Research Explorer

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Researcher

Celine Everaert

Publications & Research Data

Awards & Distinctions

81 Results

2025

A benchmark of DNA methylation deconvolution methods for tumoral fraction estimation using DecoNFlow

Edoardo GiuiliSofie Van de VeldeSam KintMaísa Renata Ferro Dos SantosLotte CornelliSofie RoelandtKathleen SchoofsRenske ImschootRuben Van PaemelLeander Meuris et al.

Blood collection tube and RNA purification method recommendations for extracellular RNA transcriptome profiling

The exRNAQC ConsortiumJasper AnckaertFrancisco Avila CobosAnneleen DecockPhilippe DecruyenaereJill DeleuKatleen De PreterOlivier De WeverJilke De WildeBert Dhondt et al.

A1 Journal Article in NATURE COMMUNICATIONS

Expanding diagnostics in primary immunodeficiency : integrating innovations in clinical laboratory practice

Jana NeirinckCarolien BonroyFilomeen HaerynckCeline Everaert

Multi-omics profiling of human ovarian granulosa cells uncovers cell type-specific regulatory landscapes

Charlotte MattonJulie Van De VeldeQuinten MahieuLisa HamerlinckLara ColomboSarah VergultAlexandre SegersMattias Van HeetveldeSeoyeon OhCeline Everaert et al.

Phase Ia study of MIDRIX4-LUNG, a tetravalent autologous dendritic cell immunotherapy, in patients with metastatic non-small cell lung cancer

D. StevensJoline IngelsElisabeth BrabantsSandra Van LintCeline EveraertKarin WeeningKelly HeynsS. DesmetPam DevrekerNele Lootens et al.

Systemic immune epigenomic predictors of immunotherapy response in NSCLC patients : potential and pitfalls

Alvaro Marcos RubioKatleen De PreterCeline EveraertKarim Vermaelen

2024

Computational deconvolution of DNA methylation data from mixed DNA samples

Maísa Renata Ferro Dos SantosEdoardo GiuiliAndries De KokerCeline EveraertKatleen De Preter

A1 Journal Article in BRIEFINGS IN INFORMATICS

Defining the optimal setting for transcriptomic analyses on blood samples for response prediction in immunotherapy-treated NSCLC patients

Alvaro Marcos RubioSeoyeon OhSofie RoelandtDieter StevensEufra Van DammeKarim VermaelenKatleen De PreterCeline Everaert

A1 Journal Article in SCIENTIFIC REPORTS

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

NBAtlas : a harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors

Noah BonineVittorio ZanzaniAnnelies Van HemelrykBavo VannesteChristian ZwickerTinne ThonéSofie RoelandtSarah-Lee BekaertJan KosterIsabelle Janoueix-Lerosey et al.

A1 Journal Article in CELL REPORTS

2023

A harmonized single-cell transcriptomic atlas of human neuroblastoma

Noah BonineVittorio ZanzaniLiselot MusBavo VannesteChristian ZwickerTinne ThonéSofie RoelandtCécile ThirantAmira KramdiIsabelle Janoueix-Lerosey et al.

Blocking abundant RNA transcripts by high-affinity oligonucleotides during transcriptome library preparation

Celine EveraertJasper VerwiltKimberly VerniersNiels VandammeAlvaro Marcos RubioJo VandesompelePieter Mestdagh

A1 Journal Article in BIOLOGICAL PROCEDURES ONLINE

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

Deconvolution-based estimation of immune cell fractions in blood for immunotherapy response prediction in non-small cell lung cancer patients

Alvaro Marcos RubioCeline EveraertSofie RoelandtEufra Van DammeDieter StevensKarim VermaelenKatleen De Preter

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.

Longitudinal evaluation of serum microRNAs as biomarkers for neuroblastoma burden and therapeutic p53 reactivation

Alan Van GoethemJill DeleuNurten YigitCeline EveraertMyrthala Moreno-SmithSanjeev A VasudevanFjoralba ZekaFleur DemuynckEveline BarbieriFranki Speleman et al.

A2 Journal Article in NAR CANCER

Pan-cancer blood plasma cell-free RNA profiles reveal cancer type and patient-specific changes

Annelien MorlionPhilippe DecruyenaereKathleen SchoofsJasper AnckaertJustine NuytensEveline Vanden EyndeKimberly VerniersCeline EveraertFritz OffnerJo Van Dorpe et al.

Patient-specific alterations in blood plasma cfRNA profiles enable accurate classification of cancer patients and controls

Annelien MorlionPhilippe DecruyenaereKathleen SchoofsJasper AnckaertJustine NuytensEveline Vanden EyndeKimberly VerniersCeline EveraertFritz OffnerJo Van Dorpe 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.

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.

Whole transcriptome profiling of liquid biopsies from tumour xenografted mouse models enables specific monitoring of tumour-derived extracellular RNA

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertJilke De WildeJasper AnckaertKaat DurinckJustine NuytensMuhammad RishfiFranki Speleman et al.

2022

A 3′‐end capture sequencing method for high‐throughput targeted gene expression profiling

Eric de Bony de LavergneFien GysensNurten YigitJasper AnckaertCeline EveraertEveline Vanden EyndeKimberly VerniersWillem van SnippenbergWim TrypsteenPieter Mestdagh

A1 Journal Article in BIOTECHNOLOGY JOURNAL

Blocking unwanted sequences by target specific high-affinity binding oligonucleotides during transcriptome library preparation

Celine EveraertJasper VerwiltKimberly VerniersNiels VandammeAlvaro Marcos RubioJo VandesompelePieter Mestdagh

Cell type deconvolution as a strategy to develop a blood-based test for immunotherapy response prediction in lung cancer patients

Alvaro Marcos RubioCeline EveraertEufra Van DammeDieter StevensSofie RoelandtKarim VermaelenKatleen De Preter

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

Annelien MorlionEva HulstaertMarieke VrommanJasper AnckaertCeline EveraertJo VandesompelePieter Mestdagh

A2 Journal Article in FRONTIERS IN BIOINFORMATICS

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

Exploration of neuroblastoma xenograft models for tumor extracellular RNA profiling in murine blood plasma

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertJilke De WildeJasper AnckaertKaat DurinckJustine NuytensMuhammad RishfiFranki Speleman et al.

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.

The adrenergic-specific long non-coding RNA NESPR controls survival of neuroblastoma cells

Louis DelhayeEric de Bony de LavergneDries RombautLim Fang QiBieke DecaestekerLisa DepestelAmber LouwagieEva D'haenePieter-Jan VoldersNurten Yigit et al.

Whole transcriptome profiling of liquid biopsies from tumor xenografted mouse models enables specific monitoring of tumor-derived RNA

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertKimberly VerniersTom Van MaerkenBram De WildeJo VandesompeleAnneleen Decock

Whole transcriptome profiling of liquid biopsies from tumor xenografted mouse models enables specific monitoring of tumor-derived RNA

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertKimberly VerniersTom Van MaerkenBram De WildeJo VandesompeleAnneleen Decock

Whole transcriptome profiling of liquid biopsies from tumour xenografted mouse models enables specific monitoring of tumour-derived extracellular RNA

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertJilke De WildeJasper AnckaertKaat DurinckJustine NuytensMuhammad RishfiFranki Speleman et al.

A2 Journal Article in NAR CANCER

Whole transcriptome profiling of liquid biopsies from tumour xenografted mouse models enables specific monitoring of tumour-derived extracellular RNA

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertJilke De WildeJasper AnckaertKaat DurinckJustine NuytensMuhammad RishfiFranki Speleman et al.

2021

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

Annelien MorlionCeline EveraertJustine NuytensEva HulstaertJo VandesompelePieter Mestdagh

A1 Journal Article in RNA BIOLOGY

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

Eva HulstaertAnneleen DecockAnnelien MorlionCeline EveraertKimberly VerniersJustine NuytensNele NijsGary P SchrothScott KuerstenStephen M Gross et al.

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

Eva HulstaertAnneleen DecockAnnelien MorlionCeline EveraertKimberly VerniersJustine NuytensNele NijsGary P. SchrothScott KuerstenStephen M. Gross et al.

A2 Journal Article in STAR PROTOCOLS

Substantial performance differences among 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.

Substantial performance differences among 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.

Whole transcriptome profiling of liquid biopsies from tumor xenografted mouse models enables specific monitoring of tumor-derived RNA

Vanessa VermeirssenJill DeleuAnnelien MorlionCeline EveraertKimberly VerniersTom Van MaerkenBram De WildeJo VandesompeleAnneleen Decock

Whole transcriptome profiling of liquid biopsies from tumor xenografted mouse models enables specific monitoring of tumor-derived RNA

Vanessa VermeirssenJill DeleuCeline EveraertAnnelien MorlionKimberly VerniersJasper AnckaertJo VandesompeleTom Van MaerkenAnneleen DecockBram De Wilde

2020

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

Celine EveraertPieter MestdaghJo Vandesompele

Imaging-AMARETTO : an imaging genomics software tool to interrogate multiomics networks for relevance to radiography and histopathology imaging biomarkers of clinical outcomes

Olivier GevaertMohsen NabianShaimaa BakrCeline EveraertJayendra ShindeArtur ManukyanTed LiefeldThorin TaborJishu XuJoachim Lupberger et al.

A2 Journal Article in JCO CLINICAL CANCER INFORMATICS

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

Celine EveraertHetty HelsmoortelAnneleen DecockEva HulstaertRuben Van PaemelKimberly VerniersJustine NuytensJasper AnckaertNele NijsJoeri Tulkens et al.

SPECS: a non-parametric method to identify tissue-specific molecular features for unbalanced sample groups

Celine EveraertPieter-Jan VoldersAnnelien MorlionOlivier ThasPieter Mestdagh

A1 Journal Article in BMC Bioinformatics

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

Anneleen DecockJasper AnckaertCeline EveraertJustine NuytensScott KuerstenAn HendrixJo VandesompelePieter MestdaghBert DhondtRuben Van Paemel et al.

Whole transcriptome profiling of liquid biopsies from tumor xenografted mouse models enables specific monitoring of tumor-derived RNA

Jill DeleuVanessa VermeirssenCeline EveraertAnnelien MorlionKimberly VerniersJasper AnckaertJo VandesompeleTom Van MaerkenAnneleen DecockBram De Wilde

2019

Combined analysis of metabolomes, proteomes, and transcriptomes of hepatitis C virus-infected cells and liver to identify pathways associated with disease development

Joachim LupbergerTom CroonenborghsArmando Andres Roca SuarezNicolaas Van RenneFrank JühlingMarine A OudotAlessia VirzìSimonetta BandieraCarole JameyGergö Meszaros et al.

A1 Journal Article in GASTROENTEROLOGY

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

Annelien MorlionJasper AnckaertFrancisco Avila CobosAnneleen DecockOlivier De WeverBert DhondtCeline EveraertCarolina FierroHetty HelsmoortelAn Hendrix et al.

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

Annelien MorlionJasper AnckaertFrancisco Avila CobosAnneleen DecockOlivier De WeverBert DhondtCeline EveraertCarolina FierroHetty HelsmoortelAn Hendrix et al.

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

Annelien MorlionJasper AnckaertFrancisco Avila CobosAnneleen DecockJill DeleuOlivier De WeverBert DhondtCeline EveraertCarolina FierroHetty Helsmoortel 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

Long noncoding RNA expression profiling in cancer : challenges and opportunities

Lucia LorenziFrancisco Avila CobosAnneleen DecockCeline EveraertHetty HelsmoortelSteve LefeverKaren VerboomPieter-Jan VoldersFranki SpelemanJo Vandesompele et al.

A1 Journal Article in GENES CHROMOSOMES & CANCER

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

Celine EveraertHetty HelsmoortelAnneleen DecockEva HulstaertRuben Van PaemelKimberly VerniersJustine NuytensJasper AnckaertNele NijsJoeri Tulkens et al.

A1 Journal Article in SCIENTIFIC REPORTS

SMARTer single cell total RNA sequencing

Karen VerboomCeline EveraertNathalie BolducKenneth LivakNurten YigitDries RombautJasper AnckaertMorten VenøJørgen KjemsFranki Speleman et al.

SMARTer single cell total RNA-sequencing

Karen VerboomCeline EveraertNathalie BolducKenneth LivakNurten YigitDries RombautJasper AnckaertSimon LeeMorten VenøJørgen Kjems et al.

A1 Journal Article in NUCLEIC ACIDS RESEARCH

TFutils : data structures for transcription factor bioinformatics

Benjamin J StubbsShweta GopaulakrishnanKimberly GlassNathalie PochetCeline EveraertBenjamin RabyVincent Carey

A2 Journal Article in F1000RESEARCH

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

Pei Y LiuAndrew E TeeGiorgio MilazzoKatherine M HannanJesper MaagSujanna MondalBernard AtmadibrataNenad BartonicekHui PengNicholas Ho et al.

A1 Journal Article in NATURE COMMUNICATIONS

Whole transcriptome profiling of liquid biopsies from patient-derived xenograft (PDX) models

Vanessa VermeirssenAnneleen DecockKimberly VerniersCeline EveraertAnnelien MorlionJill DeleuTom Van MaerkenBram De WildeJo Vandesompele

2018

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

Hetty HelsmoortelCeline EveraertNicolaas LumenPiet OstJo Vandesompele

A2 Journal Article in NON-CODING RNA RESEARCH

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

Alemu Takele AssefaKatrijn De PaepeCeline EveraertPieter MestdaghOlivier ThasJo Vandesompele

A1 Journal Article in GENOME BIOLOGY

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

Alan Van GoethemNurten YigitCeline EveraertMyrthala Moreno-SmithSanjeev A VasudevanFjoralba ZekaFleur DemunckEveline BarbieriFranki SpelemanPieter Mestdagh 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 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 neuroblastoma-specific lncRNA NESPR activates PHOX2B expression and is essential for neuroblastoma cell survival

Dries RombautTiago França BrazaoLouis DelhayeEva D'haeneGiorgio MilazzoRoberto CiaccioNurten YigitCeline EveraertMatthias FischerThorsten Simon et al.

Zipper plot : visualizing transcriptional activity of genomic regions

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

2017

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

Celine EveraertManuel LuypaertJesper LV MaagQuek Xiu ChengMarcel E DingerJan HellemansPieter Mestdagh

A1 Journal Article in SCIENTIFIC REPORTS

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

Celine EveraertJo VandesompelePieter Mestdagh

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

Greet WiemeFrederik BerrevoetAude VanlanderMarc De ManKaren GeboesJo Van DorpeAnne HoorensMalaïka Van der LindenJurgen van LimmenANN DE BRUYNE et al.

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

Lotte PyfferoenElisabeth BrabantsCeline EveraertNancy De CabooterKelly HeynsKim DeswarteManon VanheerswynghelsSofie De PrijckGlenn WaegemansMelissa Dullaers et al.

A1 Journal Article in ONCOIMMUNOLOGY

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

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

Celine EveraertAriane De GanckJan HellemansJo VandesompelePieter Mestdagh

Decoding cancer transcriptomes using public RNA sequencing data

Celine EveraertJo VandesompelePieter Mestdagh

Decoding cancer transcriptomes using public RNA sequencing data

Celine EveraertJo VandesompelePieter Mestdagh

Decoding cancer transcriptomes using public RNA sequencing data

Celine EveraertJo VandesompelePieter Mestdagh

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

Alan Van GoethemNurten YigitCeline EveraertMyrthala Moreno-SmithLiselot MusEveline BarbieriFranki SpelemanPieter MestdaghJason ShohetTom Van Maerken et al.

A1 Journal Article in SCIENTIFIC REPORTS

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

Karen VerboomKaat DurinckCeline EveraertRobrecht CannoodtPieter Van VlierbergheJo VandesompeleFranki Speleman

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

Alan Van GoethemNurten YigitMythala Moreno-SmithCeline EveraertOlivier DelattrePieter MestdaghSaurabh AgarwalEveline BarbieriIsabelle Janoueix-LeroseyJason Shohet et al.

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

Celine EveraertJo VandesompelePieter Mestdagh

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

Celine EveraertJo VandesompelePieter Mestdagh

PAN-cancer therapeutic target identification by omics data integration

Celine EveraertJo VandesompelePieter Mestdagh