Research Explorer

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Researcher

Katleen De Preter

Awards & Distinctions

321 Results

2024

Evaluation of single-sample network inference methods for precision oncology

Joke DeschildreBoris VandemoorteleJens Uwe LoersKatleen De PreterVanessa Vermeirssen

A1 Journal Article in NPJ SYSTEMS BIOLOGY AND APPLICATIONS

Human iPSC modeling recapitulates in vivo sympathoadrenal development and reveals an aberrant developmental subpopulation in familial neuroblastoma

Stéphane Van HaverYujie FanSarah-Lee BekaertCeline EveraertWouter Van LoockeVittorio ZanzaniJoke DeschildreInes Fernandez MaestreAdrianna AmaroVanessa Vermeirssen et al.

A1 Journal Article in ISCIENCE

Human pluripotent stem cell modeling, from normal development to neuroblastoma

Stéphane Van HaverFranki SpelemanKatleen De Preter

MYCN and SNRPD3 cooperate to maintain a balance of alternative splicing events that drives neuroblastoma progression

Alice SalibNisitha JayatillekeJanith A. SeneviratneChelsea MayohKatleen De PreterFranki SpelemanBelamy B. CheungDaniel R. CarterGlenn M. Marshall

A1 Journal Article in ONCOGENE

2023

Case series on clinical applications of liquid biopsy in pediatric solid tumors: towards improved diagnostics and disease monitoring

Nina U. GelineauAstrid van BarneveldAtia SamimLieke Van ZogchelNathalie LakMichelle L. TasYvette MatserAnnelies M. C. Mavinkurve-GroothuisMartine van GrotelJószef Zsiros et al.

U Journal Article in Frontiers in Oncology

Cell-free DNA as a diagnostic and prognostic biomarker in pediatric rhabdomyosarcoma

Nathalie S.M. LakLieke M.J. van ZogchelLily Zappeij-KannegieterAhmad JavadiRuben Van PaemelCharlotte VandeputteKatleen De PreterBram De WildeMathieu ChicardYasmine Iddir et al.

A1 Journal Article in JCO PRECISION ONCOLOGY

Circulating immune cell dynamics as outcome predictors for immunotherapy in non-small cell lung cancer

Alvaro Marcos RubioCeline EveraertEufra Van DammeKatleen De PreterKarim Vermaelen

A1 Journal Article in JOURNAL FOR IMMUNOTHERAPY OF CANCER

Dramatic impact of blood collection tube and RNA purification method on extracellular RNA transcriptomes

Jasper AnckaertFrancisco Avila CobosAnneleen DecockPhilippe DecruyenaereJill DeleuKatleen De PreterOlivier De WeverJilke De WildeBert DhondtThibaut D'huyvetter et al.

Memory of stochastic single-cell apoptotic signaling promotes chemoresistance in neuroblastoma

Jordan F. HastingsSharissa L. LathamAlvin KamiliMadeleine S. WheatleyJeremy Z. R. HanMarie Wong-ErasmusMonica PhimmachanhMax NobisChiara PantarelliAntonia L. Cadell et al.

A1 Journal Article in SCIENCE ADVANCES

Mitotic dysregulation at tumor initiation creates a therapeutic vulnerability to combination anti-mitotic and pro-apoptotic agents for MYCN-driven neuroblastoma

Lei ZhaiAnushree BalachandranRebecca LarkinJanith A. SeneviratneSylvia A. ChungAmit LalwaniShoma TsubotaDominik BeckKenji KadomatsuAnneleen Beckers et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Molecular characterization of SOX11 as multifaceted epigenetic regulator in neuroblastoma

Amber LouwagieFranki SpelemanKatleen De PreterJan Willem Bek

Novel tissue- and blood-based biomarkers in Barrett’s Esophagus and esophageal adenocarcinoma

Annouck PhilippronKatleen De PreterPiet PattynPhilippe Nafteux

Nucleic acid biomarkers in blood from patients with esophageal adenocarcinoma : finding the needle in the haystack

Kathleen SchoofsKatleen De PreterJo VandesompelePiet Pattyn

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Anneleen DecockOlivier De WeverCeline EveraertHetty HelsmoortelAn HendrixPieter MestdaghAnnelien MorlionJo VandesompeleRuben Van PaemelFrancisco Avila Cobos et al.

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Anneleen DecockOlivier De WeverCeline EveraertHetty HelsmoortelAn HendrixPieter MestdaghAnnelien MorlionJo VandesompeleRuben Van PaemelFrancisco Avila Cobos et al.

SOX11 regulates SWI/SNF complex components as member of the adrenergic neuroblastoma core regulatory circuitry

Bieke DecaestekerAmber LouwagieSiebe LoontiensFanny De VloedSarah-Lee BekaertJuliette RoelsSuzanne VanhauwaertSara De BrouwerEllen SandersA Berezovskaya et al.

A1 Journal Article in NATURE COMMUNICATIONS

2022

Complementarity of single-nucleus and single-cell RNA sequencing to study the transcriptional heterogeneity of neuroblastoma tumors

Noah BonineTinne ThonéBavo VannesteLiselot MusCeline EveraertBram De WildeFranki SpelemanCharlotte ScottKatleen De Preter

Complementarity of single-nucleus and single-cell RNA sequencing to study the transcriptional heterogeneity of neuroblastoma tumors

Noah BonineTinne ThonéBavo VannesteLiselot MusCeline EveraertBram De WildeFranki SpelemanCharlotte ScottKatleen De Preter

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

Digital PCR-based evaluation of nucleic acid extraction kit performance for the co-purification of cell-free DNA and RNA

Jill DeleuKathleen SchoofsAnneleen DecockKimberly VerniersSofie RoelandtAngie DenolfJoke VerrethBram De WildeTom Van MaerkenKatleen De Preter et al.

A1 Journal Article in HUMAN GENOMICS

MiR-99b-5p, miR-380-3p, and miR-485-3p are novel chemosensitizing miRNAs in high-risk neuroblastoma

Holly HollidayJessica YangEoin DodsonIva NikolicAlvin KamiliMadeleine WheatleyNiantao DengSarah AlexandrouThomas P. DavisMaria Kavallaris et al.

U Journal Article in MOLECULAR THERAPY

Opportunities and challenges in interpretable deep learning for drug sensitivity prediction of cancer cells

Bikash Ranjan SamalJens Uwe LoersVanessa VermeirssenKatleen De Preter

A2 Journal Article in FRONTIERS IN BIOINFORMATICS

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

Jasper AnckaertFrancisco Avila CobosAnneleen DecockPhilippe DecruyenaereJill DeleuKatleen De PreterOlivier De WeverJilke De WildeBert DhondtThibaut D'huyvetter et al.

RRM2 enhances MYCN-driven neuroblastoma formation and acts as a synergistic target with CHK1 inhibition

Carolina de Carvalho NunesLisa DepestelLiselot MusKaylee M. KellerLouis DelhayeAmber LouwagieMuhammad RishfiAlex WhaleNeesha KaraSimon R. Andrews et al.

A1 Journal Article in SCIENCE ADVANCES

The feasibility of using liquid biopsies as a complementary assay for copy number aberration profiling in routinely collected paediatric cancer patient samples

Ruben Van PaemelCharlotte VandeputteLennart RamanJolien Van ThorreLeen WillemsJo Van DorpeMalaïka Van der LindenJilke De WildeAndries De KokerBjörn Menten et al.

A1 Journal Article in EUROPEAN JOURNAL OF CANCER

Towards the discovery of prognostic and predictive biomarkers in CHEERS, a radioimmunotherapy phase II trial

Jan VanwelkenhuyzenMathieu SpaasKim Van der EeckenVibeke KruseSylvie RotteyLieve BrochezJohan LindbergKatleen De PreterBram De LaerePiet Ost

When DNA gets in the way in RNA-seq experiments, a sequel

Jasper VerwiltMaria D. GiraldezWim TrypsteenRuben Van PaemelKatleen De PreterPieter MestdaghJo Vandesompele

2021

Evaluation of a marker independent isolation method for circulating tumor cells in esophageal adenocarcinoma

Annouck PhilippronLieven DepypereSteffi OeyenBram De LaereCharlotte VandeputtePhilippe NafteuxKatleen De PreterPiet Pattyn

A1 Journal Article in PLOS ONE

Expanding the diagnostic toolbox in pediatric oncology : exploration of the value of the cell-free DNA methylome

Ruben Van PaemelBram De WildeKatleen De Preter

Frequency and prognostic impact of ALK amplifications and mutations in the European Neuroblastoma Study Group (SIOPEN) high-risk neuroblastoma trial (HR-NBL1)

Angela BelliniUlrike PötschgerVirginie BernardEve LapoubleSylvain BaulandePeter F. AmbrosNathalie AugerKlaus BeiskeMarie BernkopfDavid R. Betts et al.

A1 Journal Article in JOURNAL OF CLINICAL ONCOLOGY

From DNA copy number gains and tumor dependencies to novel therapeutic targets for high-risk neuroblastoma

Bieke DecaestekerKaat DurinckNadine Van RoyBram De WildeChristophe Van NesteStéphane Van HaverStephen RobertsKatleen De PreterVanessa VermeirssenFranki Speleman

A1 Journal Article in JOURNAL OF PERSONALIZED MEDICINE

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

MEIS2 is an adrenergic core regulatory transcription factor involved in early initiation of TH-MYCN-driven neuroblastoma formation

Jolien De WynMark W. ZimmermanNina Weichert-LeaheyCarolina de Carvalho NunesBelamy B. CheungBrian J. AbrahamAnneleen BeckersPieter-Jan VoldersBieke DecaestekerDaniel R. Carter et al.

A1 Journal Article in CANCERS

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 Roy et al.

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 Sanders et al.

A1 Journal Article in GENES CHROMOSOMES & CANCER

SOX11 as guardian of epigenetic plasticity in neuroblastoma

Bieke DecaestekerAmber LouwagieSiebe LoontiensSara De BrouwerCarolina de Carvalho NunesGeertrui DeneckerFanny De VloedLisa DepestelJuliette RoelsKaren Verboom et al.

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

Lucia LorenziHua-Sheng ChiuFrancisco Avila CobosStephen GrossPieter-Jan VoldersRobrecht CannoodtJustine NuytensKatrien VanderheydenJasper AnckaertSteve Lefever et al.

A1 Journal Article in NATURE BIOTECHNOLOGY

The RNA Atlas expands the catalog of human non-coding RNAs (June, 10.1038/s41587-021-00936-1, 2021)

Lucia LorenziHua-Sheng ChiuFrancisco Avila CobosStephen GrossPieter-Jan VoldersRobrecht CannoodtJustine NuytensKatrien VanderheydenJasper AnckaertSteve Lefever et al.

The functional annotation and exploration the SOX11 enhanceosome

Amber LouwagieBieke DecaestekerLouis DelhayeEva D'haeneEric de Bony de LavergneVolodimir OlexioukSarah VergultRogier VersteegJan KosterJohan van Nes et al.

2020

Addressing challenges in transcriptome annotation and cell-type heterogeneity through integration of omics datasets and computational deconvolution

Francisco Avila CobosKatleen De PreterPieter Mestdagh

Benchmarking of cell type deconvolution pipelines for transcriptomics data

Francisco Avila CobosJosé Alquicira-HernandezJoseph E. PowellPieter MestdaghKatleen De Preter

A1 Journal Article in NATURE COMMUNICATIONS

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 Volders et al.

A1 Journal Article in EMBO REPORTS

Inferring the genomic landscape of lymph-node positive high-risk prostate cancer

Jan VanwelkenhuyzenKim Van der EeckenBram De LaereSimon SundlingRebecka BergströmJohan LindbergKatleen De PreterHenrik GrönbergPiet Ost

Long noncoding RNA SILC1 is an upstream regulator of SOX11 in neuroblastoma

Amber LouwagieBieke DecaestekerEva D'haeneLouis DelhayeEric de Bony de LavergneChristophe Van NesteRogier VersteegSara EkBjörn MentenJan Koster et al.

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 Roy et al.

SOX11 as guardian of epigenetic plasticity in neuroblastoma

Bieke DecaestekerAmber LouwagieSiebe LoontiensCarolina de Carvalho NunesKaren VerboomJuliette RoelsEva D'haeneRogier VersteegKaat DurinckAnton Henssen et al.

The ETS transcription factor ETV5 is a target of activated ALK in neuroblastoma contributing to increased tumour aggressiveness

Liselot MusIrina LambertzShana ClaeysCandy KumpsWouter Van LoockeChristophe Van NesteGanesh UmapathyMarica VaapilChristoph BartenhagenGenevieve Laureys et al.

A1 Journal Article in SCIENTIFIC REPORTS

The pitfalls and promise of liquid biopsies for diagnosing and treating solid tumors in children : a review

Ruben Van PaemelROSALIE VLUGKatleen De PreterNadine Van RoyFranki SpelemanLeen WillemsTim LammensGenevieve LaureysGudrun SchleiermacherGodelieve AM Tytgat et al.

A1 Journal Article in EUROPEAN JOURNAL OF PEDIATRICS

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

17q gain provides proliferative advantage to human embryonic stem cells under conditions of replicative stress

Liselot MusGeertrui DeneckerStéphane Van HaverNadja ZeltnerYudelca OgandoEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

17q gain provides proliferative advantage to human embryonic stem cells under replicative stress

Liselot MusStéphane Van HaverGeertrui DeneckerNadja ZeltnerYudelca OgandoEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

A fast, affordable and minimally-invasive diagnostic test for Cancer of Unknown Primary (CUP) using DNA methylation profiling

Jilke De WildeRuben Van PaemelCharlotte VandeputteAndries De KokerJoni Van der MeulenMalaïka Van der LindenNico CallewaertJo Van DorpeDavid CreytensBram De Wilde et al.

A versatile method for circulating cell-free DNA methylome profiling by reduced representation bisulfite sequencing

Andries De KokerRuben Van PaemelBram De WildeKatleen De PreterNico Callewaert

ALK positively regulates MYCN activity through repression of HBP1 expression

Shana ClaeysGeertrui DeneckerKaat DurinckBieke DecaestekerLiselot MusSiebe LoontiensSuzanne VanhauwaertKristina AlthoffCaroline WigerupDaniel Bexell et al.

A1 Journal Article in ONCOGENE

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

Core regulatory circuitries and epigenetic plasticity in neuroblastoma

Bieke DecaestekerKatleen De PreterFranki Speleman

DREAM target reactivation by core transcriptional regulators supports neuroblastoma growth

Bieke DecaestekerKatleen De PreterFranki Speleman

A2 Journal Article in MOLECULAR & CELLULAR ONCOLOGY

Exploring the contribution of gene dosage effects of 17q gain genes on hESC and neuroblastoma proliferation

Liselot MusGeertrui DeneckerStéphane Van HaverNadja ZeltnerYudelca OgandoEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

Faster, cheaper and more accurate diagnosis of cancer of unknown primary (CUP) by using methylation profiling.

Jilke De WildeRuben Van PaemelCharlotte VandeputteAndries De KokerJoni Van der MeulenMalaïka Van der LindenNico CallewaertJo Van DorpeDavid CreytensBram De Wilde et al.

Genetic alterations of ALK in high-risk neuroblastoma patients : a SIOPEN study

A. BelliniV. BernardP. AmbrosKatleen De PreterV. CombaretK. BeiskeA. VichaR. LadensteinD. Valteau-CouanetM. Rossing et al.

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

Dries RombautHua-Sheng ChiuBieke DecaestekerCeline EveraertNurten YigitAgathe PelthierIsabelle JanoueixChristophe BartenhagenMatthias FischerStephen Roberts et al.

A1 Journal Article in SCIENTIFIC REPORTS

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 Roy et al.

Modelling single-cell dynamics with trajectories and gene regulatory networks

Robrecht CannoodtYvan SaeysKatleen De Preter

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. Tytgat et al.

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

Kathleen SchoofsAnnouck PhilippronPhilippe NafteuxLieven DepyperePiet PattynJo VandesompeleKatleen De Preter

SOX11 as mediator of the adrenergic cell state in NB

Bieke DecaestekerAmber LouwagieSara De BrouwerVolodimir OlexioukGeertrui DeneckerCarolina de Carvalho NunesKaren VerboomMoritz GartlgruberWouter Van LoockeElena Afanasyeva et al.

SOX11 is a key epigenetic regulator in the adrenergic MYCN amplified neuroblastoma

Amber LouwagieBieke DecaestekerSara De BrouwerGeertrui DeneckerCarolina de Carvalho NunesVolodimir OlexioukKaren VerboomMoritz GartlgruberWouter Van LoockeElena Afanasyeva et al.

SOX11 is a key epigenetic regulator in the adrenergic MYCN amplified neuroblastoma

Amber LouwagieBieke DecaestekerCarolina de Carvalho NunesGeertrui DeneckerVolodimir OlexioukKaren VerboomMoritz GartlgruberWouter Van LoockeElena AfanasyevaPauline Depuydt et al.

Searching for liquid RNA biomarkers for esophageal adenocarcinoma

Kathleen SchoofsAnnouck PhilippronPhilippe NafteuxLieven DepyperePiet PattynJo VandesompeleKatleen De Preter

Shallow whole genome sequencing on circulating cell-free DNA in pediatric cancer patients

Charlotte VandeputteJolien Van ThorreRuben Van PaemelAndries De KokerLeen WillemsJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenL. van Zogchel et al.

Shallow whole genome sequencing on circulating cell-free DNA in pediatric cancer patients

Charlotte VandeputteJolien Van ThorreRuben Van PaemelAndries De KokerLeen WillemsJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenLieke van Zogchel et al.

Shallow whole genome sequencing on circulating cell-free DNA in pediatric cancer patients

Charlotte VandeputteJolien Van ThorreRuben Van PaemelAndries De KokerLeen WillemsJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenLieke van Zogchel et al.

Successful copy number alteration profiling using circulating cell-free tumor DNA as a non-invasive alternative for tissue biopsies in pediatric cancer patients

Charlotte VandeputteJolien Van ThorreRuben Van PaemelAndries De KokerLeen WillemsJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenLieke van Zogchel et al.

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 Lefever et al.

2018

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

Francisco Avila CobosLucia LorenziJo VandesompeleGary SchrothKatleen De PreterPieter Mestdagh

Biallelic and monoallelic ESR2 variants associated with 46,XY disorders of sex development

Dorien BaetensTülay GüranBerenice B MendoncaNathalia L GomesLode De CauwerFrank PeelmanHannah VerdinMarnik VuylstekeMalaïka Van der LindenHans Stoop et al.

A1 Journal Article in GENETICS IN MEDICINE

Circulating microRNA biomarkers for metastatic disease in neuroblastoma patients

Fjoralba ZekaAnneleen DecockAlan Van GoethemKatrien VanderheydenFleur DemuynckTim LammensHetty HelsmoortelJoëlle VermeulenRosa NogueraAna P. Berbegall et al.

A1 Journal Article in JCI INSIGHT

Circulating microRNA biomarkers for metastatic neuroblastoma

Fjoralba ZekaAlan Van GoethemTim LammensAnneleen DecockHetty HelsmoortelGenevieve LaureysMichael HogartyEveline BarbieriJason ShohetFrank Berthold et al.

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 Abraham et al.

A1 Journal Article in CANCER DISCOVERY

DNA copy number imbalances with clinical relevance in cancer : rare events in big data

Pauline DepuydtKatleen De PreterFranki Speleman

Data Descriptor: Meta-mining of copy number profiles of high-risk neuroblastoma tumors

Pauline DepuydtJ KosterV BoevaTD HockingFranki SpelemanG SchleiermacherKatleen De Preter

A1 Journal Article in SCIENTIFIC DATA

Exploring the contribution of gene dosage effects of 17Q gain on ESC and neuroblastoma proliferation

Liselot MusGeertrui DeneckerNadja ZeltnerYudelca OgandoStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

Exploring the contribution of gene dosage effects of 17q gain genes on hESC and neuroblastoma proliferation

Liselot MusGeertrui DeneckerStéphane Van HaverNadja ZeltnerYudelca OgandoEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

Exploring the contribution of gene dosage effects of 17q gain on ESC and neuroblastoma proliferation

Liselot MusGeertrui DeneckerNadja ZeltnerYudelca OgandoStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

Exploring the contribution of gene dosage effects of 17q gain on ESC and neuroblastoma proliferation

Liselot MusGeertrui DeneckerNadja ZeltnerYudelca OgandoStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne Vanhauwaert et al.

Genomic amplifications and distal 6q loss : novel markers for poor survival in high-risk neuroblastoma patients

Pauline DepuydtValentina BoevaToby D HockingRobrecht CannoodtInge M AmbrosPeter F AmbrosShahab AsgharzadehEdward F AttiyehValérie CombaretRaffaella Defferrari et al.

A1 Journal Article in JNCI-JOURNAL OF THE NATIONAL CANCER INSTITUTE

Identification of novel drug targets downstream of activated ALK in neuroblastoma

Shana ClaeysFranki SpelemanKatleen De Preter

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 Neste et al.

A1 Journal Article in SCIENTIFIC REPORTS

IncGraph : incremental graphlet counting for topology optimisation

Robrecht CannoodtJoeri RuyssinckJana RamonKatleen De PreterYvan Saeys

A1 Journal Article in PLOS ONE

Integrated proximal proteomics reveals IRS2 as a determinant of cell survival in ALK-driven neuroblastoma

Kristina B EmdalAnna-Kathrine PedersenDorte B Bekker-JensenAlicia LundbyShana ClaeysKatleen De PreterFranki SpelemanChiara FrancavillaJesper V Olsen

A1 Journal Article in SCIENCE SIGNALING

LDHA in neuroblastoma is associated with poor outcome and its depletion decreases neuroblastoma growth independent of aerobic glycolysis

Carmen DorneburgMatthias FischerThomas FE BarthWolfgang Mueller-KlieserBarbara HeroJudith GechtDaniel R CarterKatleen De PreterBenjamin MayerLisa Christner et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

LDHA predicts poor survival in neuroblastoma and its depletion causes aerobic glycolysis-independent inhibition of neuroblastoma cells

C DorneburgM FischerTFE BarthW Mueller-KlieserB HeroJ GechtDR CarterKatleen De PreterFranki SpelemanGM Marshall et al.

Mapping the genomic landscape of inherited retinal disease genes prioritizes genes prone to coding and noncoding copy-number variations

Kristof Van SchilSarah NaessensStijn Van de SompeleMarjolein CarronAlexander AslanidisCaroline Van CauwenberghAnja Kathrin MayerMattias Van HeetveldeMiriam BauwensHannah Verdin et al.

A1 Journal Article in GENETICS IN MEDICINE

Network modeling of microRNA-mRNA interactions in neuroblastoma tumorigenesis identifies miR-204 as a direct inhibitor of MYCN

Chi Yan OoiDaniel R CarterBing LiuChelsea MayohAnneleen BeckersAmit LalwaniZsuzsanna NagySara De BrouwerBieke DecaestekerTzong-Tyng Hung et al.

A1 Journal Article in CANCER RESEARCH

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 Preter et al.

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 Preter et al.

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 Preter et al.

Promoter-associated proteins of EPAS1 identified by enChIP-MS : a putative role of HDX as a negative regulator

Arash HamidianMarica VaapilKristoffer von StedingkToshitsugu FujitaCamilla U PerssonPontus ErikssonSrinivas VeerlaKatleen De PreterFranki SpelemanHodaka Fujii et al.

A1 Journal Article in BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

SOX11 is a transcriptional circuit dosage sensitive transcription factor controlling SWI/SNF components

Bieke DecaestekerSara De BrouwerGeertrui DeneckerFanny De VloedWouter Van LoockeSuzanne VanhauwaertPauline DepuydtMoritz GartlgruberJolien De WynGenevieve Laureys et al.

Shallow whole genome sequencing allows successful copy number profiling in formalin-fixed paraffin-embedded material in neuroblastoma patients

Charlotte VandeputteRuben Van PaemelBram De WildeMalaïka Van der LindenJo Van DorpeBjörn MentenFranki SpelemanNadine Van RoyKatleen De Preter

TBX2 is a neuroblastoma core regulatory circuitry component enhancing MYCN/FOXM1 reactivation of DREAM targets

Bieke DecaestekerGeertrui DeneckerChristophe Van NesteEmmy M DolmanWouter Van LoockeMoritz GartlgruberCarolina de Carvalho NunesFanny De VloedPauline DepuydtKaren Verboom et al.

A1 Journal Article in NATURE COMMUNICATIONS

TBX2 is implicated in cell cycle control and proliferation in neuroblastoma

Bieke DecaestekerGeertrui DeneckerChristophe Van NesteFanny De VloedMoritz GartlgruberPauline DepuydtWouter Van LoockeShana ClaeysDries RombautSiebe Loontiens et al.

The core regulatory circuit component TBX2 is implicated in cell cycle control and proliferation in neuroblastoma

Bieke DecaestekerGeertrui DeneckerChristophe Van NesteFanny De VloedMoritz GartlgruberPauline DepuydtWouter Van LoockeShana ClaeysDries RombautSiebe Loontiens et al.

The core regulatory circuit component TBX2 is implicated in cell cycle control and proliferation in neuroblastoma

Bieke DecaestekerGeertrui DeneckerWouter Van LoockeMoritz GartlgruberPauline DepuydtFanny De VloedShana ClaeysDries RombautSiebe LoontiensAnton Henssen et al.

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 Hendrix et al.

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

Francisco Avila CobosAnneleen DecockKatleen De PreterBert DhondtOlivier De WeverBram De WildeCeline EveraertCarolina FierroHetty HelsmoortelAn Hendrix et al.

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 Hertwig et al.

A2 Journal Article in ONCOTARGET

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 Callewaert et al.

Zipper plot : visualizing transcriptional activity of genomic regions

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

2017

Accelerating drug development for neuroblastoma - New drug development strategy : an Innovative Therapies for Children with Cancer, European Network for Cancer Research in Children and Adolescents and International Society of Paediatric Oncology Europe Neuroblastoma project

Lucas MorenoHubert CaronBirgit GeoergerAngelika EggertGudrun SchleiermacherPenelope BrockDominique Valteau-CouanetLouis CheslerJohannes SchulteKatleen De Preter et al.

A1 Journal Article in EXPERT OPINION ON DRUG DISCOVERY

BRD3 as a specific vulnerable therapeutic target in neuroblastoma

Jolien De WynKaat DurinckAnneleen BeckersSiebe LoontiensSuzanne VanhauwaertDaniel CarterBelamy ChuengGlenn MarshallKatleen De PreterFrank Westermann et al.

Early and late effects of pharmacological ALK inhibition on the neuroblastoma transcriptome

Shana ClaeysGeertrui DeneckerRobrecht CannoodtCandy KumpsKaat DurinckFranki SpelemanKatleen De Preter

A1 Journal Article in ONCOTARGET

Genomic amplifications and distal 6q loss are novel markers for poor survival in high-risk neuroblastoma patients

Pauline DepuydtValentina BoevaToby D HockingRobrecht CannoodtInge M AmbrosPeter F AmbrosShahab AsgharzadehEdward F AttiyehValérie CombaretRaffaella Defferrari et al.

HBP1 is a negative epigenetic regulator of MYCN-driven neuroblastoma through interaction with the PRC2 complex

Shana ClaeysGeertrui DeneckerIrina LambertzEls JanssensSuzanne VanhauwaertBieke DecaestekerTom Van MaerkenBram De WildeGenevieve LaureysKristina Althoff et al.

Identification of novel, rare markers for poor survival in high-risk neuroblastoma patients by merging and reanalysing existing datasets

Pauline DepuydtValentina BoevaToby HockingRobrecht CannoodtInge AmbrosPeter AmbrosShahab AsgharzadehEdward AttiyehValérie CombaretRaffaella Defferrari et al.

Mapping the genomic landscape of inherited retinal disease genes prioritizes genes prone to coding and noncoding copy-number variations

Kristof Van SchilSarah NaessensStijn Van de SompeleMarjolein CarronAlexander AslanidisCaroline Van CauwenberghAnne Kathrin MayerMattias Van HeetveldeMiriam BauwensHannah Verdin et al.

Mapping the genomic landscape of inherited retinal disease genes prioritizes genes prone to coding and noncoding copy-number variations

Kristof Van SchilSarah NaessensStijn Van de SompeleMarjolein CarronAlexander AslanidisCaroline Van CauwenberghAnja Kathrin MayerMattias Van HeetveldeMiriam BauwensHannah Verdin et al.

Optimizing a workflow for transcriptome analysis of CTCs isolated from venous blood

Annouck PhilippronCharlotte VandeputteNadine Van RoyPiet PattynKatleen De Preter

Optimizing a workflow for transcriptome analysis of CTCs isolated from venous blood

Charlotte VandeputteAnnouck PhilippronNadine Van RoyPiet PattynKatleen De Preter

RRM2 is an essential and druggable component of the FOXM1 driven replicative stress DNA damage response in neuroblastoma

Carolina de Carvalho NunesSiebe LoontiensPauline DepuydtSuzanne VanhauwaertBieke DecaestekerBram De WildeKatleen De PreterGeertrui DeneckerChristophe Van NesteKaat Durinck et al.

RRM2 is an essential and druggable component of the FOXM1 driven replicative stress DNA damage response in neuroblastoma

Carolina de Carvalho NunesSiebe LoontiensPauline DepuydtSuzanne VanhauwaertBieke DecaestekerBram De WildeKatleen De PreterGeertrui DeneckerChristophe Van NesteKaat Durinck et al.

SOX11 acts as part of the MYCN-WEE1 regulatory protein complex implicated in neuroblastoma

Bieke DecaestekerSara De BrouwerFanny De VloedGeertrui DeneckerSuzanne VanhauwaertJolien De WynGenevieve LaureysBjörn MentenPauline DepuydtPatrick Reynolds et al.

SOX11 acts as part of the MYCN-WEE1 regulatory protein complex implicated in neuroblastoma

Bieke DecaestekerSara De BrouwerFanny De VloedGeertrui DeneckerSuzanne VanhauwaertJolien De WynGenevieve LaureysBjörn MentenPauline DepuydtJo Vandorpe et al.

Shallow whole genome sequencing on circulating cell-free DNA allows reliable non-invasive copy number profiling in neuroblastoma patients

Nadine Van RoyMalaïka Van der LindenPauline DepuydtBjörn MentenAnnelies DheedeneCharlotte VandeputteJo Van DorpeGenevieve LaureysMarjolijn RenardTom Sante et al.

Shallow whole genome sequencing on circulating cell-free DNA allows reliable noninvasive copy-number profiling in neuroblastoma patients

Nadine Van RoyMalaïka Van der LindenBjörn MentenAnnelies DheedeneCharlotte VandeputteJo Van DorpeGenevieve LaureysMarleen RenardTom SanteTim Lammens et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

Targeting tachykinin receptors in neuroblastoma

Anton G HenssenAndrea OderskyAnnabell SzymanskyMarleen SeilerKristina AlthoffAnneleen BeckersFranki SpelemanSimon SchäfersKatleen De PreterKathy Astrahanseff et al.

A1 Journal Article in ONCOTARGET

The ETV5 oncogene is a target of activated ALK signaling in neuroblastoma

Liselot MusIrina LambertzCandy KumpsShana ClaeysGeertrui DeneckerWouter Van LoockeChristophe Van NesteJan KosterRogier VersteegNadine Van Roy et al.

The ETV5 oncogene is a target of activated ALK signaling in neuroblastoma

Liselot MusIrina LambertzCandy KumpsShana ClaeysGeertrui DeneckerWouter Van LoockeChristophe Van NesteJan KosterRogier VersteegNadine Van Roy et al.

The ETV5 oncogene is a target of activated ALK signaling in neuroblastoma

Liselot MusIrina LambertzCandy KumpsShana ClaeysGeertrui DeneckerWouter Van LoockeChristophe Van NesteJan KosterRogier VersteegNadine Van Roy et al.

The FOXM1/BRIP1 axis in replicative stress induced DNA damage response in neuroblastoma : functional exploration and zebrafish modeling

Suzanne VanhauwaertFranki SpelemanKatleen De Preter

The HBP1 tumor suppressor is a negative epigenetic regulator of MYCN driven neuroblastoma through interaction with the PRC2 complex

Geertrui DeneckerShana ClaeysIrina LambertzEls JanssensSuzanne VanhauwaertBieke DecaestekerTom Van MaerkenBram De WildeGenevieve LaureysKristina Althoff et al.

The HBP1 tumour suppressor is a negative epigenetic regulator of MYCN-driven neuroblastoma through interaction with the PRC2 complex

Shana ClaeysGeertrui DeneckerBieke DecaestekerEls JanssensCandy KumpsSara De BrouwerIrina LambertzAnnelies FieuwSuzanne VanhauwaertKristina Althoff et al.

The core regulatory circuit component TBX2 is implicated in cell cycle control and proliferation in neuroblastoma

Bieke DecaestekerGeertrui DeneckerWouter Van LoockeMoritz GartlgruberPauline DepuydtFanny De VloedShana ClaeysDries RombautSiebe LoontiensAnton Henssen et al.

The immunophenotypic fingerprint of patients with primary antibody deficiencies is partially present in their asymptomatic first-degree relatives

Delfien BogaertMarieke De BruyneVeronique DebackerPauline DepuydtKatleen De PreterCarolien BonroyJan PhilippéVictoria Bordon MariaBart LambrechtTessa Kerre et al.

A1 Journal Article in HAEMATOLOGICA

The immunophenotypical fingerprint of patients with primary antibody deficiencies is partially present in their asymptomatic first-degree relatives

Delfien BogaertMarieke De BruyneVeronique DebackerPauline DepuydtKatleen De PreterCarolien BonroyJan PhilippéVictoria Bordon MariaBart LambrechtTessa Kerre et al.

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

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 Vandesompele et al.

A1 Journal Article in JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY

Characterization of pancreatic glucagon-producing tumors and pituitary gland tumors in transgenic mice overexpressing MYCN in hGFAP-positive cells

Kathrin FielitzKristina AlthoffKatleen De PreterJulie NonnekensJasmin OhliSandra ElgesWolfgang HartmannGünter KlöppelThomas KnöselMarc Schulte et al.

A1 Journal Article in ONCOTARGET

Detection of copy number aberrations in cell free DNA from plasma of neuroblastoma patients using shallow massive parallel sequencing

Katleen De PreterNadine Van RoyBjörn MentenAnnelies DheedeneGenevieve LaureysBram De WildeFranki Speleman

Dual targeting of ALK and RET: establishing a novel basis for the treatment of neuroblastoma

Liselot MusShana ClaeysBram De WildeGenevieve LaureysAlan Van GoethemJohannes SchulteKatleen De PreterIrina LambertzFranki Speleman

Dual targeting of ALK and RET: establishing a novel basis for the treatment of neuroblastoma

Liselot MusShana ClaeysBram De WildeGenevieve LaureysAlan Van GoethemJohannes SchulteKatleen De PreterIrina LambertzFranki Speleman

ETV5 functionally connect ALK and CXCR4 signaling in neuroblastoma

Irina LambertzShana ClaeysCandy KumpsLiselot MusEls JanssensNadine Van RoyBram De WildeGenevieve LaureysJan CoolsOlivier De Wever et al.

ETV5 functionally connects ALK and CXCR4 signaling in neuroblastoma

Irina LambertzLiselot MusCandy KumpsShana ClaeysNadine Van RoyBram De WildeGenevieve LaureysJohannes ShulteOlivier De WeverKatleen De Preter et al.

Glutathione biosynthesis is upregulated at the initiation of MYCN-driven neuroblastoma tumorigenesis

Daniel R CarterSelina K SuttonMarina PajicJayne MurrayEric O SekyereJamie FletcherAnneleen BeckersKatleen De PreterFranki SpelemanRani E George et al.

A1 Journal Article in MOLECULAR ONCOLOGY

Improving marker gene discovery from high-dimensional single-cell snapshot data

Robrecht CannoodtWouter SaelensKatleen De PreterYvan Saeys

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

MYCN and HDAC5 transcriptionally repress CD9 to trigger invasion and metastasis in neuroblastoma

Johannes FabianDesirée OpitzKristina AlthoffMarco LodriniBarbara HeroRuth VollandAnneleen BeckersKatleen De PreterAnneleen DecockNitin Patil et al.

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 Bown et al.

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 Bown et al.

Optimization of a lentiviral inducible CRISPR/Cas9 system to modulate genes essential for sustained growth of cells

Bieke DecaestekerSuzanne VanhauwaertCarina LeonelliFanny De VloedGivani DewynKatleen De PreterFranki Speleman

Rol van microRNA in neutrofiel astma

Tania MaesFrancisco Avila CobosFlorence SchleichValentina SorbelloMonique HenketKatleen De PreterKen BrackeGriet ConickxClaire MesnilJo Vandesompele et al.

A4 Journal Article in BLOEDVATEN HART LONGEN

SOX11 acts as part of the MYCN regulatory protein complex implicated in neuroblastoma

Bieke DecaestekerSara De BrouwerSuzanne VanhauwaertFanny De VloedAnneleen BeckersGenevieve LaureysStein AertsSara EkFranki SpelemanKatleen De Preter

Sensing mutant ALK: Capicua and ETV5 as executors of aberrant ALK-driven MAPK signaling

Irina LambertzLiselot MusCandy KumpsShana ClaeysWouter Van LoockeChristophe Van NesteJan KosterRogier VersteegNadine Van RoyBram De Wilde et al.

Targeting MYCN-driven transcription by BET-bromodomain inhibition

Anton G HenssenKristina AlthoffAndrea OderskyAnneleen BeckersRichard KocheFranki SpelemanSimon SchaeferEmma BellMaike NortmeyerFrank Westermann et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

The BRIP1/FANCJ DNA helicase is a druggable 17q driver oncogene involved in G-quadruplex induced replicative stress resistance in neuroblastoma

Suzanne VanhauwaertAnnelies FieuwCarina LeonelliBieke DecaestekerJolien De WynPauline DepuydtSara De BrouwerNadine Van RoyShuning HeThomas Look et al.

The HBP1 tumor suppressor is a negative epigenetic regulator of MYCN driven neuroblastoma through interaction with the PRC2 complex

Shana ClaeysIrina LambertzEls JanssensSuzanne VanhauwaertBieke DecaestekerCandy KumpsSara De BrouwerAnnelies FieuwTom Van MaerkenBram De Wilde et al.

The HBP1 tumor suppressor is a negative epigenetic regulator of MYCN driven neuroblastoma through interaction with the PRC2 complex

Shana ClaeysIrina LambertzEls JanssensSuzanne VanhauwaertBieke DecaestekerCandy KumpsSara De BrouwerAnnelies FieuwTom Van MaerkenBram De Wilde et al.

The TBX2 super-enhancer marked transcription factor on 17q is overexpressed in neuroblastoma and infers poor prognosis

Bieke DecaestekerFanny De VloedSiebe LoontiensGeertrui DeneckerWouter Van LoockeMoritz GartlgruberDries RombautAnneleen BeckersShana ClaeysAnton Henssen et al.

The TBX2 super-enhancer marked transcription factor on 17q is overexpressed in neuroblastoma and infers poor prognosis

Bieke DecaestekerAnton HenssenWouter Van LoockeAnneleen BeckersSiebe LoontiensJohannes SchulteKatleen De PreterFranki Speleman

The chromosome 17q super-enhancer landscape in neuroblastoma

Bieke DecaestekerAnton HenssenWouter Van LoockeFrancisco Avila CobosAnneleen BeckersStein AertsJohannes SchulteKatleen De PreterFranki Speleman

The genomic region encompassing the overlapping SOX11 and Lnc-SOX11-1:1 loci exhibits a complex DNA copy number and mRNA expression pattern

Bieke DecaestekerSara De BrouwerRobrecht CannoodtDries RombautWouter Van LoockeAnnelies FieuwFanny De VloedPieter-Jan VoldersBjörn MentenRogier Versteeg et al.

The immunophenotypical landscape of patients with primary antibody deficiencies and their asymptomatic first-degree relatives : arguments for a multifactorial aetiology

Delfien BogaertPauline DepuydtKatleen De PreterCarolien BonroyJan PhilippéVictoria Bordon MariaTessa KerreBart LambrechtAndrea CeruttiKarim Vermaelen et al.

Unbiased modelling of dynamic processes with single-cell RNA-sequencing

Robrecht CannoodtWouter SaelensKatleen De PreterYvan Saeys

Unbiased modelling of dynamic processes with single-cell RNA-sequencing

Robrecht CannoodtWouter SaelensKatleen De PreterYvan Saeys

Unbiased modelling of dynamic processes with single-cell RNA-sequencing

Robrecht CannoodtWouter SaelensKatleen De PreterYvan Saeys

2015

A Cre-conditional MYCN-driven neuroblastoma mouse model as an improved tool for preclinical studies

Kristina AlthoffAnneleen BeckersEmma BellMaike NortmeyerTheresa ThorAnnika SprüsselSven LindnerKatleen De PreterAlexandra FlorinLukas C Heukamp et al.

A1 Journal Article in ONCOGENE

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

Differential module analysis in neuroblastoma regulatory networks

Robrecht CannoodtAnneleen BeckersCaroline Van CauwenberghFranki SpelemanKatleen De PreterYvan Saeys

ETV5 functionally connect ALK and RET signaling in neuroblastoma

Irina LambertzShana ClaeysCandy KumpsLiselot MusAnneleen BeckersEls JanssensNadine Van RoyGenevieve LaureysJohannes SchulteOlivier De Wever et al.

Genome wide expression profiling of p53 regulated miRNAs in neuroblastoma

Ali RihaniAlan Van GoethemMaté OngenaertSara De BrouwerPieter-Jan VoldersSaurabh AgarwalKatleen De PreterPieter MestdaghJason ShohetFranki Speleman et al.

A1 Journal Article in SCIENTIFIC REPORTS

HBP1 downregulation through mutant ALK represents a novel mechanism for cooperative MYCN activation in neuroblastoma

Shana ClaeysIrina LambertzAlan Van GoethemCandy KumpsSara De BrouwerAnnelies FieuwTom Van MaerkenKristina AlthoffJohannes SchulteJean-Baptiste Demoulin et al.

Identification of differentially expressed microRNAs in neutrophilic asthma

Tania MaesKatleen De PreterFN SchleichM HenketKen BrackeLies LahoussePieter MestdaghGuy JoosGuy BrusselleR Louis

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

Inferring developmental chronologies from single cell RNA

Robrecht CannoodtWouter SaelensKatleen De PreterYvan Saeys

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

Integrated genomic analysis identifies specific alterations and activation of YAP in relapsed neuroblastoma

A EggertA SchrammJ KoesterY AssenovA KristinaA EngesserY KahlertJ TheissenB HeroF Roels et al.

MYCN transcriptionally represses CD9 to trigger an invasion-metastasis cascade in neuroblastoma

H DeubzerJ FabianD OpitzK AlthoffM LodriniK AstrahantseffB HeroR VollandAnneleen BeckersKatleen De Preter et al.

MYCN-driven regulatory mechanisms controlling LIN28B in neuroblastoma

Anneleen BeckersGert Van PeerDaniel R CarterMoritz GartlgruberCarl HerrmannSaurabh AgarwalHetty HelsmoortelKristina AlthoffJan J MolenaarBelamy B Cheung et al.

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 Preter et al.

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 Bown et al.

Mutational dynamics between primary and relapse neuroblastomas

Alexander SchrammJohannes KösterYassen AssenovKrstina AlthoffMartin PeiferEllen MahlowAndrea OderskyDaniela BeisserCorinna ErnstAnton G Henssen et al.

A1 Journal Article in NATURE GENETICS

Synergistic combined molecular treatment targeting the HBP1 tumor suppressor gene in neuroblastoma

Shana ClaeysIrina LambertzAlan Van GoethemAnneleen BeckersCandy KumpsTom Van MaerkenJohannes SchulteKatleen De PreterFranki Speleman

Targeting super-enhancer induced gene expression with the novel BRD4 inhibitor OTX015 in preclinical models of MYCN-amplified neuroblastoma

Anton HenssenKristina AlthoffRichard KocheAndrea OderskyAnneleen BeckersFranki SpelemanSimon SchaefersKatleen De PreterAlexandra FlorinLukas Heukamp et al.

The HBP1 tumour suppressor at multiple regulatory cross roads in neuroblastoma

Shana ClaeysIrina LambertzAlan Van GoethemAnneleen BeckersCandy KumpsTom Van MaerkenJohannes SchulteKatleen De PreterFranki Speleman

The chromosome 17q super-enhancer landscape in neuroblastoma

Bieke DecaestekerAnton HenssenWouter Van LoockeAnneleen BeckersStein AertsJohannes SchulteKatleen De PreterFranki Speleman

The chromosome 17q super-enhancer landscape in neuroblastoma

Bieke DecaestekerAnton HenssenWouter Van LoockeAnneleen BeckersStein AertsJohannes SchulteKatleen De PreterFranki Speleman

Therapeutic targeting of the MYC signal by inhibition of histone chaperone FACT in neuroblastoma

Daniel R CarterJayne MurrayBelamy B CheungLaura GambleJessica KoachJoanna TsangSelina SuttonHeyam KallaSarah SyedAndrew J Gifford et al.

A1 Journal Article in SCIENCE TRANSLATIONAL MEDICINE

Unraveling the MYCN-driven transcriptional landscape of neuroblastoma : a cross-species integrated transcriptome approach

Anneleen BeckersFranki SpelemanKatleen De Preter

Upregulation of MAPK negative feedback regulators and RET in mutant ALK neuroblastoma : implications for targeted treatment

Irina LambertzCandy KumpsShana ClaeysSven LindnerAnneleen BeckersEls JanssensDaniel CarterAlex CazesBelamy CheungMarilena De Mariano et al.

Upregulation of MAPK negative feedback regulators and RET in mutant ALK neuroblastoma : implications for targeted treatment

Irina LambertzCandy KumpsShana ClaeysSven LindnerAnneleen BeckersEls JanssensDaniel CarterAlex CazesBelamy CheungMarilena De Mariano et al.

Upregulation of MAPK negative feedback regulators and RET in mutant ALK neuroblastoma : implications for targeted treatment

Irina LambertzCandy KumpsShana ClaeysSven LindnerAnneleen BeckersEls JanssensDaniel CarterAlex CazesBelamy CheungMarilena De Mariano et al.

Upregulation of MAPK negative feedback regulators and RET in mutant ALK neuroblastoma : implications for targeted treatment

Irina LambertzCandy KumpsShana ClaeysSven LindnerAnneleen BeckersEls JanssensDaniel R CarterAlex CazesBelamy B CheungMarilena De Mariano et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

2014

Activated Alk triggers prolonged neurogenesis and Ret upregulation providing a therapeutic target in ALK-mutated neuroblastoma

Alex CazesLucille Lopez-DelisleKonstantina TsarovinaCécile Pierre-EugèneKatleen De PreterMichel PeuchmaurAndré NicolasClaire ProvostCaroline Louis-BrennetotRomain Daveau et al.

A1 Journal Article in ONCOTARGET

Characterization of ALK driven molecular networks identifies perturbed RET and cholinergic signaling in neuroblastoma

Irina LambertzCandy KumpsShana ClaeysSven LindlerAnneleen BeckersEls JanssensMarilena De MarianoSara De BrouwerJay GibbonsGenevieve Laureys et al.

Differential module analysis in neuroblastoma regulatory networks

Robrecht CannoodtAnneleen BeckersCaroline Van CauwenberghKatleen De PreterYvan Saeys

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 Schleiermacher et al.

Histone chaperone CHAF1A inhibits differentiation and promotes aggressive neuroblastoma

Eveline BarbieriKatleen De PreterMario CapassoZaowen ChenDanielle M HsuGian Paolo ToniniSteve LefeverJohn HicksRogier VersteegAndrea Pession et al.

A1 Journal Article in CANCER RESEARCH

Identifying novel neuroblastoma oncogenes using semi-supervised learning

Leen De BaetsRobrecht CannoodtJoeri RuyssinckKatleen De PreterTom DhaeneYvan Saeys

Integrated genomic analyses for driver gene identification in neuroblastoma

Annelies FieuwFranki SpelemanKatleen De Preter

MYCN safeguards its upregulated expression through negatively controlling its upstream miRNAs

Anneleen BeckersGert Van PeerDaniel CarterBelamy CheungJo VandesompeleGlenn MarshallKatleen De PreterFranki Speleman

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 Preter et al.

Robust selection of cancer survival signatures from high-throughput genomic data using two-fold subsampling

Sangkyun LeeJörg RahnenführerMichel LangKatleen De PreterPieter MestdaghJan KosterRogier VersteegRaymond L StallingsLuigi VaresioShahab Asgharzadeh et al.

A1 Journal Article in PLOS ONE

SOX11 is a lineage-survival oncogene in neuroblastoma

Bieke DecaestekerSara De BrouwerGeneviève LaureysMonique MorrisonRodney StewartFranki SpelemanKatleen De Preter

SOX11 is a lineage-survival oncogene in neuroblastoma

Bieke DecaestekerSara De BrouwerAnneleen BeckersGenevieve LaureysMonique MorrisonRodney StewartFranki SpelemanKatleen De Preter

SOX11 is a lineage-survival oncogene in neuroblastoma

Bieke DecaestekerSara De BrouwerAnneleen BeckersRodney StewartFranki SpelemanKatleen De Preter

SOX11 is a lineage-survival oncogene in neuroblastoma

Sara De BrouwerBieke DecaestekerAnneleen BeckersGenevieve LaureysMonique MorrisonRodney StewartFranki SpelemanKatleen De Preter

The HBP1 tumor suppressor is a druggable ALK downregulated gene controlling MYCN activity

Shana ClaeysCandy KumpsIrina LambertzSara De BrouwerSven LindnerAlan Van GoethemTom Van MaerkenJorge VialardJan CoolsJohannes Schulte et al.

The HBP1 tumor suppressor is a druggable ALK downregulated gene controlling MYCN activity

Shana ClaeysCandy KumpsIrina LambertzSara De BrouwerSven LindnerAlan Van GoethemTom Van MaerkenJorge VialardJan CoolsJohannes Schulte et al.

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

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

ViVar: a comprehensive platform for the analysis and visualization of structural genomic variation

Tom SanteSarah VergultPieter-Jan VoldersWigard P KloostermanGeert TrooskensKatleen De PreterAnnelies DheedeneFranki SpelemanTim De MeyerBjörn Menten

A1 Journal Article in PLOS ONE

2013

A p53 drug response signature identifies prognostic genes in high-risk neuroblastoma

Eveline BarbieriKatleen De PreterMario CapassoPeter JohanssonTsz-Kwong ManZaowen ChenParis StowersGian Paolo ToniniFranki SpelemanJason M Shohet

A1 Journal Article in PLOS ONE

Different Sarcocystis spp. are present in bovine eosinophilic myositis

Lieve VangeelKurt HoufPeter GeldhofKatleen De PreterJozef VercruysseRichard DucatelleKoen Chiers

A1 Journal Article in VETERINARY PARASITOLOGY

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 Marshall et al.

ERBB3 is a marker of a ganglioneuroblastoma/ganglioneuroma-like expression profile in neuroblastic tumours

Annica WilzenCecilia KronaBaldur SveinbjornssonErik KristianssonDaniel DaleviIngrid OraKatleen De PreterRaymond L StallingsJohn MarisRogier Versteeg et al.

A1 Journal Article in MOLECULAR CANCER

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 Preter et al.

A1 Journal Article in METHODS

Focal DNA copy number changes in neuroblastoma target MYCN regulated genes

Candy KumpsAnnelies FieuwPieter MestdaghBjörn MentenSteve LefeverFilip PattynSara De BrouwerTom SanteJohannes Hubertus SchulteAlexander Schramm et al.

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 Stallings et al.

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. Stallings et al.

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 Stallings et al.

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 Stallings et al.

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

Anneleen DecockFjoralba ZekaKatleen De PreterFranki SpelemanJo Vandesompele

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 Versteeg et al.

A1 Journal Article in ONCOGENE

MYCN and HDAC2 cooperate to repress miR-183 signaling in neuroblastoma

Marco LodriniIna OehmeChristina SchroederTill MildeMarie C SchierAnnette Kopp-SchneiderJohannes H SchulteMatthias FischerKatleen De PreterFilip Pattyn et al.

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Network inference by integrating biclustering and feature selection

Robrecht CannoodtJoeri RuyssinckKatleen De PreterTom DhaeneYvan Saeys

Perturbed signaling pathways in neuroblastoma : from MYCN to ALK and back

Candy KumpsFranki SpelemanKatleen De Preter

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 Marshall et al.

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

Cancer gene prioritization for targeted resequencing using fitSNP scores

Annelies FieuwBram De WildeFranki SpelemanJo VandesompeleKatleen De Preter

A1 Journal Article in PLOS ONE

Copy number defects of G1-cell cycle genes in neuroblastoma are frequent and correlate with high expression of E2F target genes and a poor prognosis

Jan J MolenaarJan KosterMarli E EbusPeter van SluisEllen M WesterhoutKatleen De PreterDavid GisselssonIingrid ØraFranki SpelemanHuib N Caron et al.

A1 Journal Article in GENES CHROMOSOMES & CANCER

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 Preter et al.

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 Preter et al.

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 Stallings et al.

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 Vergult et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Isolation of disseminated neuroblastoma cells from bone marrow aspirates for pretreatment risk assessment by array comparative genomic hybridization

Mado VandewoestyneCandy KumpsKatrien SwertsBjörn MentenTim LammensJan PhilippéKatleen De PreterGenevieve LaureysNadine Van RoyFranki Speleman et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

MiR-137 is epigenetically silenced in MYCN amplified neuroblastoma and targets the polycomb repressive complex 2 (PRC2) component EZH2

Anneleen BeckersMaté OngenaertAnneleen DecockCandy KumpsFilip PattynPieter MestdaghJohannes H. SchulteFranki SpelemanKatleen De Preter

MiR-137 is epigenetically silenced in MYCN amplified neuroblastomas and targets the polycomb repressive complex 2 (PRC2) component EZH2

Anneleen BeckersMaté OngenaertAnneleen DecockCandy KumpsFilip Pattynthe Neuroblastoma Research Consortium (NRC)Pieter MestdaghJohannes H SchulteFranki SpelemanKatleen De Preter

N-Cadherin in neuroblastoma disease : expression and clinical significance

Tim LammensKatrien SwertsLara DeryckeANNEMIE DE CRAEMERSara De BrouwerKatleen De PreterNadine Van RoyJo VandesompeleFranki SpelemanJan Philippé et al.

A1 Journal Article in PLOS ONE

Pharmacological activation of the p53 pathway by nutlin-3 exerts anti-tumoral effects in medulloblastomas

Annette KünkeleKatleen De PreterLukas HeukampTheresa ThorKristian W PajtlerWolfgang HartmannMichel MittelbronnMichael A GrotzerHedwig E DeubzerFranki Speleman et al.

A1 Journal Article in NEURO-ONCOLOGY

Promoter methylation analysis identifies prognostic methylation biomarkers in neuroblastoma

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeRuth LadensteinJohannes H SchulteRosa NogueraRaymond L Stallings et al.

Targeted expression of mutated ALK induces neuroblastoma in transgenic mice

Lukas C HeukampTheresa ThorAlexander SchrammKatleen De PreterCandy KumpsBram De WildeAndrea OderskyMartin PeiferSven LindnerAnnika Spruessel et al.

A1 Journal Article in SCIENCE TRANSLATIONAL MEDICINE

Transcriptional miRNA/mRNA networks in neuroblastoma: from integrative analysis to molecular therapy

Sara De BrouwerFranki SpelemanKatleen De Preter

2011

A 6-gene signature identifies four molecular subgroups of neuroblastoma

Frida AbelDaniel DaleviMaria NethanderRebecka JörnstenKatleen De PreterJoëlle VermeulenRaymond StallingsPer KognerJohn MarisStaffan Nilsson

A1 Journal Article in CANCER CELL INTERNATIONAL

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 Jeison et al.

A1 Journal Article in BRITISH JOURNAL OF HAEMATOLOGY

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 Westermann et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

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

Annelies FieuwCandy KumpsAlexander SchrammBjörn MentenJohannes SchulteNadine Van RoySarah VergultRosa NogueraRogier VersteegR Stallings et al.

Identification of tumoral glial precursor cells in neuroblastoma

Sandra AcostaGemma MayolEva RodríguezCinzia LavarinoKatleen De PreterCandy KumpsIdoia GarciaCarmen de TorresJaume Mora

A1 Journal Article in CANCER LETTERS

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

Neuroblastoma genetics and phenotype: a tale of heterogeneity

Franki SpelemanKatleen De PreterJo Vandesompele

A1 Journal Article in SEMINARS IN CANCER BIOLOGY

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

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

Katleen De PreterPieter MestdaghJoëlle VermeulenFjoralba ZekaAlene NaranjoIsabella BrayVictoria CastelCaifu ChenElzbieta DrozynskaAngelika Eggert et al.

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 Mora et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

Accurate prediction of neuroblastoma outcome based on miRNA expression profiles

Johannes H SchulteBenjamin SchowePieter MestdaghLars KaderaliPrabhav KalaghatgiStefanie SchlierfJoëlle VermeulenBent BrockmeyerKristian PajtlerTheresa Thor et al.

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 Thor et al.

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

Pieter MestdaghErik FredlundFilip PattynAli RihaniTom Van MaerkenJoëlle VermeulenCandy KumpsBjörn MentenKatleen De PreterAlexander Schramm et al.

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

Pieter MestdaghE FredlundFilip PattynAli RihaniTom Van MaerkenJoëlle VermeulenCandy KumpsBjörn MentenKatleen De PreterA Schramm et al.

A1 Journal Article in ONCOGENE

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 Vandesompele et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

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 Westermann et al.

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 Roy et al.

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 Maerken et al.

A1 Journal Article in CLINICAL CANCER RESEARCH

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

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

The quassinoid derivative NBT-272 targets both the AKT and ERK signaling pathways in embryonal tumors

Deborah CastellettiGiulio FiaschettiValeria Di DatoUrs ZieglerCandy KumpsKatleen De PreterMassimo ZolloFranki SpelemanTarek ShalabyDaniela De Martino et al.

A1 Journal Article in MOLECULAR CANCER THERAPEUTICS

2009

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

Joëlle VermeulenKatleen De PreterGenevieve LaureysFranki SpelemanJo Vandesompele

Editorial material

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 Verhasselt et al.

A1 Journal Article in BRITISH JOURNAL OF HAEMATOLOGY

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 Cauwelier et al.

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.)

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 Philippé et al.

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 Pajtler et al.

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 Tonini et al.

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

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

Sarcocystis in bovine eosinophilic myositis: contribution to pathogenesis

Lieve VangeelKurt HoufPeter GeldhofHeidi NolletKatleen De PreterJozef VercruysseRichard DucatelleKoen Chiers

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 Schramm et al.

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

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

2008

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

Copy number alterations and copy number variation in cancer: close encounters of the bad kind

Franki SpelemanCandy KumpsKaren BuysseBruce PoppeBjörn MentenKatleen De Preter

A1 Journal Article in CYTOGENETIC AND GENOME RESEARCH

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 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

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 Antonacci et al.

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

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

Unmasking of epigenetically silenced microRNAs in neuroblastoma

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

2007

A detailed inventory of DNA copy number alterations in four commonly used Hodgkin lymphoma cell lines

Tom FeysBruce PoppeKatleen De PreterNadine Van RoyBruno VerhasseltPascale De PaepeAnne De PaepeFranki Speleman

A detailed inventory of DNA copy number alterations in four commonly used Hodgkin's lymphoma cell lines

Tom FeysBruce PoppeKatleen De PreterNadine Van RoyBruno VerhasseltPascale De PaepeAnne De PaepeFranki Speleman

A1 Journal Article in HAEMATOLOGICA

ArrayCGH based classification of neuroblastoma into genomic subgroups

Sara De BrouwerEvi MichelsJo VandesompeleKatleen De PreterJasmien HoebeeckJoëlle VermeulenAlexander SchrammJan J MolenaarBjörn MentenBarbara Marques et al.

ArrayCGH-based classification of neuroblastoma into genomic subgroups

Evi MichelsJo VandesompeleKatleen De PreterJasmien HoebeeckJoëlle VermeulenAlexander SchrammJan J MolenaarBjörn MentenBarbara MarquesRaymond L Stallings et al.

A1 Journal Article in GENES CHROMOSOMES & CANCER

Detection of DNA copy number alterations in cancer by array comparative genomic hybridization

Evi MichelsKatleen De PreterNadine Van RoyFranki Speleman

A1 Journal Article in GENETICS IN MEDICINE

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

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 Paepe et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

Integrative genomics in neuroblastoma research

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

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

2006

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

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 Renard et al.

A1 Journal Article in GENOME BIOLOGY

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 Påhlman et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

2005

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 Roy et al.

A1 Journal Article in BMC GENOMICS

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 LASTOWSKA et al.

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 Vermeesch et al.

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

No evidence for involvement of SDHD in neuroblastoma pathogenesis

Katleen De PreterJo VandesompeleJasmien HoebeeckCaroline VandenbroeckeJoél SmetAnnick NuytsGenevieve LaureysValérie CombaretNadine Van RoyFrank Roels et al.

A1 Journal Article in BMC CANCER

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 Roy et al.

A1 Journal Article in CANCER LETTERS

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

Peroxisome mosaics

Frank RoelsJean-Marie SaudubrayMarisa GirosHanna MandelFrançois EyskensNieves SaracibarBegona Atares PueyoJose M PratsBetty De PrestKatleen De Preter et al.

A1 Journal Article in Advances in Experimental Medicine and Biology

2002

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

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 Paepe et al.

A1 Journal Article in MODERN PATHOLOGY