeJo VandesompeleAnne De PaepeLudwine Messiaen

A1 Journal Article in FEBS LETTERS

Quantification of soluble and membrane anchored isoforms of IL-5R alpha using real-time PCR

CP NOVOJo VandesompeleI VANDENBROUCKEG HOLTAPPELSPhilippe GevaertPaul Van CauwenbergeClaus Bachert

2001

Combined M-FISH and CGH analysis allows comprehensive description of genetic alterations in neuroblastoma cell lines.

Nadine Van RoyHeidi Van LimbergenJo VandesompeleMireille Van GeleBruce PoppeH SALWENGenevieve LaureysN MANOELAnne De PaepeFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Comparative genomic hybridization (CGH) analysis of stage 4 neuroblastoma reveals high frequency of 11Q deletion in tumors lacking MYCN amplification.

D PLANTAZJo VandesompeleNadine Van RoyM LASTOWSKAN BOWNV COMBARETMC FAVROTO DELATTREJ MICHONJ BENARDO HARTMANNJC NICHOLSONFM ROSSC BRINKSCHMIDTGenevieve LaureysH CARONKK MATTHAYBG FEUERSTEINFranki Speleman

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Multicentre analysis of patterns of DNA gains and losses in 204 neuroblastoma tumors: How many genetic subgroups are there?

Jo VandesompeleFranki SpelemanNadine Van RoyGenevieve LaureysC BRINKSCHMIDTH CHRISTIANSENF LAMPERTM LASTOWSKAN BOWNA PEARSONJC NICHOLSONF ROSSV COMBARETO DELATTREBC FEUERSTEIND PLANTAZ

A1 Journal Article in MEDICAL AND PEDIATRIC ONCOLOGY

2000

Chromosome 2 short arm translocations revealed by M-FISH analysis of neuroblastoma cell lines.

Nadine Van RoyHeidi Van LimbergenJo VandesompeleMireille Van GeleBruce PoppeGenevieve LaureysAnne De PaepeFranki Speleman

A1 Journal Article in MEDICAL AND PEDIATRIC ONCOLOGY

Structure and mutation analysis of the gene encoding DNA fragmentation factor 40 (caspase-activated nuclease), a candidate neuroblastoma tumour suppressor gene.

H JUDSONNadine Van RoyL STRAINJo VandesompeleMireille Van GeleFranki SpelemanDT BONTHRON

A1 Journal Article in HUMAN GENETICS

1999

Neuroblastoma: from molecular cytogenetics to gene expression profiling

Jo VandesompeleNadine Van RoyGeert BerxD PLANTAZAnne De PaepeGenevieve LaureysFrans Van RoyFranki Speleman

1998

Characteristic pattern of chromosomal gains and losses in Merkel cell carcinoma detected by comparative genomic hybridization

Mireille Van GeleFranki SpelemanJo VandesompeleNadine Van RoyJH Leonard

A1 Journal Article in CANCER RESEARCH

Genetic heterogeneity of neuroblastoma studied by comparative genomic hybridization.

Jo VandesompeleNadine Van RoyMireille Van GeleGenevieve LaureysP AMBROSP HEIMANNC DEVALCKE SCHUURINGP BROCKJ OTTENJ GYSELINCKAnne De PaepeFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Molecular analysis of lp36 breakpoints in two Merkel cell carcinomas.

Mireille Van GeleNadine Van RoySG RONANLudwine MessiaenJo VandesompeleMarie GeertsM NAEYAERTE BLENNOWI BAR-AMTK DAS GUPTAP VAN DER DRIFTR VERSTEEGJH LEONARDFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

Quantification of splice variants using real-time PCR. Nucleic Acids Res., 29, 2001, E68.

Ina VandenbrouckeJo VandesompeleAnne De PaepeLudwine Messiaen

A2 Journal Article