Research Explorer

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Researcher

Katleen De Preter

295 Results

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

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

Kathleen SchoofsAnnouck PhilippronFrancisco Avila CobosSteve LefeverJasper AnckaertDanny De LoozeJo VandesompelePiet PattynKatleen De Preter

A1 Journal Article in SCIENTIFIC DATA

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

Carolina de Carvalho NunesLisa DepestelLiselot MusLouis DelhayeAmber LouwagieMuhammad RishfiFanny De VloedEllen SandersAline EggermontSarah-Lee BekaertWouter Van LoockeJan Willem BekGivani DewynSiebe LoontiensGert Van IsterdaelBieke DecaestekerLaurentijn TillemanFilip Van NieuwerburghVanessa VermeirssenChristophe Van NesteBart GhesquièreSteven GoossensSven EyckermanKatleen De PreterBram De WildeKaat DurinckFranki Speleman

U 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 RamanJo Van DorpeMalaïka Van der LindenJilke De WildeAndries De KokerBjörn MentenGenevieve LaureysFranki SpelemanBram De WildeTim LammensKatleen De PreterNadine Van Roy

A1 Journal Article in EUROPEAN JOURNAL OF CANCER

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

Jasper VerwiltWim TrypsteenRuben Van PaemelKatleen De PreterPieter MestdaghJo Vandesompele

2021

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

Annouck PhilippronBram De LaereCharlotte VandeputteKatleen 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)

Katleen De PreterNadine Van Roy

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 HaverKatleen 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 KokerAnnelien 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 WynCarolina de Carvalho NunesAnneleen BeckersPieter-Jan VoldersBieke DecaestekerKatleen De PreterWouter Van LoockeFranki SpelemanKaat Durinck

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 VandeputteTim LammensGenevieve LaureysJo VandesompeleNadine Van RoyNico 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 LefeverEva JacobsEllen SandersChristophe Van NesteSuzanne VanhauwaertBieke DecaestekerDieter DeforceFilip Van NieuwerburghPieter MestdaghJo VandesompeleBjörn MentenKatleen De PreterBjörn HeindryckxKaat DurinckFranki Speleman

A1 Journal Article in GENES CHROMOSOMES & CANCER

SOX11 as guardian of epigenetic plasticity in neuroblastoma

Bieke DecaestekerAmber LouwagieSiebe LoontiensCarolina de Carvalho NunesFanny De VloedLisa DepestelJuliette RoelsKaren VerboomEva D'haeneWouter Van LoockeVolodimir OlexioukPauline DepuydtEllen SandersGivani DewynLiselot MusLucia LorenziJo Van DorpeDavid CreytensKaat DurinckBjörn MentenNadine Van RoyTim PietersPieter Van VlierbergheSuzanne VanhauwaertChristophe Van NesteKatleen De PreterFranki Speleman

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

Lucia LorenziFrancisco Avila CobosPieter-Jan VoldersRobrecht CannoodtJustine NuytensKatrien VanderheydenJasper AnckaertSteve LefeverWim TrypsteenFien GysensMarieke VrommanTine GoovaertsNele NijsTom TaghonKarim VermaelenKen BrackeYvan SaeysTim De MeyerKatleen De PreterJo VandesompelePieter Mestdagh

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)

Francisco Avila CobosPieter-Jan VoldersRobrecht CannoodtJustine NuytensJasper AnckaertSteve LefeverWim TrypsteenFien GysensMarieke VrommanTom TaghonKarim VermaelenKen BrackeYvan SaeysTim De MeyerKatleen De PreterJo VandesompelePieter Mestdagh

The functional annotation and exploration the SOX11 enhanceosome

Amber LouwagieBieke DecaestekerLouis DelhayeEva D'haeneEric de Bony de LavergneVolodimir OlexioukSarah VergultSven EyckermanPieter MestdaghKatleen De PreterFranki Speleman

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 CobosPieter 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 VoldersKatleen De PreterTessa KerreBart VandekerckhoveGeorges LeclercqJo VandesompelePieter MestdaghPieter Van VlierbergheFranki SpelemanTom Taghon

A1 Journal Article in EMBO REPORTS

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

Jan VanwelkenhuyzenKim Van der EeckenBram De LaereKatleen De PreterPiet Ost

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

Amber LouwagieBieke DecaestekerEva D'haeneLouis DelhayeEric de Bony de LavergneChristophe Van NesteBjörn MentenSven EyckermanPieter MestdaghKatleen De PreterFranki Speleman

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

Ruben Van PaemelAndries De KokerCharlotte VandeputteTim LammensGenevieve LaureysJo VandesompeleNadine Van RoyNico CallewaertBram De WildeKatleen De Preter

SOX11 as guardian of epigenetic plasticity in neuroblastoma

Bieke DecaestekerAmber LouwagieSiebe LoontiensCarolina de Carvalho NunesKaren VerboomJuliette RoelsEva D'haeneKaat DurinckSuzanne VanhauwaertChristophe Van NesteKatleen De PreterFranki Speleman

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 NesteGenevieve LaureysOlivier De WeverBram De WildeKaat DurinckKatleen De PreterFranki Speleman

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 PaemelKatleen De PreterNadine Van RoyFranki SpelemanLeen WillemsTim LammensGenevieve LaureysBram De Wilde

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 PreterPieter 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 MusStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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

Liselot MusStéphane Van HaverGeertrui DeneckerEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertVanessa VermeirssenKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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 WildeKatleen De Preter

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 ClaeysKaat DurinckBieke DecaestekerLiselot MusSiebe LoontiensSuzanne VanhauwaertCandy KumpsTom Van MaerkenGenevieve LaureysChristophe Van NesteBram De WildeOlivier De WeverKatleen De PreterFranki Speleman

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 CobosJo VandesompelePieter 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 MusStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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 WildeKatleen De Preter

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

Katleen De Preter

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

Dries RombautBieke DecaestekerCeline EveraertNurten YigitKatleen De PreterFranki SpelemanJo VandesompeleSteve LefeverPieter Mestdagh

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 VandeputteTim LammensGenevieve LaureysJo VandesompeleNadine Van RoyNico CallewaertKatleen De PreterBram De Wilde

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 PaemelCharlotte VandeputteTim LammensJo VandesompeleNadine Van RoyKatleen De PreterBram De Wilde

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

Kathleen SchoofsAnnouck PhilippronPiet PattynJo VandesompeleKatleen De Preter

SOX11 as mediator of the adrenergic cell state in NB

Bieke DecaestekerAmber LouwagieSara De BrouwerVolodimir OlexioukGeertrui DeneckerCarolina de Carvalho NunesKaren VerboomWouter Van LoockePauline DepuydtFanny De VloedEllen SandersSuzanne VanhauwaertLiselot MusSiebe LoontiensBram De WildeGenevieve LaureysBjörn MentenNadine Van RoyJo Van DorpeDavid CreytensChristophe Van NesteKaat DurinckKatleen De PreterFranki Speleman

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

Amber LouwagieBieke DecaestekerSara De BrouwerGeertrui DeneckerCarolina de Carvalho NunesVolodimir OlexioukKaren VerboomWouter Van LoockePauline DepuydtFanny De VloedEllen SandersSuzanne VanhauwaertLiselot MusSiebe LoontiensBjörn MentenNadine Van RoyDavid CreytensKaat DurinckKatleen De PreterFranki Speleman

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

Amber LouwagieBieke DecaestekerCarolina de Carvalho NunesGeertrui DeneckerVolodimir OlexioukKaren VerboomWouter Van LoockePauline DepuydtFanny De VloedEllen SandersLiselot MusSiebe LoontiensLucia LorenziJo Van DorpeDavid CreytensBjörn MentenNadine Van RoyKaat DurinckSuzanne VanhauwaertChristophe Van NesteKatleen De PreterFranki Speleman

Searching for liquid RNA biomarkers for esophageal adenocarcinoma

Kathleen SchoofsAnnouck PhilippronPiet PattynJo VandesompeleKatleen De Preter

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

Charlotte VandeputteRuben Van PaemelAndries De KokerLeen WillemsJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenBram De WildeFranki SpelemanKatleen De PreterTim LammensNadine Van Roy

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

Charlotte VandeputteRuben Van PaemelAndries De KokerJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenBram De WildeFranki SpelemanKatleen De PreterNadine Van RoyTim Lammens

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

Charlotte VandeputteRuben Van PaemelAndries De KokerJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenBram De WildeFranki SpelemanKatleen De PreterNadine Van RoyTim Lammens

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

Charlotte VandeputteRuben Van PaemelAndries De KokerJo Van DorpeMalaïka Van der LindenJilke De WildeBjörn MentenBram De WildeFranki SpelemanKatleen De PreterNadine Van RoyTim Lammens

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

Lucia LorenziFrancisco Avila CobosPieter-Jan VoldersRobrecht CannoodtJustine NuytensJasper AnckaertSteve LefeverTine GoovaertsTom TaghonKarim VermaelenKen BrackeTim De MeyerKatleen De PreterJo VandesompelePieter Mestdagh

2018

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

Francisco Avila CobosLucia LorenziJo VandesompeleKatleen De PreterPieter Mestdagh

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

Dorien BaetensLode De CauwerFrank PeelmanHannah VerdinMarnik VuylstekeMalaïka Van der LindenKarolien De BosscherMartine CoolsElfride De BaereKatleen De Preter

A1 Journal Article in GENETICS IN MEDICINE

Circulating microRNA biomarkers for metastatic disease in neuroblastoma patients

Fjoralba ZekaAnneleen DecockAlan Van GoethemKatrien VanderheydenTim LammensHetty HelsmoortelGenevieve LaureysTom Van MaerkenFranki SpelemanKatleen De PreterPieter MestdaghJo Vandesompele

A1 Journal Article in JCI INSIGHT

Circulating microRNA biomarkers for metastatic neuroblastoma

Fjoralba ZekaAlan Van GoethemTim LammensAnneleen DecockHetty HelsmoortelGenevieve LaureysFranki SpelemanTom Van MaerkenKatleen De PreterPieter MestdaghJo Vandesompele

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

Katleen De PreterJo VandesompelePieter Mestdagh

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 DepuydtFranki SpelemanKatleen 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 DeneckerStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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

Liselot MusStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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

Liselot MusGeertrui DeneckerStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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

Liselot MusGeertrui DeneckerStéphane Van HaverEllen SandersEva JacobsMina PopovicChristophe Van NesteSuzanne VanhauwaertKaat DurinckBjörn MentenKatleen De PreterBjörn HeindryckxFranki Speleman

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

Pauline DepuydtRobrecht CannoodtGenevieve LaureysFranki SpelemanKatleen De Preter

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 VandesompeleGeertrui DeneckerChristophe Van NesteFranki SpelemanKatleen De Preter

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

Shana ClaeysKatleen De PreterFranki Speleman

A1 Journal Article in SCIENCE SIGNALING

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

Katleen De PreterFranki Speleman

A1 Journal Article in CLINICAL CANCER RESEARCH

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

Katleen De PreterFranki Speleman

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 CarronCaroline Van CauwenberghMattias Van HeetveldeMiriam BauwensHannah VerdinFrauke CoppietersKatleen De PreterBart LeroyElfride De Baere

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

Anneleen BeckersSara De BrouwerBieke DecaestekerKatleen De PreterFranki Speleman

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 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

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

Katleen De PreterFranki Speleman

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 DepuydtJolien De WynBjörn MentenDavid CreytensJo Van DorpeFranki SpelemanKatleen De Preter

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 NesteWouter Van LoockeCarolina de Carvalho NunesFanny De VloedPauline DepuydtKaren VerboomDries RombautSiebe LoontiensJolien De WynKaat DurinckDieter DeforceFilip Van NieuwerburghPieter MestdaghSuzanne VanhauwaertKatleen De PreterFranki Speleman

A1 Journal Article in NATURE COMMUNICATIONS

TBX2 is implicated in cell cycle control and proliferation in neuroblastoma

Bieke DecaestekerGeertrui DeneckerChristophe Van NesteFanny De VloedPauline DepuydtWouter Van LoockeShana ClaeysDries RombautSiebe LoontiensSuzanne VanhauwaertKatleen De PreterFranki Speleman

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

Bieke DecaestekerGeertrui DeneckerChristophe Van NesteFanny De VloedPauline DepuydtWouter Van LoockeShana ClaeysDries RombautSiebe LoontiensSuzanne VanhauwaertKatleen De PreterFranki Speleman

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

Bieke DecaestekerGeertrui DeneckerPauline DepuydtFanny De VloedShana ClaeysDries RombautSiebe LoontiensSuzanne VanhauwaertChristophe Van NesteKatleen De PreterFranki Speleman

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 EveraertHetty HelsmoortelAn HendrixEva HulstaertPieter MestdaghNele NijsAnnouck PhilippronJo VandesompeleRuben Van PaemelKimberly VerniersNurten Yigit

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

Bram De WildeAnneleen BeckersKatleen De PreterPauline DepuydtPieter MestdaghTom SanteSteve LefeverElien VandermarliereLennart MartensBjörn MentenJo VandesompeleFranki Speleman

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 CriekingeNico CallewaertAnneleen Decock

Zipper plot : visualizing transcriptional activity of genomic regions

Francisco Avila CobosPieter-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

Katleen De PreterTom Van Maerken

A1 Journal Article in EXPERT OPINION ON DRUG DISCOVERY

BRD3 as a specific vulnerable therapeutic target in neuroblastoma

Jolien De WynKaat DurinckSiebe LoontiensSuzanne VanhauwaertKatleen De PreterFranki Speleman

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 DepuydtRobrecht CannoodtGenevieve LaureysFranki SpelemanKatleen De Preter

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 LaureysKatleen De PreterFranki Speleman

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

Pauline DepuydtRobrecht CannoodtGenevieve LaureysFranki SpelemanKatleen De Preter

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 CarronCaroline Van CauwenberghMattias Van HeetveldeMiriam BauwensHannah VerdinFrauke CoppietersKatleen De PreterBart LeroyElfride De Baere

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 CarronCaroline Van CauwenberghMattias Van HeetveldeMiriam BauwensHannah VerdinFrauke CoppietersKatleen De PreterBart LeroyElfride De Baere

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 DurinckFranki Speleman

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 DurinckFranki Speleman

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 DepuydtKris GevaertFranki SpelemanKatleen De Preter

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

Bieke DecaestekerSara De BrouwerFanny De VloedSuzanne VanhauwaertJolien De WynGenevieve LaureysBjörn MentenPauline DepuydtKris GevaertFranki SpelemanKatleen De Preter

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 SanteTim LammensBram De WildeFranki SpelemanKatleen De Preter

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 LaureysTom SanteTim LammensBram De WildeFranki SpelemanKatleen De Preter

A1 Journal Article in CLINICAL CANCER RESEARCH

Targeting tachykinin receptors in neuroblastoma

Anneleen BeckersFranki SpelemanKatleen De Preter

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 NesteNadine Van RoyBram De WildeGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

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

Liselot MusIrina LambertzCandy KumpsShana ClaeysGeertrui DeneckerWouter Van LoockeChristophe Van NesteNadine Van RoyBram De WildeGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

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

Liselot MusIrina LambertzCandy KumpsShana ClaeysGeertrui DeneckerWouter Van LoockeChristophe Van NesteNadine Van RoyBram De WildeGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

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 LaureysKatleen De PreterFranki Speleman

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 VanhauwaertTom Van MaerkenGenevieve LaureysChristophe Van NesteBram De WildeKaat DurinckKatleen De PreterFranki Speleman

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

Bieke DecaestekerGeertrui DeneckerWouter Van LoockePauline DepuydtFanny De VloedShana ClaeysDries RombautSiebe LoontiensSuzanne VanhauwaertChristophe Van NesteKatleen De PreterFranki Speleman

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 KerreKarim VermaelenFilomeen HaerynckMelissa Dullaers

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 KerreAndrea CeruttiKarim VermaelenFilomeen HaerynckMelissa Dullaers

Zipper plot : visualizing transcriptional activity of genomic regions

Francisco Avila CobosPieter-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 BeckersJo VandesompeleFranki SpelemanKatleen De Preter

Asthma inflammatory phenotypes show differential microRNA expression in sputum

Tania MaesFrancisco Avila CobosKatleen De PreterKen BrackeGriet ConickxJo VandesompeleLies LahoussePieter MestdaghGuy JoosGuy Brusselle

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

Katleen De Preter

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 GoethemKatleen 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 GoethemKatleen De PreterIrina LambertzFranki Speleman

ETV5 functionally connect ALK and CXCR4 signaling in neuroblastoma

Irina LambertzShana ClaeysCandy KumpsLiselot MusNadine Van RoyBram De WildeGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

ETV5 functionally connects ALK and CXCR4 signaling in neuroblastoma

Irina LambertzLiselot MusCandy KumpsShana ClaeysBram De WildeGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

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

Anneleen BeckersKatleen De PreterFranki Speleman

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

Anneleen BeckersKatleen De PreterAnneleen DecockFranki Speleman

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 RoyKatleen De PreterFranki SpelemanJo Vandesompele

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

Anneleen DecockMaté OngenaertRobrecht CannoodtKimberly VerniersBram De WildeGenevieve LaureysNadine Van RoyKatleen De PreterFranki SpelemanJo Vandesompele

A1 Journal Article in ONCOTARGET

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 CobosKatleen De PreterKen BrackeGriet ConickxJo VandesompeleLies LahoussePieter MestdaghGuy JoosGuy Brusselle

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 LaureysFranki 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 NesteNadine Van RoyBram De WildeGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

Targeting MYCN-driven transcription by BET-bromodomain inhibition

Anneleen BeckersFranki SpelemanKatleen De Preter

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 RoyKatleen De PreterFranki Speleman

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 WildeGenevieve LaureysKatleen De PreterFranki Speleman

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 WildeGenevieve LaureysKatleen De PreterFranki Speleman

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

Bieke DecaestekerFanny De VloedSiebe LoontiensGeertrui DeneckerWouter Van LoockeDries RombautAnneleen BeckersShana ClaeysSuzanne VanhauwaertKatleen De PreterFranki Speleman

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

Bieke DecaestekerWouter Van LoockeAnneleen BeckersSiebe LoontiensKatleen De PreterFranki Speleman

The chromosome 17q super-enhancer landscape in neuroblastoma

Bieke DecaestekerWouter Van LoockeFrancisco Avila CobosAnneleen BeckersKatleen 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 MentenFranki SpelemanKatleen De Preter

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 VermaelenElfride De BaereFilomeen HaerynckMelissa Dullaers

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

Anneleen BeckersKatleen De PreterCandy KumpsFranki Speleman

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 BeckersJo VandesompeleFranki 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 BeckersNadine Van RoyGenevieve LaureysOlivier De WeverKatleen De PreterFranki Speleman

Genome wide expression profiling of p53 regulated miRNAs in neuroblastoma

Ali RihaniAlan Van GoethemMaté OngenaertSara De BrouwerPieter-Jan VoldersKatleen De PreterPieter MestdaghFranki SpelemanJo VandesompeleTom Van Maerken

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 MaerkenKatleen De PreterFranki Speleman

Identification of differentially expressed microRNAs in neutrophilic asthma

Tania MaesKatleen De PreterKen BrackeLies LahoussePieter MestdaghGuy JoosGuy Brusselle

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

Katleen De PreterJo Vandesompele

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

Katleen De PreterFranki Speleman

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

Anneleen BeckersKatleen De PreterFranki Speleman

MYCN-driven regulatory mechanisms controlling LIN28B in neuroblastoma

Anneleen BeckersGert Van PeerHetty HelsmoortelYves BenoitJo 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 PeerPieter MestdaghJo VandesompeleKatleen De PreterFranki Speleman

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 RoyKatleen De PreterFranki SpelemanJo Vandesompele

Mutational dynamics between primary and relapse neuroblastomas

Katleen De PreterFranki Speleman

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 MaerkenKatleen De PreterFranki Speleman

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

Anneleen BeckersFranki SpelemanKatleen De Preter

The HBP1 tumour suppressor at multiple regulatory cross roads in neuroblastoma

Shana ClaeysIrina LambertzAlan Van GoethemAnneleen BeckersCandy KumpsTom Van MaerkenKatleen De PreterFranki Speleman

The chromosome 17q super-enhancer landscape in neuroblastoma

Bieke DecaestekerAnneleen BeckersKatleen De PreterFranki Speleman

The chromosome 17q super-enhancer landscape in neuroblastoma

Bieke DecaestekerWouter Van LoockeAnneleen BeckersKatleen De PreterFranki Speleman

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

Franki SpelemanKatleen De PreterAnneleen Beckers

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 ClaeysAnneleen BeckersSara De BrouwerGenevieve LaureysDavid Camacho-TrujilloNadine Van RoyAlan Van GoethemTom Van MaerkenFranki SpelemanKatleen De Preter

A1 Journal Article in CLINICAL CANCER RESEARCH

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

Irina LambertzCandy KumpsShana ClaeysAnneleen BeckersEls JanssensDavid Camacho-TrujilloSara De BrouwerGenevieve LaureysNadine Van RoyAlan Van GoethemTom Van MaerkenFranki SpelemanKatleen De Preter

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

Irina LambertzCandy KumpsShana ClaeysAnneleen BeckersEls JanssensDavid Camacho-TrujilloSara De BrouwerGenevieve LaureysNadine Van RoyAlan Van GoethemTom Van MaerkenFranki SpelemanKatleen De Preter

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

Irina LambertzCandy KumpsShana ClaeysAnneleen BeckersEls JanssensDavid Camacho-TrujilloSara De BrouwerGenevieve LaureysNadine Van RoyAlan Van GoethemTom Van MaerkenFranki SpelemanKatleen De Preter

2014

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

Katleen De PreterCandy KumpsFranki Speleman

A1 Journal Article in ONCOTARGET

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

Irina LambertzCandy KumpsShana ClaeysAnneleen BeckersSara De BrouwerGenevieve LaureysAlan Van GoethemTom Van MaerkenNadine Van RoyFranki SpelemanKatleen De Preter

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 OngenaertKatleen De PreterFranki SpelemanJo Vandesompele

Histone chaperone CHAF1A inhibits differentiation and promotes aggressive neuroblastoma

Katleen De PreterSteve LefeverFranki Speleman

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 PeerJo VandesompeleKatleen 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 WildeAnneleen BeckersAnnelies FieuwKatleen De PreterPieter MestdaghJo VandesompeleFranki Speleman

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

Katleen De PreterPieter Mestdagh

A1 Journal Article in PLOS ONE

SOX11 is a lineage-survival oncogene in neuroblastoma

Sara De BrouwerBieke DecaestekerAnneleen BeckersGenevieve LaureysFranki SpelemanKatleen De Preter

SOX11 is a lineage-survival oncogene in neuroblastoma

Bieke DecaestekerSara De BrouwerFranki SpelemanKatleen De Preter

SOX11 is a lineage-survival oncogene in neuroblastoma

Bieke DecaestekerSara De BrouwerAnneleen BeckersFranki SpelemanKatleen De Preter

SOX11 is a lineage-survival oncogene in neuroblastoma

Bieke DecaestekerSara De BrouwerAnneleen BeckersGenevieve LaureysFranki SpelemanKatleen De Preter

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

Shana ClaeysCandy KumpsIrina LambertzSara De BrouwerAlan Van GoethemTom Van MaerkenKatleen De PreterFranki Speleman

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

Shana ClaeysCandy KumpsIrina LambertzSara De BrouwerAlan Van GoethemTom Van MaerkenKatleen De PreterFranki Speleman

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

Anneleen BeckersGert Van PeerSara De BrouwerJo VandesompeleKatleen De PreterFranki Speleman

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

Anneleen BeckersGert Van PeerJo VandesompeleKatleen De PreterFranki Speleman

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

Anneleen BeckersJo VandesompeleKatleen De PreterFranki Speleman

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

Tom SanteSarah VergultPieter-Jan VoldersGeert 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

Katleen De PreterFranki Speleman

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 PreterGert Van PeerSara De BrouwerPieter MestdaghGenevieve LaureysJo VandesompeleFranki Speleman

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

Katleen De Preter

A1 Journal Article in MOLECULAR CANCER

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

Katleen De PreterStefaan DerveauxJan HellemansJo Vandesompele

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 SanteNadine Van RoyTom Van MaerkenGenevieve LaureysJo 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 KumpsJo VandesompeleKatleen De PreterFranki Speleman

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

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeGenevieve LaureysTom Van MaerkenFranki SpelemanJo Vandesompele

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

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeGenevieve LaureysJoëlle VermeulenTom Van MaerkenFranki SpelemanJo Vandesompele

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

Anneleen BeckersKatleen De PreterSara De BrouwerGert Van PeerPieter MestdaghGenevieve LaureysJo VandesompeleFranki Speleman

Identifying and validating DNA methylation biomarkers: the example of neuroblastoma

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeGenevieve 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

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

Katleen De PreterSteve LefeverJo VandesompeleFranki Speleman

A1 Journal Article in ONCOGENE

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

Katleen De PreterFilip Pattyn

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 DecockGert Van PeerSara De BrouwerGenevieve LaureysJo VandesompeleMaté OngenaertKatleen De PreterFranki Speleman

2012

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

Candy KumpsKatleen De PreterBram De WildeJo VandesompeleFranki Speleman

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

Katleen De PreterFranki Speleman

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 PaepeKatleen 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

Jo VandesompeleJoëlle VermeulenKatleen De PreterFranki Speleman

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 CriekingeGenevieve 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 MestdaghJo VandesompeleFranki Speleman

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

Annelies FieuwCandy KumpsFilip PattynBjörn MentenNadine Van RoySarah VergultAnne De PaepeJo VandesompeleKatleen De PreterFranki Speleman

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 SpelemanDieter Deforce

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

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

Anneleen BeckersMaté OngenaertAnneleen DecockCandy KumpsFilip PattynPieter MestdaghFranki SpelemanKatleen De Preter

N-Cadherin in neuroblastoma disease : expression and clinical significance

Tim LammensKatrien SwertsLara DeryckeSara De BrouwerKatleen De PreterNadine Van RoyJo VandesompeleFranki SpelemanJan PhilippéYves BenoitMarc BrackeGenevieve Laureys

A1 Journal Article in PLOS ONE

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

Katleen De PreterFranki Speleman

A1 Journal Article in NEURO-ONCOLOGY

Promoter methylation analysis identifies prognostic methylation biomarkers in neuroblastoma

Anneleen DecockMaté OngenaertJasmien HoebeeckKatleen De PreterGert Van PeerWim Van CriekingeGenevieve LaureysJoëlle VermeulenTom Van MaerkenFranki SpelemanJo Vandesompele

Targeted expression of mutated ALK induces neuroblastoma in transgenic mice

Katleen De PreterCandy KumpsBram De WildeFilip PattynPieter MestdaghBjörn MentenJo VandesompeleFranki Speleman

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

Katleen De PreterJoëlle Vermeulen

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 TaghonKatleen De PreterPieter MestdaghTom Van MaerkenNadine Van RoyLucien NoensAnne De PaepeBruno VerhasseltJan PhilippéJo VandesompelePieter Van VlierbergheBruce PoppeFranki Speleman

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

Katleen De PreterJo VandesompeleFranki Speleman

A1 Journal Article in CLINICAL CANCER RESEARCH

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

Annelies FieuwCandy KumpsBjörn MentenNadine Van RoySarah VergultJo VandesompeleKatleen De PreterFranki Speleman

Identification of tumoral glial precursor cells in neuroblastoma

Katleen De PreterCandy Kumps

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

Katleen De PreterJo Vandesompele

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

Katleen De PreterPieter MestdaghJoëlle VermeulenFjoralba ZekaGenevieve 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 VermeulenFranki SpelemanJo Vandesompele

A1 Journal Article in CLINICAL CANCER RESEARCH

Accurate prediction of neuroblastoma outcome based on miRNA expression profiles

Pieter MestdaghJoëlle VermeulenKatleen De PreterFranki SpelemanJo Vandesompele

Accurate prediction of neuroblastoma outcome based on miRNA expression profiles

Pieter MestdaghJoëlle VermeulenKatleen De PreterFranki SpelemanJo Vandesompele

A1 Journal Article in INTERNATIONAL JOURNAL OF CANCER

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

Pieter MestdaghFilip PattynAli RihaniTom Van MaerkenJoëlle VermeulenCandy KumpsBjörn MentenKatleen De PreterGenevieve LaureysDavid NittnerJean-Christophe MarineFranki SpelemanJo Vandesompele

A1 Journal Article in ONCOGENE

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

Pieter MestdaghFilip PattynAli RihaniTom Van MaerkenJoëlle VermeulenCandy KumpsBjörn MentenKatleen De PreterGenevieve LaureysFranki SpelemanJo Vandesompele

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

Pieter MestdaghKatleen De PreterJo VandesompeleFranki Speleman

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

Katleen De PreterFranki SpelemanJo Vandesompele

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

Pieter MestdaghFilip PattynJoëlle VermeulenCandy KumpsKatleen De PreterNadine Van RoyGenevieve LaureysFranki 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 KumpsJo VandesompeleJasmien HoebeeckTom Van MaerkenAnne De PaepeGenevieve LaureysJoëlle VermeulenNadine Van RoyFranki Speleman

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 RoyJo 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

Katleen De PreterJo Vandesompele

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

Candy KumpsKatleen De PreterFranki Speleman

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 MestdaghKatleen De PreterAnne De PaepeKathleen LambeinJo VandesompeleNadine Van RoyBruno VerhasseltBruce PoppeFranki Speleman

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 RoyLucien NoensAnne De PaepeBruno VerhasseltJan PhilippéJo VandesompeleBruce PoppeFranki Speleman

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 RoyBruno VerhasseltJan PhilippéLucien NoensAnne De PaepeJo VandesompeleFranki Speleman

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

Katleen De PreterSara De BrouwerTom Van MaerkenFilip PattynJo VandesompeleFranki Speleman

A1 Journal Article in CLINICAL CANCER RESEARCH

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

Katleen De PreterJo VandesompeleFranki Speleman

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

Joëlle VermeulenKatleen De PreterLiesbeth VercruysseNadine Van RoyJan HellemansKatrien SwertsGenevieve LaureysFranki SpelemanJo Vandesompele

A1 Journal Article in LANCET ONCOLOGY

Prognostic role and functional analyses of miRNA expression in neuroblastoma

Pieter MestdaghKatleen De PreterJo Vandesompele

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

Pieter MestdaghKatleen De PreterFranki SpelemanJo Vandesompele

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

Pieter MestdaghKatleen De PreterFranki SpelemanJo Vandesompele

2008

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

Katleen De PreterJo VandesompeleFranki Speleman

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

Katleen De PreterJo VandesompeleFranki Speleman

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 PreterAnne De PaepeGenevieve 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 PreterFranki 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 LaureysFranki SpelemanJo Vandesompele

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

Jo VandesompeleEvi MichelsKatleen De PreterBjörn MentenAnne 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

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

Katleen De PreterFranki SpelemanJo Vandesompele

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 VerhasseltAnne 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 VerhasseltAnne De PaepeFranki Speleman

A1 Journal Article in HAEMATOLOGICA

ArrayCGH based classification of neuroblastoma into genomic subgroups

Sara De BrouwerEvi MichelsJo VandesompeleKatleen De PreterJasmien HoebeeckJoëlle VermeulenBjörn MentenAnne De PaepeGenevieve LaureysNadine Van RoyFranki Speleman

ArrayCGH-based classification of neuroblastoma into genomic subgroups

Evi MichelsJo VandesompeleKatleen De PreterJasmien HoebeeckJoëlle VermeulenBjörn MentenAnne De PaepeGenevieve LaureysNadine Van RoyFranki Speleman

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 RoyKatleen De PreterNurten YigitEls De SmetAnne De PaepeGenevieve LaureysJo VandesompeleFranki Speleman

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 VandesompeleNurten YigitYves BenoitAnne De PaepeGenevieve LaureysFranki Speleman

A1 Journal Article in GENOME BIOLOGY

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

Jasmien HoebeeckJo VandesompeleKatleen De PreterNadine Van RoyEls De SmetNurten YigitAnne De PaepeGenevieve LaureysFranki Speleman

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 SpelemanAnne 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 MentenNurten YigitWim WaelputNadine Van RoyFranki Speleman

A1 Journal Article in BMC GENOMICS

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

Jo VandesompeleKatleen De PreterNadine Van RoySylvia 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 PaepeStefan 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

No evidence for involvement of SDHD in neuroblastoma pathogenesis

Katleen De PreterJo VandesompeleJasmien HoebeeckJoél SmetGenevieve LaureysNadine Van RoyFrank RoelsRudy Van CosterMarleen PraetAnne De PaepeFranki Speleman

A1 Journal Article in BMC CANCER

2003

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

Katleen De PreterJo VandesompeleMireille Van GeleJasmien HoebeeckEls De SmetGenevieve LaureysNadine Van RoyAnne De PaepeFranki Speleman

A1 Journal Article in CANCER LETTERS

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

Jo VandesompeleKatleen De PreterFranki Speleman

A1 Journal Article in ONCOGENE

Peroxisome mosaics

Frank RoelsBetty De PrestKatleen De PreterMarc Espeel

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 SpelemanGenevieve LaureysAnne De PaepeNadine Van RoyJo Vandesompele

A1 Journal Article in MODERN PATHOLOGY