Research Explorer

Your browser does not support JavaScript or JavaScript is not enabled. Without JavaScript some functions of this webapplication may be disabled or cause error messages. To enable JavaScript, please consult the manual of your browser or contact your system administrator.

Researcher

Filip Van Nieuwerburgh

297 Results

2023

A tapt1 knock-out zebrafish line with aberrant lens development and impaired vision models human early-onset cataract

Tamara JaraysehBrecht GuillemynHanna De SaffelJan Willem BekDelfien SyxSofie SymoensYannick GansemansFilip Van NieuwerburghSujatha JagadeeshJayarekha Raja et al.

A1 Journal Article in HUMAN GENETICS

Cathepsin-L secreted by high-quality bovine embryos exerts an embryotrophic effect in vitro

Annelies RaesEline WydoogheKrishna PavaniOsvaldo Américo Bogado PascottiniKatleen Van SteendamMaarten DhaenensAnnekatrien BoelSonia HerasBjörn HeindryckxLuc Peelman et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Effects of biologics treatment in type 2-high chronic rhinosinusitis with nasal polyp patients

Sharon Van NevelTim MeeseGabriële HoltappelsNatalie De RuyckStijn VanheeNan ZhangFilip Van NieuwerburghClaus Bachert

Elucidating the combined toxicity of aflatoxin B1 and fumonisin B1 on HepG2 cells based on respirometry and transcriptome analyses

Xiangrong ChenMohamed Fathi Abdallah AbdelmohsenCharlotte GrootaertFilip Van NieuwerburghAndreja Rajkovic

HIV-PULSE : a long-read sequencing assay for high-throughput near full-length HIV-1 proviral genome characterization

Laurens LambrechtsNoah BonineRita VerstraetenMarion PardonsYtse NoppeSofie RutsaertFilip Van NieuwerburghWim Van CriekingeBasiel ColeLinos Vandekerckhove

Identification of a novel idiopathic epilepsy risk locus and a variant in the CCDC85A gene in the Dutch partridge dog

Evy BeckersSofie BhattiMario Van PouckeIngeborgh PolisFrédéric FarnirFilip Van NieuwerburghPaul MandigersLuc Van HamLuc PeelmanBart Broeckx

A1 Journal Article in ANIMALS

New insights into the combined toxicity of aflatoxin B1 and fumonisin B1 in HepG2 cells using Seahorse respirometry analysis and RNA transcriptome sequencing

Xiangrong ChenMohamed Fathi Abdallah AbdelmohsenCharlotte GrootaertFilip Van NieuwerburghAndreja Rajkovic

A1 Journal Article in ENVIRONMENT INTERNATIONAL

RIPK1 kinase-dependent inflammation and cell death contribute to the pathogenesis of COPD

Hannelore Van EeckhoutteChantal DonovanRichard Y. KimThomas M. ConlonMeshal AnsariHaroon KhanRanjith JayaramanNicole G. HansbroYves DondelingerTom Delanghe et al.

A1 Journal Article in EUROPEAN RESPIRATORY JOURNAL

Single-cell profiling identifies a novel human polyclonal unconventional T cell lineage

Lore BillietLaurenz De CockGuillem Sanchez SanchezRupert MayerGlenn GoetgelukStijn De MunterMelissa PilleJoline IngelsHanne JansenKarin Weening et al.

A1 Journal Article in JOURNAL OF EXPERIMENTAL MEDICINE

Transcriptomics reveal molecular differences in equine oocytes vitrified before and after in vitro maturation

Daniel Angel VelezTim MeeseMohamed HediaAndrea Fernandez MontoroTine De CosterOsvaldo Américo Bogado PascottiniFilip Van NieuwerburghJan GovaereAnn Van SoomKrishna Pavani et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

2022

ADAR1 prevents autoinflammation by suppressing spontaneous ZBP1 activation

Richard de ReuverSimon VerdonckEvelien DierickJosephine NemegeerEline HessmannSadeem AhmadMaude JansGillian BlanckeFilip Van NieuwerburghAlexander Botzki et al.

A1 Journal Article in NATURE

Bringing science to the scene : novel strategies for portable DNA profiling

Olivier TytgatFilip Van NieuwerburghDieter DeforceMaarten Fauvart

Cas9 targeted nanopore sequencing with enhanced variant calling improves CYP2D6-CYP2D7 hybrid allele genotyping

Kaat RubbenLaurentijn TillemanKoen DeserrannoOlivier TytgatDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in PLOS GENETICS

Continuous activation of the IL-17F driven inflammatory pathway in acute and chronic digital dermatitis lesions in dairy cattle

Anne-Sofie VermeerschPeter GeldhofRichard DucatelleYannick GansemansFilip Van NieuwerburghDieter DeforceGeert Opsomer

A1 Journal Article in SCIENTIFIC REPORTS

DNA methylation alterations in fractionally irradiated rats and breast cancer patients receiving radiotherapy

Magy SallamMohamed MysaraMohammed Abderrafi BenotmaneAnne P. G. CrijnsDaan SpoorFilip Van NieuwerburghDieter DeforceSarah BaatoutPieter-Jan GunsAn Aerts et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Enrichment of circulating trophoblasts from maternal blood using filtration-based Metacell (R) technology

Jana WeymaereAnn-Sophie Vander PlaetsenYASMINE VAN DEN BRANDENEliska PospisilovaOlivier TytgatDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in PLOS ONE

Exploring and optimizing variant detection and phasing methods in pharmacogenomics

Laurentijn TillemanFilip Van NieuwerburghBjörn HeindryckxDieter Deforce

Haplotyping pharmacogenes using TLA combined with Illumina or Nanopore sequencing

Laurentijn TillemanKaat RubbenWim Van CriekingeDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

Hatching is modulated by microRNA-378a-3p derived from extracellular vesicles secreted by blastocysts

Krishna PavaniTim MeeseOsvaldo Américo Bogado PascottiniXueFeng GuanXiaoyuan LinLuc PeelmanJoachim HamacherFilip Van NieuwerburghDieter DeforceAnnekatrien Boel et al.

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

IRF2 is required for development and functional maturation of human NK cells

Eva PersynSigrid WahlenLaura KiekensWouter Van LoockeHannah SiweEls Van AmmelZenzi De VosFilip Van NieuwerburghPatrick MatthysTom Taghon et al.

A1 Journal Article in FRONTIERS IN IMMUNOLOGY

Lycopene supplementation to serum-free maturation medium improves in vitro bovine embryo development and quality and modulates embryonic transcriptomic profile

Shehu SidiOsvaldo Américo Bogado PascottiniDaniel Angel VelezNima AzaridolatabadKrishna PavaniGretania ResidiwatiTim MeeseFilip Van NieuwerburghElias Kambai BawaAmbrose Alikidon Voh et al.

A1 Journal Article in ANTIOXIDANTS

Metabolism and health effects of rare sugars in a CACO-2/HepG2 coculture model

Amar Daniël Emanuel Van LaarCharlotte GrootaertFilip Van NieuwerburghDieter DeforceTom DesmetKoen BeerensJohn Van Camp

A1 Journal Article in NUTRIENTS

Metallothioneins alter macrophage phenotype and represent novel therapeutic targets for acetaminophen-induced liver injury

Lindsey DevisscherSanne Van CampenhoutSander LefereSarah RaevensLaurentijn TillemanFilip Van NieuwerburghHannelore P. Van EeckhoutteAnne HoorensMichael A. LynesAnja Geerts et al.

A1 Journal Article in JOURNAL OF LEUKOCYTE BIOLOGY

Microbial diversity and antimicrobial susceptibility in endotracheal tube biofilms recovered from mechanically ventilated COVID-19 patients

Frits van CharanteAnneleen WiemePetra RigoleEvelien De CanckLisa OstynLucia GrassiDieter DeforceAurélie CrabbéPeter VandammeMarie Joossens et al.

A2 Journal Article in BIOFILM

Multigenerational DNA methylation responses to copper exposure in daphnia : potential targets for epigenetic biomarkers?

Guilherme JeremiasTelma VelosoFernando J.M. GonçalvesFilip Van NieuwerburghJoana Luísa PereiraJana Asselman

A1 Journal Article in CHEMOSPHERE

Nanopore sequencing of a forensic combined STR and SNP multiplex

Olivier TytgatSonja SkevinDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

PIWI proteins play an antiviral role in Lepidopteran cell lines

Dulce SantosThomas-Wolf VerdoncktLina MingelsStijn Van den BrandeBart GeensFilip Van NieuwerburghAnna KolliopoulouLuc SweversNiels WynantJozef Vanden Broeck

A1 Journal Article in VIRUSES-BASEL

Phasing of the entire CYP2D6 locus with CRISPR-Cas9 enriched Nanopore sequencing

Laurentijn TillemanKaat RubbenFilip Van Nieuwerburgh

Profiling the aerobic window of horses in response to training by means of a modified lactate minimum speed test : flatten the curve

Lorie De MaréBerit BoshuizenCarmen Vidal Moreno de VegaConstance De meeûsLukas PlanckeYannick GansemansFilip Van NieuwerburghDieter DeforceJean Eduardo de OliveiraGuilherme Hosotani et al.

A1 Journal Article in FRONTIERS IN PHYSIOLOGY

QueSTR probes : Quencher-labeled RNase H2-dependent probes for short tandem repeat genotyping

Olivier TytgatSonja SkevinMaarten FauvartTim StakenborgDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SENSORS AND ACTUATORS B-CHEMICAL

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

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

A1 Journal Article in SCIENCE ADVANCES

Signatures of polygenic adaptation align with genome-wide methylation patterns in wild strawberry plants

Hanne De KortTuomas ToivainenFilip Van NieuwerburghJavier AndresTimo P. HytonenOlivier Honnay

A1 Journal Article in NEW PHYTOLOGIST

TXNIP promotes human NK cell development but is dispensable for NK cell functionality

Eva PersynSigrid WahlenLaura KiekensSylvie TaveirneWouter Van LoockeEls Van AmmelFilip Van NieuwerburghTom TaghonBart VandekerckhovePieter Van Vlierberghe et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The transcription factor RUNX2 drives the generation of human NK cells and promotes tissue residency

Sigrid WahlenFilip MatthijssensWouter Van LoockeSylvie TaveirneLaura KiekensEva PersynEls Van AmmelZenzi De VosStijn De MunterPatrick Matthys et al.

A1 Journal Article in ELIFE

Transcriptional dynamics and epigenetic regulation of E and ID protein encoding genes during human T cell development

Juliette RoelsJolien Van HulleMarieke LavaertAnna KuchmiySteven StrubbeTom PuttemanBart VandekerckhoveGeorges LeclercqFilip Van NieuwerburghLena Böhme et al.

A1 Journal Article in FRONTIERS IN IMMUNOLOGY

Transcriptional dynamics of gametogenesis in the green seaweed Ulva mutabilis identifies an RWP-RK transcription factor linked to reproduction

Xiaojie LiuJonas BlommeKenny BogaertSofie D'hondtThomas WichardDieter DeforceFilip Van NieuwerburghOlivier De Clerck

A1 Journal Article in BMC PLANT BIOLOGY

Veterinarians’ competence in applying basic genetic principles and daily implementation of clinical genetics : a study in a university environment

Evelien BogaertsElse den BoerLuc PeelmanFilip Van NieuwerburghHille FietenJimmy SaundersBart Broeckx

A1 Journal Article in JOURNAL OF VETERINARY MEDICAL EDUCATION

2021

A case of phage therapy against pandrug-resistant Achromobacter xylosoxidans in a 12-year-old lung-transplanted cystic fibrosis patient

David LebeauxMaia MerabishviliEric CaudronDamien LannoyLeen Van SimaeyHans DuyvejonckRomain GuillemainCaroline ThumerelleIsabelle PodglajenFabrice Compain et al.

A1 Journal Article in VIRUSES-BASEL

ADAR1 interaction with Z-RNA promotes editing of endogenous double-stranded RNA and prevents MDA5-dependent immune activation

Richard de ReuverEvelien DierickBartosz WiernickiKatrien StaesLeen SeysEllen De MeesterTuur MuyldermansAlexander BotzkiBart LambrechtFilip Van Nieuwerburgh et al.

A1 Journal Article in CELL REPORTS

Activin A-derived human embryonic stem cells show increased competence to differentiate into primordial germ cell-like cells

Swati MishraJasin TaelmanMina PopovicLaurentijn TillemanEvi DuthooMargot Van der JeughtDieter DeforceFilip Van NieuwerburghBjörn MentenPetra De Sutter et al.

A1 Journal Article in STEM CELLS

Annelid genomes : Enchytraeus crypticus, a soil model for the innate (and primed) immune system

Monica J. B. AmorimYannick GansemansSusana I. L. GomesFilip Van NieuwerburghJaneck J. Scott-Fordsmand

A1 Journal Article in LAB ANIMAL

Cell-based non-invasive prenatal testing : circulating trophoblast enrichment and genetic analysis

Jana WeymaereFilip Van NieuwerburghDieter Deforce

Changes in DNA methylation in Arabidopsis thaliana plants exposed over multiple generations to gamma radiation

Pol LaanenEline SaenenMohamed MysaraJorden van de WalleMay Van HeesRobin NautsFilip Van NieuwerburghStefan VoorspoelsGriet JacobsAnn Cuypers et al.

A1 Journal Article in FRONTIERS IN PLANT SCIENCE

Characterization of the inflammatory microenvironment and hepatic macrophage subsets in experimental hepatocellular carcinoma models

Helena DegrooteSander LefereAstrid VandierendonckBart VanderborghtTim MeeseFilip Van NieuwerburghXavier VerhelstAnja GeertsHans Van VlierbergheLindsey Devisscher

A2 Journal Article in ONCOTARGET

Circulating fetal trophoblast enrichment and single cell genetic analysis in the context of cell-based non-invasive prenatal testing

Ann-Sophie Vander PlaetsenFilip Van NieuwerburghDieter Deforce

Comparative analysis of mouse and human preimplantation development following POU5F1 CRISPR/Cas9 targeting reveals interspecies differences

Panagiotis StamatiadisAnnekatrien BoelGwenny CosemansMina PopovicBieke BekaertRamesh GuggillaMaoxing TangPetra De SutterFilip Van NieuwerburghBjörn Menten et al.

A1 Journal Article in HUMAN REPRODUCTION

Comparative genomics of Flavobacterium columnare unveils novel insights in virulence and antimicrobial resistance mechanisms

Annelies DeclercqLaurentijn TillemanYannick GansemansChloë De WitteFreddy HaesebrouckFilip Van NieuwerburghAnnemieke SmetAnnemie Decostere

A1 Journal Article in VETERINARY RESEARCH

Detection of cytosine methylation in Burkholderia cenocepacia by single- molecule real- time sequencing and whole- genome bisulfite sequencing

Ian VandenbusscheAndrea SassFilip Van NieuwerburghMarta Pinto-CarboOlga MannweilerLeo EberlTom Coenye

A1 Journal Article in MICROBIOLOGY-SGM

Digital polymerase chain reaction for assessment of mutant mitochondrial carry-over after nuclear transfer for In Vitro fertilization

Olivier TytgatMX TangWillem van SnippenbergAnnekatrien BoelRR GuggillaYannick GansemansMichiel Van HerpSofie SymoensWim TrypsteenDieter Deforce et al.

A1 Journal Article in CLINICAL CHEMISTRY

Digital polymerase chain reaction for assessment of mutant mitochondrial carry-over after nuclear transfer for in vitro fertilization

Olivier TytgatMaoxing TangWillem van SnippenbergAnnekatrien BoelRamesh GuggillaYannick GansemansMichiel Van HerpSofie SymoensWim TrypsteenDieter Deforce et al.

A1 Journal Article in CLINICAL CHEMISTRY

Effect of overconditioning on the hepatic global gene expression pattern of dairy cows at the end of pregnancy

Osvaldo Américo Bogado PascottiniJenne De KosterFilip Van NieuwerburghMario Van PouckeLuc PeelmanVeerle FievezJ. L. M. R. LeroyGeert Opsomer

A1 Journal Article in JOURNAL OF DAIRY SCIENCE

Effects of aleurone supplementation on glucose-insulin metabolism and gut microbiome in untrained healthy horses

Berit BoshuizenCarmen Vidal Moreno de VegaLorie De MaréConstance De meeûsJean Eduardo de OliveiraGuilherme HosotaniYannick GansemansDieter DeforceFilip Van NieuwerburghCatherine Delesalle

A1 Journal Article in FRONTIERS IN VETERINARY SCIENCE

Endogenous suppression of WNT signalling in human embryonic stem cells leads to low differentiation propensity towards definitive endoderm

Dominika DziedzickaMukul TewaryAlexander KellerLaurentijn TillemanLaura ProchazkaJoel OstblomEdouard Couvreu De DeckersbergChristina MarkouliSilvie FranckFilip Van Nieuwerburgh et al.

A1 Journal Article in SCIENTIFIC REPORTS

Enrichment of circulating trophoblasts from maternal blood using laminar microscale vortices

Ann-Sophie Vander PlaetsenJana WeymaereOlivier TytgatMagali BuyleDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in PRENATAL DIAGNOSIS

Genetic responses of metabolically active limnospira indica strain PCC 8005 exposed to gamma-radiation during its lifecycle

Anu YadavLaurens MaertensTim MeeseFilip Van NieuwerburghMohamed MysaraNatalie LeysAnn CuypersPaul Jaak Janssen

A1 Journal Article in MICROORGANISMS

Genetics and epigenetics in clinical veterinary medicine : new approaches to deal with problems related to diagnostics and screening

Evelien BogaertsBart BroeckxJimmy SaundersLuc PeelmanFilip Van Nieuwerburgh

HES1 and HES4 have non-redundant roles downstream of Notch during early human T-cell development

Matthias De DeckerMarieke LavaertJuliette RoelsLaurentijn TillemanBart VandekerckhoveGeorges LeclercqFilip Van NieuwerburghPieter Van VlierbergheTom Taghon

A1 Journal Article in HAEMATOLOGICA

Long non-coding RNAs as novel therapeutic targets in juvenile myelomonocytic leukemia

Mattias HofmansTim LammensBarbara DepreterYing WuMiriam ErlacherAurélie CayeHélène CavéChristian FlothoValerie de HaasCharlotte M. Niemeyer et al.

A1 Journal Article in SCIENTIFIC REPORTS

MYCN-induced nucleolar stress drives an early senescence-like transcriptional program in hTERT-immortalized RPE cells

Sofia ZanottiSuzanne VanhauwaertChristophe Van NesteVolodimir OlexioukJolien Van LaereMarlies VerschuurenJoni Van der MeulenLiselot MusKaat DurinckLaurentijn Tilleman et al.

A1 Journal Article in SCIENTIFIC REPORTS

Pharmacogenetics in clinical practice : current level of knowledge among Flemish physicians and pharmacists

Ahmed Edris MohamedAnna VanoverscheldePranvera BushajFilip Van NieuwerburghLies Lahousse

A1 Journal Article in PHARMACOGENOMICS JOURNAL

Pre-weaning inulin supplementation alters the ileal transcriptome in pigs regarding lipid metabolism

Martine SchroyenBing LiEster Arevalo SuredaYuping ZhangJulie LebloisDieter DeforceFilip Van NieuwerburghJose WavreilleNadia Everaert

A1 Journal Article in VETERINARY SCIENCES

Profiling the aerobic window (AW) of horses in response to training by means of a new LMS (lactate minimum speed) test : flatten the curve

Lorie De MaréBerit BoshuizenCarmen Vidal Moreno de VegaConstance De meeûsLukas PlanckeYannick GansemansFilip Van NieuwerburghDieter DeforceJean de OliveiraCatherine Delesalle

RUNX2 regulates leukemic cell metabolism and chemotaxis in high-risk T cell acute lymphoblastic leukemia

Filip MatthijssensNitesh D. SharmaMonique NysusChristian K. NicklHuining KangDominique R. PerezBéatrice LintermansWouter Van LoockeJuliette RoelsSofie Peirs et al.

A1 Journal Article in JOURNAL OF CLINICAL INVESTIGATION

Rare modifier variants alter the severity of cardiovascular disease in pseudoxanthoma elasticum : identification of novel candidate modifier genes and disease pathways through mixture of effects analysis

Eva De VilderLudovic MartinGeorges LefthériotisPaul CouckeFilip Van NieuwerburghOlivier Vanakker

A1 Journal Article in FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY

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

Liselot MusStéphane Van HaverMina PopovicWim TrypsteenSteve LefeverNadja ZeltnerYudelca OgandoEva JacobsGeertrui DeneckerEllen Sanders et al.

A1 Journal Article in GENES CHROMOSOMES & CANCER

STRide probes : single-labeled short tandem repeat identification probes

Olivier TytgatMaarten FauvartTim StakenborgDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in BIOSENSORS & BIOELECTRONICS

T-BET and EOMES accelerate and enhance functional differentiation of human natural killer cells

Laura KiekensWouter Van LoockeSylvie TaveirneSigrid WahlenEva PersynEls Van AmmelZenzi De VosPatrick MatthysFilip Van NieuwerburghTom Taghon et al.

A1 Journal Article in FRONTIERS IN IMMUNOLOGY

TEAD4 regulates trophectoderm differentiation upstream of CDX2 in human preimplantation embryos

Panagiotis StamatiadisAnnekatrien BoelGwenny CosemansFilip Van NieuwerburghBjörn MentenPetra De SutterDominic StoopS. M. Chuva de Sousa LopesF. Lluis

The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

Stephanie De VosStephane RombautsLouis CoussementWannes DermauwMarnik VuylstekePatrick SorgeloosJames S. CleggZiro NambuFilip Van NieuwerburghParisa Norouzitallab et al.

A1 Journal Article in BMC GENOMICS

The impact of maternal and piglet low protein diet and their interaction on the porcine liver transcriptome around the time of weaning

Kikianne KroeskeEster Arévalo SuredaJulie UerlingsDieter DeforceFilip Van NieuwerburghMarc HeyndrickxSam MilletNadia EveraertMartine Schroyen

A1 Journal Article in VETERINARY SCIENCES

Untangling the structural and molecular mechanisms underlying colour and rapid colour change in a lizard, Agama atra

Michaël NicolaïLiliana D'Alba AltamiranoJonathan GoldenbergYannick GansemansFilip Van NieuwerburghSusana Clusella‐TrullasMatthew Shawkey

A1 Journal Article in MOLECULAR ECOLOGY

2020

Adjuvanting allergen extracts for sublingual immunotherapy : calcitriol downregulates CXCL8 production in primary sublingual epithelial cells

Michael PelstClara HoebartCharlotte WallaeysHilde De RoosterYannick GansemansFilip Van NieuwerburghBert DevriendtEric Cox

A1 Journal Article in FRONTIERS IN IMMUNOLOGY

Aging of preleukemic thymocytes drives CpG island hypermethylation in T-cell acute lymphoblastic leukemia

Juliette RoelsMorgan ThénozB SzarzyńskaM LandforsStien De ConinckLisa DemoenLien ProvezAnna KuchmiySteven StrubbeLindy Reunes et al.

A2 Journal Article in BLOOD CANCER DISCOVERY

Comparative study of preimplantation development following distinct assisted oocyte activation protocols in a PLC-zeta knockout mouse model

Minerva Ferrer BuitragoLaurentijn TillemanVanessa ThysA HachemAnnekatrien BoelFilip Van NieuwerburghDieter DeforceLuc LeybaertPetra De SutterJ. Parrington et al.

A1 Journal Article in MOLECULAR HUMAN REPRODUCTION

Distinct and temporary-restricted epigenetic mechanisms regulate human αβ and γδ T cell development

Juliette RoelsAnna KuchmiyMatthias De DeckerSteven StrubbeMarieke LavaertKai Ling LiangGeorges LeclercqBart VandekerckhoveFilip Van NieuwerburghPieter Van Vlierberghe et al.

A1 Journal Article in NATURE IMMUNOLOGY

Distinct transcriptome signatures of Helicobacter suis and Helicobacter heilmannii strains upon adherence to human gastric epithelial cells

Helena BerlamontChloë De WitteEva BauwensHannah Min JouRichard DucatelleEllen De MeesterYannick GansemansDieter DeforceFilip Van NieuwerburghFreddy Haesebrouck et al.

A1 Journal Article in VETERINARY RESEARCH

Does the mode of dispersion determine the properties of dispersed Pseudomonas aeruginosa biofilm cells?

Jasper WilleEline TeirlinckAndrea SassFilip Van NieuwerburghVolkhard KaeverKevin BraeckmansTom Coenye

A1 Journal Article in INTERNATIONAL JOURNAL OF ANTIMICROBIAL AGENTS

Ecological divergence of wild strawberry DNA methylation patterns at distinct spatial scales

Hanne De KortBart PanisDieter DeforceFilip Van NieuwerburghOllivier Honnay

A1 Journal Article in MOLECULAR ECOLOGY

Effect of oral aleurone supplementation on glucose and insulin dynamics of horses in training

Berit BoshuizenConstance De meeûsLorie De MaréCarmen Vidal Moreno de VegaJ De OliveiraYannick GansemansFilip Van NieuwerburghDieter DeforceCatherine Delesalle

Extracellular vesicles spread the RNA interference signal of Tribolium castaneum TcA cells

Lina MingelsNiels WynantDulce SantosPaulien PeetersYannick GansemansJohan BillenFilip Van NieuwerburghJozef Vanden Broeck

A1 Journal Article in INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

First draft genome assembly of the desert locust, Schistocerca gregaria

Heleen VerlindenLieven SterckJia LiZhen LiAnna YsselYannick GansemansRik VerdonckMichiel HoltofHojun SongSpencer T. Behmer et al.

A2 Journal Article in F1000RESEARCH

Human thymic CD10+ PD-1+ intraepithelial lymphocyte precursors acquire interleukin-15 responsiveness at the CD1a– CD95+ CD28– CCR7– developmental stage

Lore BillietGlenn GoetgelukSarah BonteStijn De MunterLaurenz De CockMelissa PilleJoline IngelsHanne JansenKarin WeeningFilip Van Nieuwerburgh et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Kinship analysis on single cells after whole genome amplification

Jana WeymaereAnn-Sophie Vander PlaetsenLaurentijn TillemanOlivier TytgatKaat RubbenSofie GeeraertDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

Maternal recognition of pregnancy in the horse : are MicroRNAs the secret messengers?

Katrien SmitsYannick GansemansLaurentijn TillemanFilip Van NieuwerburghMargot Van de VeldeIlse GeritsCyrillus VerversKim RoelsJan GovaereLuc Peelman et al.

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Murine induced pluripotent stem cell‐derived neuroimmune cell culture models emphasize opposite immune-effector functions of interleukin 13-primed microglia and macrophages in terms of neuroimmune toxicity

Alessandra QuartaTim MeeseZoë PietersElise Van BreedamDebbie Le BlonJana Van BroeckhovenSven HendrixHerman GoossensNiel HensZwi Berneman et al.

A1 Journal Article in GLIA

Myeloid IRE1a deletion alters hepatic macrophage phenotype and attenuates experimental non-alcoholic steatohepatitis-related hepatocellular carcinoma

Sanne Van CampenhoutLaurentijn TillemanSander LefereAstrid VandierendonckAnja GeertsXavier VerhelstFilip Van NieuwerburghHans Van VlierbergheLindsey Devisscher

Myeloid-specific IRE1alpha deletion reduces tumour development in a diabetic, non-alcoholic steatohepatitis-induced hepatocellular carcinoma mouse model

Sanne Van CampenhoutLaurentijn TillemanSander LefereAster VandierendonckSarah RaevensXavier VerhelstAnja GeertsFilip Van NieuwerburghHans Van VlierbergheLindsey Devisscher

A1 Journal Article in METABOLISM-CLINICAL AND EXPERIMENTAL

Nanopore sequencing of a forensic STR multiplex reveals loci suitable for single-contributor STR profiling

Olivier TytgatYannick GansemansJana WeymaereKaat RubbenDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in GENES

Pan-cancer pharmacogenetics : targeted sequencing panels or exome sequencing?

Laurentijn TillemanBjörn HeindryckxDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in PHARMACOGENOMICS

Spatio-temporal patterns in the gene expression of the calanoid copepod Temora longicornis in the Belgian part of the North Sea

Ilias SemmouriKarel De SchamphelaereFilip Van NieuwerburghDieter DeforceColin JanssenJana Asselman

A1 Journal Article in MARINE ENVIRONMENTAL RESEARCH

The transcription factor ETS1 is an important regulator of human NK cell development and terminal differentiation

Sylvie TaveirneSigrid WahlenWouter Van LoockeLaura KiekensEva PersynEls Van AmmelKatrien De MulderJuliette RoelsLaurentijn TillemanMarc Aumercier et al.

A1 Journal Article in BLOOD

Validation of a new LMS (lactate minimum speed) exercise test for optimal assessment of the aerobic window of sport horses

Lorie De MaréBerit BoshuizenConstance De meeûsLukas PlanckeCarmen Vidal Moreno de VegaJean de OliveiraYannick GansemansFilip Van NieuwerburghDieter DeforceCatherine Delesalle

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

Juan FraireGaëlle HouthaeveJing LiuLaurens RaesLotte VermeulenStephan StremerschToon BransGerardo Garcia-Diaz BarrigaSarah De KeulenaerFilip Van Nieuwerburgh et al.

A1 Journal Article in JOURNAL OF CONTROLLED RELEASE

2019

A multi-omics analysis of the grapevine pathogen Lasiodiplodia theobromae reveals that temperature affects the expression of virulence- and pathogenicity-related genes

Carina FelixRodrigo Silva MenesesMicael F. M. GoncalvesLaurentijn TillemanAna S. DuarteJesus V. Jorrin-NovoYves Van de PeerDieter DeforceFilip Van NieuwerburghAna C. Esteves et al.

A1 Journal Article in SCIENTIFIC REPORTS

Bovine embryo-secreted microRNA-30c is a potential non-invasive biomarker for hampered preimplantation developmental competence

Xiaoyuan LinEvy BeckersSéan Mc CaffertyYannick GansemansKatarzyna Joanna Szymańska-VandendriesscheKrishna PavaniJoão Portela CataniFilip Van NieuwerburghDieter DeforcePetra De Sutter et al.

A1 Journal Article in FRONTIERS IN GENETICS

Comparative analysis of different nuclear transfer techniques to prevent the transmission of mitochondrial DNA variants

Maoxing TangRamesh GuggillaYannick GansemansMargot Van der JeughtAnnekatrien BoelMina PopovicPanagiotis StamatiadisMinerva Ferrer BuitragoVanessa ThysRudy Van Coster et al.

A1 Journal Article in MOLECULAR HUMAN REPRODUCTION

Comparative analysis of different nuclear transfer techniques to prevent the transmission of mitochondrial DNA variants

Maoxing TangR ReddyYannick GansemansMargot Van der JeughtAnnekatrien BoelPanagiotis StamatiadisRudy Van CosterDieter DeforceFilip Van NieuwerburghPetra De Sutter et al.

Comparison of seven contemporary pharmacogenetic assays with the PharmGKB database

Laurentijn TillemanDieter DeforceFilip Van Nieuwerburgh

Contemporary pharmacogenetic assays in view of the PharmGKB database

Laurentijn TillemanJana WeymaereBjörn HeindryckxDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in PHARMACOGENOMICS

Dual RNA sequencing of Vitis vinifera during Lasiodiplodia theobromae infection unveils host-pathogen interactions

Micael FM GonçalvesRui B NunesLaurentijn TillemanYves Van de PeerDieter DeforceFilip Van NieuwerburghAna C EstevesArtur Alves

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Emended description of Gardnerella vaginalis and description of Gardnerella leopoldii sp. nov., Gardnerella piotii sp. nov. and Gardnerella swidsinskii sp. nov., with delineation of 13 genomic species within the genus Gardnerella

Mario VaneechoutteAlexandr GuschinLeen Van SimaeyYannick GansemansFilip Van NieuwerburghPiet Cools

A1 Journal Article in INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Feasibility of single-cell analysis of model cancer and foetal cells in blood after isolation by cell picking

Julie SmithAndreas Frøslev MathisenNadja Funch RichardtAnn-Sophie Vander PlaetsenFilip Van NieuwerburghHenrik StenderThore Hillig

A2 Journal Article in TUMOR BIOLOGY

Forensic lab-on-a-chip DNA analysis

Senne CornelisDieter DeforceFilip Van NieuwerburghLiesbeth Lagae

Forensic tri-allelic SNP genotyping using nanopore sequencing

Senne CornelisYannick GansemansAnn-Sophie Vander PlaetsenJana WeymaereSander WillemsDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Gain of 20q11.21 in human pluripotent stem cells impairs TGF-β-dependent neuroectodermal commitment

C. MarkouliE. Couvreu De DeckersbergM. ReginH. T. NguyenF. ZambelliA. KellerD. DziedzickaJ. De KockLaurentijn TillemanFilip Van Nieuwerburgh et al.

A1 Journal Article in STEM CELL REPORTS

Generation of virus- and dsRNA-derived siRNAs with species-dependent length in insects

Dulce SantosLina MingelsElise VogelLuoluo WangOlivier ChristiaensKaat CappelleNiels WynantYannick GansemansFilip Van NieuwerburghGuy Smagghe et al.

A1 Journal Article in VIRUSES-BASEL

Genetic characterization and therapeutic targeting of MYC-rearranged T cell acute lymphoblastic leukaemia

Gloria MilaniFilip MatthijssensWouter Van LoockeKaat DurinckJuliette RoelsSofie PeirsMorgan ThénozTim PietersLindy ReunesBéatrice Lintermans et al.

A1 Journal Article in BRITISH JOURNAL OF HAEMATOLOGY

Genome-wide stress responses to copper and arsenic in a field population of Daphnia

Jana AsselmanIlias SemmouriCraig JacksonNathan R KeithFilip Van NieuwerburghDieter DeforceJoseph R ShawKarel De Schamphelaere

A1 Journal Article in ENVIRONMENTAL SCIENCE & TECHNOLOGY

Honey bee predisposition of resistance to ubiquitous mite infestations

Bart BroeckxLina De SmetTjeerd BlacquièreKevin MaebeMikalaï KhalenkowMario Van PouckeBjorn DahlePeter NeumannKim Bach NguyenGuy Smagghe et al.

A1 Journal Article in SCIENTIFIC REPORTS

Increased primordial germ cell (PGC) specification from human embryonic stem cells (hESC) derived in Activin A

Swati MishraMargot Van der JeughtMina PopovicJasin TaelmanEvi DuthooKatarzyna Joanna Szymańska-VandendriesschePetra De SutterLaurentijn TillemanFilip Van NieuwerburghAnnekatrien Boel et al.

Influence of microbiota in the susceptibility of parasitic wasps to abamectin insecticide : deep sequencing, esterase and toxicity tests

María del Mar FernándezIvan MeeusAnnelies BillietFilip Van NieuwerburghDieter DeforcePeter VandammeElisa ViñuelaGuy Smagghe

A1 Journal Article in PEST MANAGEMENT SCIENCE

Large expert-curated database for benchmarking document similarity detection in biomedical literature search

Peter BrownAik-Choon TanMohamed A. El-EsawiThomas LiehrOliver BlanckDouglas P. GladueGabriel M. F. AlmeidaTomislav CernavaCarlos O. SorzanoAndy W. K. Yeung et al.

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

Marine biogenics in sea spray : a new source of pharmaceuticals and nutritionals

Jana AsselmanEmmanuel Van AckerMaarten De RijckeLaurentijn TillemanFilip Van NieuwerburghJan MeesKarel De SchamphelaereColin Janssen

Marine biogenics in sea spray aerosols interact with the mTOR signaling pathway

Jana AsselmanEmmanuel Van AckerMaarten De RijckeLaurentijn TillemanFilip Van NieuwerburghJan MeesKarel De SchamphelaereColin Janssen

A1 Journal Article in SCIENTIFIC REPORTS

Rejections in an non-purpose bred assistance dog population : reasons, consequences and methods for screening

Evelien BogaertsChristel MoonsFilip Van NieuwerburghLuc PeelmanJimmy SaundersBart Broeckx

A1 Journal Article in PLOS ONE

Silicon µPCR chip for forensic STR profiling with hybeacon probe melting curves

Senne CornelisOlivier TytgatMaarten FauvartYannick GansemansAnn-Sophie Vander PlaetsenRodrigo S WiederkehrDieter DeforceFilip Van NieuwerburghTim Stakenborg

A1 Journal Article in SCIENTIFIC REPORTS

Small RNA NcS27 co-regulates utilization of carbon sources in Burkholderia cenocepacia J2315

Andrea SassStijn De WaeleSimon DaledBart DevreeseDieter DeforceFilip Van NieuwerburghTom Coenye

A1 Journal Article in MICROBIOLOGY-SGM

The inflammasome pathway is involved in PXE through IL1B upregulation in patients with a severe cardiovascular PXE phenotype

Eva De VilderL. MartinG. LeftheriotisPaul CouckeAnne De PaepeFilip Van NieuwerburghOlivier Vanakker

The transcriptome of the marine calanoid copepod Temora longicornis under heat stress and recovery

Ilias SemmouriJana AsselmanFilip Van NieuwerburghDieter DeforceColin JanssenKarel De Schamphelaere

A1 Journal Article in MARINE ENVIRONMENTAL RESEARCH

Transgenerational inheritance of DNA hypomethylation in Daphnia magna in response to salinity stress

Guilherme JeremiasJoão Alves BarbosaSérgio MarquesKarel De SchamphelaereFilip Van NieuwerburghDieter DeforceFernando GonçalvesJoana PereiraJana Asselman

Truncating SLC12A6 variants cause different clinical phenotypes in humans and dogs

Mario Van PouckeKimberley SteeLaurien SonckEmmelie StockLeslie BosselerJo Van DorpeFilip Van NieuwerburghDieter DeforceLuc PeelmanLuc Van Ham et al.

A1 Journal Article in EUROPEAN JOURNAL OF HUMAN GENETICS

Uncovering low-level mosaicism in human embryonic stem cells using high throughput single cell shallow sequencing

Alexander KellerLaurentijn TillemanDominika DziedzickaFilippo ZambelliKaren SermonFilip Van NieuwerburghClaudia SpitsMieke Geens

A1 Journal Article in SCIENTIFIC REPORTS

Various Evolutionary Trajectories Lead to Loss of the Tobramycin-Potentiating Activity of the Quorum-Sensing Inhibitor Baicalin Hydrate in Burkholderia cenocepacia Biofilms

Andrea SassLisa SlachmuyldersHeleen Van AckerIan VandenbusscheLisa OstynMona BovéAurélie CrabbéLaurent R ChiarelliSilvia BuroniFilip Van Nieuwerburgh et al.

A1 Journal Article in ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

WNT inhibition and increased fibroblast growth factor signaling promotes derivation of less heterogeneous primed human embryonic stem cells, compatible with differentiation

Jasin TaelmanMina PopovicMonika BialeckaLaurentijn TillemanSharat WarrierMargot Van der JeughtBjörn MentenDieter DeforcePetra De SutterFilip Van Nieuwerburgh et al.

A1 Journal Article in STEM CELLS AND DEVELOPMENT

YtrA(Sa), a GntR-family transcription factor, represses two genetic loci encoding membrane proteins in Sulfolobus acidocaldarius

Liesbeth LemmensLaurentijn TillemanEzra De KoningKarin ValegardAnn-Christin LindasFilip Van NieuwerburghDominique MaesEveline Peeters

A1 Journal Article in FRONTIERS IN MICROBIOLOGY

2018

A different gut microbial community between larvae and adults of a wild bumblebee nest (Bombus pascuorum)

Anneleen ParmentierIvan MeeusFilip Van NieuwerburghDieter DeforcePeter VandammeGuy Smagghe

A1 Journal Article in INSECT SCIENCE

A prokaryotic-eukaryotic relation in the fat body of Bombus terrestris

Anneleen ParmentierAnnelies BillietGuy SmagghePeter VandammeDieter DeforceFilip Van NieuwerburghIvan Meeus

A1 Journal Article in ENVIRONMENTAL MICROBIOLOGY REPORTS

Analysis of shared heritability in common disorders of the brain

Verneri AnttilaBrendan Bulik-SullivanHilary K FinucaneRaymond K WaltersJose BrasLaramie DuncanValentina Escott-PriceGuido J FalconePadhraig GormleyRainer Malik et al.

A1 Journal Article in SCIENCE

Chromosomal mosaicism in human blastocysts : the ultimate challenge of preimplantation genetic testing?

Mina PopovicAnnelies DheedeneCHRISTODOULOS CHRISTODOULOUJasin TaelmanLien DhaenensFilip Van NieuwerburghDieter DeforceEtienne Van den AbbeelPetra De SutterBjörn Menten et al.

A1 Journal Article in HUMAN REPRODUCTION

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

Sabitri GhimireMargot Van der JeughtJitesh NeupaneMatthias S RoostJasper AnckaertMina PopovicFilip Van NieuwerburghPieter MestdaghJo VandesompeleDieter Deforce et al.

A1 Journal Article in SCIENTIFIC REPORTS

Coumarin reduces virulence and biofilm formation in Pseudomonas aeruginosa by affecting quorum sensing, type III secretion and C-di-GMP levels

Yunhui ZhangAndrea SassHeleen Van AckerJasper WilleBruno VerhasseltFilip Van NieuwerburghVolkhard KaeverAurélie CrabbéTom Coenye

A1 Journal Article in FRONTIERS IN MICROBIOLOGY

Crossing borders to mitigate mycotoxins : where microbiology, poly-omics and crop protection meet

Laura De MetsLeen De GelderFilip Van NieuwerburghKris Audenaert

Decreased susceptibility of Streptococcus anginosus to vancomycin in a multispecies biofilm is due to increased thickness of the cell wall

Sarah TavernierAndrea SassMichiel De BruyneFemke BaekeRiet De RyckeAurélie CrabbéIlse VandecandelaereFilip Van NieuwerburghTom Coenye

A1 Journal Article in JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Effect of β-adrenergic receptor agents on cardiac structure and function and whole-body gene expression in Daphnia magna

Tae-Yong JeongJana AsselmanKarel De SchamphelaereFilip Van NieuwerburghDieter DeforceSang Don Kim

A1 Journal Article in ENVIRONMENTAL POLLUTION

Elucidation of the mechanism behind the potentiating activity of baicalin against Burkholderia cenocepacia biofilms

Lisa SlachmuyldersHeleen Van AckerGilles BrackmanAndrea SassFilip Van NieuwerburghTom Coenye

A1 Journal Article in PLOS ONE

Intraobserver and interobserver agreement on the radiographical diagnosis of canine cranial cruciate ligament rupture

Evelien BogaertsElke Van der VekensGeert VerhoevenHilde De RoosterBernadette Van RyssenYves SamoyIngrid PutcuypsJohan Van TilburgNausikaa DevriendtFrederik Weekers et al.

A1 Journal Article in VETERINARY RECORD

Massively parallel sequencing of micro-manipulated cells targeting a comprehensive panel of disease-causing genes : a comparative evaluation of upstream whole-genome amplification methods

Lieselot DeleyeYannick GansemansDieter De ConinckFilip Van NieuwerburghDieter Deforce

A1 Journal Article in PLOS ONE

Microbial degradation of zearalenone by Actinobacteria : mind the toxicity

Laura De MetsKris AudenaertMarthe De BoevreArnau Vidal CorominasFilip Van NieuwerburghLeen De Gelder

Multiplex STR amplification sensitivity in a silicon microchip

Senne CornelisMaarten FauvartYannick GansemansAnn-Sophie Vander PlaetsenFrederik ColleRodrigo S WiederkehrDieter DeforceTim StakenborgFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

PLCz knock-out sperm reveals the sole effect of altering calcium signals during assisted oocyte activation on later mouse embryogenesis

Minerva Ferrer BuitragoLaurentijn TillemanVanessa ThysA HachemFilip Van NieuwerburghLuc LeybaertPetra De SutterDieter DeforceJ ParringtonBjörn Heindryckx

Photothermally triggered endosomal escape and its influence on transfection efficiency of gold-functionalized JetPEI/pDNA nanoparticles

Lotte VermeulenJuan FraireLaurens RaesEllen De MeesterSarah De KeulenaerFilip Van NieuwerburghStefaan De SmedtKatrien RemautKevin Braeckmans

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Positive human health effects of sea spray aerosols : molecular evidence from exposed lung cell lines

Jana AsselmanEmmanuel Van AckerMaarten De RijckeLaurentijn TillemanFilip Van NieuwerburghJan MeesKarel De SchamphelaereColin Janssen

Pre-clinical evaluation of second generation PIM inhibitors for the treatment of T-cell acute lymphoblastic leukemia and lymphoma

Renate De SmedtSofie PeirsJulie MorscioFilip MatthijssensJuliette RoelsLindy ReunesBéatrice LintermansSteven GoossensTim LammensNadine Van Roy et al.

A1 Journal Article in HAEMATOLOGICA

Proteins involved in embryo-maternal interaction around the signalling of maternal recognition of pregnancy in the horse

Katrien SmitsSander WillemsKatleen Van SteendamMargot Van de VeldeValérie De LangeCyrillus VerversKim RoelsJan GovaereFilip Van NieuwerburghLuc Peelman et al.

A1 Journal Article in SCIENTIFIC REPORTS

Short tandem repeat analysis after whole genome amplification of single B-lymphoblastoid cells

Lieselot DeleyeAnn-Sophie Vander PlaetsenJana WeymaereDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

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

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

A1 Journal Article in NATURE COMMUNICATIONS

The Chara genome : secondary complexity and implications for plant terrestrialization

Tomoaki NishiyamaHidetoshi SakayamaJan de VriesHenrik BuschmannDenis Saint-MarcouxKristian K UllrichFabian B HaasLisa VanderstraetenDirk BeckerDaniel Lang et al.

A1 Journal Article in CELL

The molecular basis for positive health effects of sea spray on human lung cells

Jana AsselmanEmmanuel Van AckerMaarten De RijckeLaurentijn TillemanFilip Van NieuwerburghJan MeesKarel De SchamphelaereColin Janssen

The presence of extracellular microRNAs in the media of cultured Drosophila cells

Stijn Van den BrandeMarijke GijbelsNiels WynantDulce SantosLina MingelsYannick GansemansFilip Van NieuwerburghJozef Vanden Broeck

A1 Journal Article in SCIENTIFIC REPORTS

The small RNA ncS35 regulates growth in Burkholderia cenocepacia J2315

Sanne KiekensAndrea SassFilip Van NieuwerburghDieter DeforceTom Coenye

A1 Journal Article in MSPHERE

Transcriptional landscape changes during human embryonic stem cell derivation

Sharat WarrierJasin TaelmanLaurentijn TillemanMargot Van der JeughtGalbha DuggalSylvie LiermanMina PopovicAnn Van SoomLuc PeelmanFilip Van Nieuwerburgh et al.

A1 Journal Article in MOLECULAR HUMAN REPRODUCTION

Transgenerational inheritance of DNA hypomethylation in Daphnia magna in response to salinity stress

Guilherme JeremiasJoão BarbosaSergio MarquesKarel De SchamphelaereFilip Van NieuwerburghDieter DeforceFernando GonçalvesJoana PereiraJana Asselman

A1 Journal Article in ENVIRONMENTAL SCIENCE & TECHNOLOGY

Unravelling the molecular pathways responsible for sex determination in humans

Jasin TaelmanMina PopovicLaurentijn TillemanMargot Van der JeughtDieter DeforcePetra De SutterFilip Van NieuwerburghBjörn HeindryckxS Chuva De Sousa Lopes

2017

Characterization of the emerging zoonotic pathogen Arcobacter thereius by whole genome sequencing and comparative genomics

Francesca RovettoAurélien CarlierAnne-Marie Van den AbeeleKoen IlleghemsFilip Van NieuwerburghLuca CocolinKurt Houf

A1 Journal Article in PLOS ONE

Colony contact contributes to the diversity of gut bacteria in bumblebees (Bombus terrestris)

Annelies BillietIvan MeeusFilip Van NieuwerburghDieter DeforceFelix WäckersGuy Smagghe

A1 Journal Article in INSECT SCIENCE

Comprehensive comparison of inner cell mass and trophectoderm reveals the complex nature of chromosomal mosaicism in human embryos

Mina PopovicAnnelies DheedeneCHRISTODOULOS CHRISTODOULOUMargot Van der JeughtFilip Van NieuwerburghDieter DeforcePetra De SutterEtienne Van den AbbeelBjörn MentenBjörn Heindryckx

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

Sharat WarrierMargot Van der JeughtGalbha DuggalLaurentijn TillemanElla SutherlandJasin TaelmanMina PopovicSylvie LiermanSusana Marina Chuva de Sousa LopesAnn Van Soom et al.

A1 Journal Article in NATURE COMMUNICATIONS

Discovery of the leinamycin family of natural products by mining actinobacterial genomes

Guohui PanZhengren XuZhikai GuoHindra HindraMing MaDong YangHao ZhouYannick GansemansXiangcheng ZhuYong Huang et al.

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

Effect of aleurone on equine fecal microbiome and glucose metabolism in non-training horses

Berit BoshuizenConstance De meeûsFilip Van NieuwerburghDieter DeforceJean de OlivieraLaura Van HauweCatherine Delesalle

Epigenetic sampling effects : nephrectomy modifies the clear cell renal cell cancer methylome

Christophe Van NesteAlexander LairdFiach O’MahonyWim Van CriekingeDieter DeforceFilip Van NieuwerburghThomas PowlesDavid J HarrisonGrant D StewartTim De Meyer

A1 Journal Article in CELLULAR ONCOLOGY

Flagging false positives following untargeted LCMS characterization of histone PTM combinations

Sander WillemsMaarten DhaenensElisabeth GovaertLaura De ClerckPaulien MeertChristophe Van NesteFilip Van NieuwerburghDieter Deforce

A1 Journal Article in JOURNAL OF PROTEOME RESEARCH

Forensic SNP genotyping using nanopore MinION sequencing

Senne CornelisYannick GansemansLieselot DeleyeDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

Massively parallel sequencing in preimplantation and prenatal genetic diagnosis

Lieselot DeleyeFilip Van NieuwerburghDieter Deforce

Metabolic activity, urease production, antibiotic resistance and virulence in dual species biofilms of Staphylococcus epidermidis and Staphylococcus aureus

Ilse VandecandelaereFilip Van NieuwerburghDieter DeforceTom Coenye

A1 Journal Article in PLOS ONE

Microbial community profiling of fresh basil and pitfalls in taxonomic assignment of enterobacterial pathogenic species based upon 16S rRNA

Siele CeuppensDieter De ConinckNadine BottledoornFilip Van NieuwerburghMieke Uyttendaele

A1 Journal Article in INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Oncogenic ZEB2 activation drives sensitivity toward KDM1A inhibition in T-cell acute lymphoblastic leukemia

Steven GoossensSofie PeirsWouter Van LoockeJueqiong WangMina TakawyFilip MatthijssensStefan E SondereggerKatharina HaighThao NguyenNiels Vandamme et al.

A1 Journal Article in BLOOD

Origins of human embryonic stem cell fate : role of the post inner cell mass intermediate

Sharat WarrierMina PopovicJasin TaelmanLaurentijn TillemanSylvie LiermanMinerva Ferrer BuitragoS. Chuva De Sousa LopesAnn Van SoomLuc PeelmanFilip Van Nieuwerburgh et al.

Performance of four modern whole genome amplification methods for copy number variant detection in single cells

Lieselot DeleyeLaurentijn TillemanAnn-Sophie Vander PlaetsenSenne CornelisDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

Preimplantation genetic diagnosis for chromosomal rearrangements with the use of array comparative genomic hybridization at the blastocyst stage

CHRISTODOULOS CHRISTODOULOUAnnelies DheedeneBjörn HeindryckxFilip Van NieuwerburghDieter DeforcePetra De SutterBjörn MentenEtienne Van den Abbeel

A1 Journal Article in FERTILITY AND STERILITY

RMNE calculation in forensic profiles with a high number of loci and allelic drop-outs using polynomial expansion

Sander WillemsSenne CornelisYannick GansemansBart BroeckxDieter De ConinckChristophe Van NesteMaarten DhaenensDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

STR profiling and Copy Number Variation analysis on single, preserved cells using current Whole Genome Amplification methods

Ann-Sophie Vander PlaetsenLieselot DeleyeSenne CornelisLaurentijn TillemanFilip Van NieuwerburghDieter Deforce

A1 Journal Article in SCIENTIFIC REPORTS

The transcriptome of Mycobacterium tuberculosis in a lipid-rich dormancy model through RNAseq analysis

Diana Angelica Aguilar AyalaLaurentijn TillemanFilip Van NieuwerburghDieter DeforceJuan Carlos PalominoPeter VandammeJorge A Gonzalez-Y-MerchandAnandi Martin

A1 Journal Article in SCIENTIFIC REPORTS

Unraveling the zearalenone degradation pathway using a poly-omics approach : first results

Laura De MetsKris AudenaertArnau Vidal CorominasFilip Van NieuwerburghLeen De Gelder

Wnt inhibition during hESC culture provides an improved pluripotent state starting point for directed differentiation

Jasin TaelmanLaurentijn TillemanFilip Van NieuwerburghSharat WarrierMina PopovicMargot Van der JeughtDieter DeforcePetra De SutterBjörn HeindryckxSusana Marina Chuva de Sousa Lopes

2016

Assessing the impact of minimizing arginine conversion in fully defined SILAC culture medium in human embryonic stem cells

Ellen ScheerlinckKatleen Van SteendamSimon DaledElisabeth GovaertLiesbeth VossaertPaulien MeertFilip Van NieuwerburghAnn Van SoomLuc PeelmanPetra De Sutter et al.

A1 Journal Article in PROTEOMICS

Divergence between the highly virulent zoonotic pathogen Helicobacter heilmannii and its closest relative, the low-virulence 'Helicobacter ailurogastricus' sp. nov.

Myrthe JoostenSara LindénMirko RossiAlfred Chin Yen TayEmma SkoogMédea PadraFanny PetersTim PerkinsPeter VandammeFilip Van Nieuwerburgh et al.

A1 Journal Article in INFECTION AND IMMUNITY

Dynamic epigenetic changes to VHL occur with sunitinib in metastatic clear cell renal cancer

Grant D StewartThomas PowlesChristophe Van NesteAlison MeynertFiach O'MahonyAlexander LairdDieter DeforceFilip Van NieuwerburghGeert TrooskensWim Van Criekinge et al.

A1 Journal Article in ONCOTARGET

Forensic Loci Allele Database (FLAD) : automatically generated, permanent identifiers for sequenced forensic alleles

Christophe Van NesteWim Van CriekingeDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Impact of sugar syrup and pollen diet on the bacterial diversity in the gut of indoor-reared bumblebees (Bombus terrestris)

Annelies BillietIvan MeeusFilip Van NieuwerburghDieter DeforceFelix WäckersGuy Smagghe

A1 Journal Article in APIDOLOGIE

In vivo study of Dicer-2-mediated immune response of the small interfering RNA pathway upon systemic infections of virulent and avirulent viruses in Bombus terrestris

Jinzhi NiuGuy SmaggheDieter De ConinckFilip Van NieuwerburghDieter DeforceIvan Meeus

A1 Journal Article in INSECT BIOCHEMISTRY AND MOLECULAR BIOLOGY

Massive parallel sequencing uncovers chromosomal mosaicism in human embryonic stem cells in both primed and naive culture conditions

Mina PopovicMargot Van der JeughtFranki SpelemanFilip Van NieuwerburghPetra De SutterBjörn MentenBjörn Heindryckx

Microbial diversity and metabolite composition of Belgian red-brown acidic ales

Isabel SnauwaertSanne RoelsFilip Van NieuwerburghAnita Van LandschootLuc De VuystPeter Vandamme

A1 Journal Article in INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Performance of a TthPrimPol-based whole genome amplification kit for copy number alteration detection using massively parallel sequencing

Lieselot DeleyeDieter De ConinckAnnelies DheedenePetra De SutterBjörn MentenDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in SCIENTIFIC REPORTS

Preimplantation genetic diagnosis (PGD) for translocation carriers using whole genome screening by microarray analysis at the blastocyst stage

CHRISTODOULOS CHRISTODOULOUAnnelies DheedeneIlse De CrooBjörn HeindryckxLieselot DeleyeFilip Van NieuwerburghDieter DeforcePetra De SutterBjörn MentenEtienne Van den Abbeel

Statistical framework for detection of genetically modified organisms based on Next Generation Sequencing

Sander WillemsMarie-Alice FraitureDieter DeforceSigrid De KeersmaeckerPhilippe HermanMarc De LooseTom RuttinkFilip Van NieuwerburghNancy Roosens

A1 Journal Article in FOOD CHEMISTRY

Strain prioritization and genome mining for enediyne natural products

Xiaohui YanHuiming GeTingting HuangDong YangQihui TengIvana CrnovčićXiuling LiJeffrey D RudolfJeremy R LohmanYannick Gansemans et al.

A1 Journal Article in MBIO

Suboptimal culture conditions induce more deviations in gene expression in male than female bovine blastocysts

Sonia Heras GarcíaDieter De ConinckMario Van PouckeKaren GoossensOsvaldo Américo Bogado PascottiniFilip Van NieuwerburghDieter DeforcePetra De SutterJo LeroyAlfonso Gutierrez-Adan et al.

A1 Journal Article in BMC GENOMICS

The equine embryo influences immune related gene expression in the oviduct

Katrien SmitsDieter De ConinckFilip Van NieuwerburghJan GovaereMario Van PouckeLuc PeelmanDieter DeforceAnn Van Soom

A1 Journal Article in BIOLOGY OF REPRODUCTION

The quorum sensing inhibitor hamamelitannin increases antibiotic susceptibility of Staphylococcus aureus biofilms by affecting peptidoglycan biosynthesis and eDNA release

Gilles BrackmanKoen BreyneRiet De RyckeArno VermoteFilip Van NieuwerburghEvelyne MeyerSerge Van CalenberghTom Coenye

A1 Journal Article in SCIENTIFIC REPORTS

Toward the most ideal case-control design with related and unrelated dogs in whole-exome sequencing studies

Bart BroeckxFrank CoopmanGeert VerhoevenSarah De KeulenaerEllen De MeesterValérie BavegemsPascale SmetsBernadette Van RyssenFilip Van NieuwerburghDieter Deforce

A1 Journal Article in ANIMAL GENETICS

Uncovering the novel role of mTORC2 subunit of the PI3K/AKT/mTORC pathway in establishing naive pluripotency in human embryonic stem cells

Sharat WarrierMargot Van der JeughtGalbha DuggalJasin TaelmanSylvie LiermanSusana Marina Chuva de Sousa LopesAnn Van SoomLuc PeelmanFilip Van NieuwerburghDieter De Coninck et al.

Unique long non-coding RNA expression signature in ETV6/RUNX1-Driven B-cell precursor acute lymphoblastic leukemia

Farzaneh GhazaviBarbara De MoerlooseWouter Van LoockeAnnelynn WallaertAlina FersterMarleen BakkusGeneviève PlatEric DelabesseAnne UyttebroeckFilip Van Nieuwerburgh et al.

Unique long non-coding RNA expression signature in ETV6/RUNX1-driven B-cell precursor acute lymphoblastic leukemia

Farzaneh GhazaviBarbara De MoerlooseWouter Van LoockeAnnelynn WallaertHetty HelsmoortelAlina FersterMarleen BakkusGeneviève PlatEric DelabesseAnne Uyttebroeck et al.

A1 Journal Article in ONCOTARGET

2015

16S rRNA Amplicon sequencing demonstrates that indoor-reared bumblebees (Bombus terrestris) harbor a core subset of bacteria normally associated with the wild host

Ivan MeeusLaurian ParmentierAnnelies BillietKevin MaebeFilip Van NieuwerburghDieter DeforceFelix WäckersPeter VandammeGuy Smagghe

A1 Journal Article in PLOS ONE

A doubling of microphytobenthos biomass coincides with a tenfold increase in denitrifier and total bacterial abundances in intertidal sediments of a temperate estuary

Helen DecleyreKim HeylenKoen SabbeBjorn TytgatDieter DeforceFilip Van NieuwerburghCarl Van ColenAnne Willems

A1 Journal Article in PLOS ONE

An heuristic filtering tool to identify phenotype-associated genetic variants applied to human intellectual disability and canine coat colors

Bart BroeckxFrank CoopmanGeert VerhoevenTim BosmansIngrid GielenWalter DingemanseJimmy SaundersDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in BMC BIOINFORMATICS

Canine whole exome sequencing : hip, hip, hurray?: the quest for genetic solutions for phenotypical problems

Bart BroeckxDieter DeforceFrank CoopmanGeert VerhoevenFilip Van Nieuwerburgh

Challenges and opportunities in the investigation of unexplained intellectual disability using family-based whole-exome sequencing

C HelsmoortelG VandeweyerP OrdoukhanianFilip Van NieuwerburghN Van der AaRF Kooy

A1 Journal Article in CLINICAL GENETICS

Comparative analysis of different culture conditions inducing naive pluripotency in human embryonic stem cells

Sharat WarrierGalbha DuggalJasin TaelmanSylvie LiermanS Chuva de Sousa LopesAnn Van SoomLuc PeelmanFilip Van NieuwerburghDieter De ConinckBjörn Menten et al.

Derivation conditions affect pluripotency and differentiation propensity of mouse embryonic stem cells

Sabitri GhimireMargot Van der JeughtJitesh NeupaneFilip Van NieuwerburghDieter DeforceSusana Marina Chuva de Sousa LopesPetra De SutterBjörn Heindryckx

Differential transcriptome analysis of the common shrimp Crangon crangon: special focus on the nuclear receptors and RNAi-related genes

Olivier ChristiaensDaan DelbareChristophe Van NesteNa YuRuben De WildeFilip Van NieuwerburghDieter DeforceKris CooremanGuy Smagghe

A1 Journal Article in GENERAL AND COMPARATIVE ENDOCRINOLOGY

Effect of multiple allelic drop-outs in forensic RMNE calculations

Christophe Van NesteDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Efficiency of exome sequencing for the molecular diagnosis of Pseudoxanthoma Elasticum

Mohammad Jakir HosenFilip Van NieuwerburghWouter SteyaertDieter DeforceLudovic MartinGeorges LeftheriotisAnne De PaepePaul CouckeOlivier Vanakker

A1 Journal Article in JOURNAL OF INVESTIGATIVE DERMATOLOGY

Forensic massively parallel sequencing data analysis tool: implementation of MyFLq as a standalone web- and Illumina BaseSpace®-application

Christophe Van NesteYannick GansemansDieter De ConinckDavid Van HoofstatWim Van CriekingeDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Genome sequence of Devriesea agamarum, isolated from agamid lizards with dermatitis

Roel HaesendonckFilip Van NieuwerburghFreddy HaesebrouckDieter DeforceFrank PasmansAn Martel

A2 Journal Article in MICROBIOLOGY RESOURCE ANNOUNCEMENTS

Genome-wide transcription start site profiling in biofilm-grown Burkholderia cenocepacia J2315

Andrea SassHeleen Van AckerKonrad FörstnerFilip Van NieuwerburghDieter DeforceJörg VogelTom Coenye

A1 Journal Article in BMC GENOMICS

Heuristic filtering of sequencing variants with the R-package "Mendelian"

Bart BroeckxFrank CoopmanGeert VerhoevenDieter DeforceFilip Van Nieuwerburgh

Improved canine exome designs, featuring ncRNAs and increased coverage of protein coding genes

Bart BroeckxChristophe HitteFrank CoopmanGeert VerhoevenSarah De KeulenaerEllen De MeesterThomas DerrienJessica AlfoldiKerstin Lindblad-TohTim Bosmans et al.

A1 Journal Article in SCIENTIFIC REPORTS

Novel phenotypes and genes in pseudoxanthoma elasticum-related soft tissue mineralization: results of an integrative approach

Eva De VilderMohammad Jakir HosenPaul CouckeAnne De PaepeAriana KariminejadGeorges LefthériotisFilip Van NieuwerburghLudovic MartinOlivier Vanakker

OSC2 and CYP716A14v2 catalyze the biosynthesis of triterpenoids for the cuticle of aerial organs of Artemisia annua

Tessa MosesJacob PollierQian ShenSandra SoetaertJames ReedMarie-Laure ErffelinckFilip Van NieuwerburghRobin Vanden BosscheAnne OsbournJohan M Thevelein et al.

A1 Journal Article in PLANT CELL

Phospho-iTRAQ : assessing isobaric labels for the large-scale study of phosphopeptide stoichiometry

Pieter GlibertPaulien MeertKatleen Van SteendamFilip Van NieuwerburghDieter De ConinckLennart MartensMaarten DhaenensDieter Deforce

A1 Journal Article in JOURNAL OF PROTEOME RESEARCH

Porting forensic DNA analysis to deep sequencing

Christophe Van NesteDieter DeforceWim Van CriekingeFilip Van Nieuwerburgh

Prevalence of gender nonconformity in Flanders, Belgium

Eva Van CaenegemKatrien WierckxEls ElautAnn BuysseAlexis DewaeleFilip Van NieuwerburghGriet De CuypereGuy T'Sjoen

A1 Journal Article in ARCHIVES OF SEXUAL BEHAVIOR

Shallow whole genome sequencing is well suited for the detection of chromosomal aberrations in human blastocysts

Lieselot DeleyeAnnelies DheedeneDieter De ConinckTom SanteCHRISTODOULOS CHRISTODOULOUBjörn HeindryckxEtienne Van den AbbeelPetra De SutterDieter DeforceBjörn Menten et al.

A1 Journal Article in FERTILITY AND STERILITY

Transcriptome analysis of Bombyx mori larval midgut during persistent and pathogenic cytoplasmic polyhedrosis virus infection

Anna KolliopoulouFilip Van NieuwerburghDimitrios J StravopodisDieter DeforceLuc SweversGuy Smagghe

A1 Journal Article in PLOS ONE

Validation of a sensitive DNA walking strategy to characterise unauthorised GMOs using model food matrices mimicking common rice products

Marie-Alice FraiturePhilippe HermanIsabel TaverniersMarc De LooseFilip Van NieuwerburghDieter DeforceNancy H. Roosens

A1 Journal Article in FOOD CHEMISTRY

Viral small-RNA analysis of Bombyx mori larval midgut during persistent and pathogenic cytoplasmic polyhedrosis virus infection

Aris ZografidisFilip Van NieuwerburghAnna KolliopoulouKonstantinos Apostolou-KarampelisSteven R HeadDieter DeforceGuy SmaggheLuc Swevers

A1 Journal Article in JOURNAL OF VIROLOGY

Whole exome sequencing as a novel tool for the detection of modifier genes in Pseudoxanthoma elasticum

Eva De VilderFilip Van NieuwerburghDieter DeforceLudovic MartinGeorges LefthériotisPaul CouckeAnne De PaepeOlivier Vanakker

Whole exome sequencing as a novel tool for the detection of modifier genes in pseudoxanthoma elasticum

Eva De VilderFilip Van NieuwerburghDieter DeforceLudovic MartinGeorges LefthériotisAnne De PaepeOlivier Vanakker

Whole exome sequencing the dog

Bart BroeckxChristophe HitteFrank CoopmanGeert VerhoevenSarah De KeulenaerEllen De MeesterThomas DerrienJessica AlfoldiKerstin Lindblad-TohTim Bosmans et al.

Whole genome amplification with SurePlex results in better copy number alteration detection using sequencing data compared to the MALBAC method

Lieselot DeleyeDieter De ConinckCHRISTODOULOS CHRISTODOULOUTom SanteAnnelies DheedeneBjörn HeindryckxEtienne Van den AbbeelPetra De SutterBjörn MentenDieter Deforce et al.

A1 Journal Article in SCIENTIFIC REPORTS

2014

Autovaccination confers protection against Devriesea agamarum associated septicemia but not dermatitis in bearded dragons (Pogona vitticeps)

Tom HellebuyckKatleen Van SteendamDieter DeforceMark BlooiFilip Van NieuwerburghEvelien BullaertRichard DucatelleFreddy HaesebrouckFrank PasmansAn Martel

A1 Journal Article in PLOS ONE

Detailed method description for noninvasive monitoring of differentiation status of human embryonic stem cells

Ellen ScheerlinckKatleen Van SteendamMado VandewoestyneTrees LepezVeerle GobinPaulien MeertLiesbeth VossaertFilip Van NieuwerburghAnn Van SoomLuc Peelman et al.

A1 Journal Article in ANALYTICAL BIOCHEMISTRY

Development and performance of a targeted whole exome sequencing enrichment kit for the dog (Canis Familiaris Build 3.1)

Bart BroeckxFrank CoopmanGeert VerhoevenValérie BavegemsSarah De KeulenaerEllen De MeesterFilip Van NieuwerburghDieter Deforce

A1 Journal Article in SCIENTIFIC REPORTS

Draft genome sequence of methicillin-resistant Staphylococcus epidermidis strain ET-024, isolated from an endotracheal tube biofilm of a mechanically ventilated patient

Ilse VandecandelaereFilip Van NieuwerburghDieter DeforceHans NelisTom Coenye

A4 Journal Article in GENOME ANNOUNCEMENTS

Illumina sequencing of 15 deafness genes using fragmented amplicons

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

A2 Journal Article in BMC RESEARCH NOTES

Library construction for next-generation sequencing: overviews and challenges

Steven R HeadH Kiyomi KomoriSarah A LaMereThomas WhisenantFilip Van NieuwerburghDaniel R SalomonPhillip Ordoukhanian

A1 Journal Article in BIOTECHNIQUES

My-Forensic-Loci-queries (MyFLq) framework for analysis of forensic STR data generated by massive parallel sequencing

Christophe Van NesteMado VandewoestyneWim Van CriekingeDieter DeforceFilip Van Nieuwerburgh

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Perfrin, a novel bacteriocin associated with netB positive Clostridium perfringens strains from broilers with necrotic eneteritis

Leen TimbermontLina De SmetFilip Van NieuwerburghValeria R PareiraGonzalez Van DriesscheFreddy HaesebrouckRichard DucatelleJohn PrescottDieter DeforceBart Devreese et al.

A1 Journal Article in VETERINARY RESEARCH

Presence and analysis of plasmids in human and animal associated Arcobacter species

Laid DouidahLieven De ZutterFilip Van NieuwerburghDieter DeforceHanne IngmerOlivier VandenbergAnne-Marie Van Den AbeeleKurt Houf

A1 Journal Article in PLOS ONE

Quantification of integrated HIV DNA by repetitive-sampling Alu-HIV PCR on the basis of Poisson statistics

Ward De SpiegelaereEva MalatinkováLindsay LynchFilip Van NieuwerburghPeter MessiaenUna O'DohertyLinos Vandekerckhove

A1 Journal Article in CLINICAL CHEMISTRY

Quantitative proteomics to characterize specific histone H2A proteolysis in chronic lymphocytic leukemia and the myeloid THP-1 cell line

Pieter GlibertLiesbeth VossaertKatleen Van SteendamStijn LambrechtFilip Van NieuwerburghFritz OffnerThomas KippsMaarten DhaenensDieter Deforce

A1 Journal Article in INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Retrospective study of the impact of miniSTRs on forensic DNA profiling of touch DNA samples

Filip Van NieuwerburghDavid Van HoofstatChristophe Van NesteDieter Deforce

A1 Journal Article in SCIENCE & JUSTICE

Safety assessment of the butyrate-producing Butyricicoccus pullicaecorum strain 25-3T, a potential probiotic for patients with inflammatory bowel disease, based on oral toxicity tests and whole genome sequencing

Marjan SteppeFilip Van NieuwerburghGriet VercauterenFilip BoyenVenessa EeckhautDieter DeforceFreddy HaesebrouckRichard DucatelleFilip Van Immerseel

A1 Journal Article in FOOD AND CHEMICAL TOXICOLOGY

The BCESM genomic region contains a regulator involved in quorum sensing and persistence in Burkholderia cenocepacia J2315

Heleen Van AckerEvelien De CanckFilip Van NieuwerburghAndrea SassDieter DeforceHans NelisTom Coenye

A1 Journal Article in FUTURE MICROBIOLOGY

The effects of positioning, reason for screening and the referring veterinarian on prevalence estimates of canine hip dysplasia

Bart BroeckxGeert VerhoevenFrank CoopmanWim Van HaeringenTim BosmansIngrid GielenSara HenckensJimmy SaundersHenri van BreeBernadette Van Ryssen et al.

A1 Journal Article in VETERINARY JOURNAL

2013

Ancient dispersal of the human fungal pathogen Cryptococcus gattii from the Amazon rainforest

Ferry HagenPaulo C CeresiniItzhack PolacheckHansong MaFilip Van NieuwerburghToni GabaldónSarah KaganE Rhiannon PursallHans L HoogveldLeo JJ van Iersel et al.

A1 Journal Article in PLOS ONE

Caspase-14-deficient mice are more prone to the development of parakeratosis

Esther HosteGeertrui DeneckerBarbara GilbertFilip Van NieuwerburghLeslie van der FitsBob AsselberghRiet De RyckeJean-Pierre HachemDieter DeforceErrol P Prens et al.

A1 Journal Article in JOURNAL OF INVESTIGATIVE DERMATOLOGY

Differential transcriptome analysis of glandular and filamentous trichomes in Artemisia annua

Sandra SoetaertChristophe Van NesteMado VandewoestyneSteven R HeadAlain GoossensFilip Van NieuwerburghDieter Deforce

A1 Journal Article in BMC PLANT BIOLOGY

Genome sequence of Helicobacter heilmannii sensu stricto ASB1 isolated from the gastric mucosa of a kitten with severe gastritis

Annemieke SmetFilip Van NieuwerburghJesica LedesmaBram FlahouDieter DeforceRichard DucatelleFreddy Haesebrouck

A4 Journal Article in GENOME ANNOUNCEMENTS

Genome-wide association study of obsessive-compulsive disorder

SE StewartD YuJM ScharfBM NealeJA FagernessCA MathewsPD ArnoldPD EvansER GamazonL Osiecki et al.

A1 Journal Article in MOLECULAR PSYCHIATRY

Partitioning the heritability of Tourette syndrome and obsessive compulsive disorder reveals differences in genetic architecture

Lea K DavisDongmei YuClare L KeenanEric R GamazonAnuar I KonkashbaevEske M DerksBenjamin M NealeJian YangS Hong LeePatrick Evans et al.

A1 Journal Article in PLOS GENETICS

PiTRAQ, a strategy to simultaneously correlate protein expression and phosphorylation stoichiometry between different samples: evaluation on different mass spectrometers

Pieter GlibertMaarten DhaenensPaulien MeertNiklaas ColaertFilip Van NieuwerburghLennart MartensDieter Deforce

Presence and potential of cell free DNA in different types of forensic samples

Mado VandewoestyneDavid Van HoofstatAimee FranssenFilip Van NieuwerburghDieter Deforce

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Prevalence of genetic disorders in dogs from Belgium, the Netherlands and Germany

Bart BroeckxFrank CoopmanGeert VerhoevenWim Van HaeringenTim BosmansIngrid GielenJimmy SaundersHenri van BreeFilip Van NieuwerburghBernadette Van Ryssen et al.

Quantification of integrated HIV DNA by repetitive sampling Alu-HIV PCR and Poisson statistics

Ward De SpiegelaereEva MalatinkováFilip Van NieuwerburghUna O'DohertyLinos Vandekerckhove

The prevalence of nine genetic disorders in a dog population from Belgium, the Netherlands and Germany

Bart BroeckxFrank CoopmanGeert VerhoevenWim Van HaeringenLeanne van de GoorTim BosmansIngrid GielenJimmy SaundersSandra SoetaertHenri van Bree et al.

A1 Journal Article in PLOS ONE

Transcriptome and small RNA analysis of larval midgut tissue persistently and acutely infected by cytoplasmic polyhedrosis virus (CPV) in the silkmoth Bombyx mori

L SweversFilip Van NieuwerburghA KolliopoulouJ SunGuy Smagghe

Trichomes, the key to an increased production of artemisinin in Artemisia annua

Sandra SoetaertDieter DeforceAlain GoossensFilip Van Nieuwerburgh

2012

Assessment of microbial diversity in biofilms recovered from endotracheal tubes using culture dependent and independent approaches

Ilse VandecandelaereNele MatthijsFilip Van NieuwerburghDieter DeforcePETER VOSTERSLiesbet De BusHans NelisPieter DepuydtTom Coenye

A1 Journal Article in PLOS ONE

Catechol-O-methyltranferase gene expression is associated with response to citalopram in obsessive-compulsive disorder

Nienke CC VulinkHerman GM WestenbergFilip Van NieuwerburghDieter DeforceSjoerd BAHA FluitmanJantien SC MeinardiDamiaan Denys

A1 Journal Article in INTERNATIONAL JOURNAL OF PSYCHIATRY IN CLINICAL PRACTICE

Evaluation of a strategy for parallel protein phosphorylation and expression analysis

Pieter GlibertMaarten DhaenensPaulien MeertNiklaas ColaertFilip Van NieuwerburghLennart MartensDieter Deforce

Evaluation of three DNA extraction protocols for forensic STR typing after laser capture microdissection

Mado VandewoestyneFilip Van NieuwerburghDavid Van HoofstatDieter Deforce

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Fetal microchimeric cells in the blood of women with an autoimmune thyroid disease

Trees LepezMado VandewoestyneFilip Van NieuwerburghKris PoppeBrigit VelkeniersDieter Deforce

Forensic STR analysis using massive parallel sequencing

Christophe Van NesteFilip Van NieuwerburghDavid Van HoofstatDieter Deforce

A1 Journal Article in FORENSIC SCIENCE INTERNATIONAL-GENETICS

Full genome sequences of all nine Chlamydia psittaci genotype reference strains

Sarah Van LentJurgen R PietDelphine Sylvie Anne BeeckmanArie van der EndeFilip Van NieuwerburghPatrik BavoilGarry MyersDaisy VanrompayYvonne Pannekoek

A1 Journal Article in JOURNAL OF BACTERIOLOGY

Illumina mate-paired DNA sequencing-library preparation using Cre-Lox recombination

Filip Van NieuwerburghRyan C ThompsonJessica LedesmaDieter DeforceTerry GaasterlandPhillip OrdoukhanianSteven R Head

A1 Journal Article in NUCLEIC ACIDS RESEARCH

Laser capture microdissection in forensics

Mado VandewoestyneDavid Van HoofstatFilip Van NieuwerburghDieter Deforce

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

Sarah De KeulenaerJan HellemansSteve LefeverJean-Pierre RenardJoachim De SchrijverHendrik Van de VoordeMohammad Amin TabatabaiefarFilip Van NieuwerburghDaisy FlamezFilip Pattyn et al.

A1 Journal Article in BMC MEDICAL GENOMICS

Perfrin, a novel bacteriocin from a necrotic enteritis associated Clostridium perfringens strain

Leen TimbermontSofie GeeraertsLina De SmetFilip Van NieuwerburghValeria R ParreiraGonzalez Van DriesscheFreddy HaesebrouckRichard DucatelleJohn PrescottDieter Deforce et al.

Purification and characterization of Perfrin, a novel bacteriocin from a virulent Clostridium perfringens strain

Leen TimbermontLina De SmetAnouk LanckrietFilip Van NieuwerburghValeria R ParreiraGonzalez Van DriesscheFreddy HaesebrouckRichard DucatelleJohn PrescottDieter Deforce et al.

Relation between the FBN2 haplotype and phenotypical hip dysplasia

Bart BroeckxFrank CoopmanGeert VerhoevenTim BosmansAnn CC CrielIngrid GielenJimmy SaundersSandra SoetaertHenri van BreeWim Van Haeringen et al.

Variations in the exome of the LNCaP prostate cancer cell line

Lien SpansZeynep Kalender AtakFilip Van NieuwerburghDieter DeforceEvelyne LerutStein AertsFrank Claessens

A1 Journal Article in PROSTATE

2011

Directional RNA deep sequencing sheds new light on the transcriptional response of Anabaena sp strain PCC 7120 to combined-nitrogen deprivation

Britt L FlahertyFilip Van NieuwerburghSteven R HeadJames W Golden

A1 Journal Article in BMC GENOMICS

Dissection of the phytohormonal regulation of trichome formation and biosynthesis of the antimalarial compound artemisinin in Artemisia annua plants

Lies MaesFilip Van NieuwerburghYansheng ZhangDarwin W ReedJacob PollierSofie Vande CasteeleDirk InzéPatrick S CovelloDieter DeforceAlain Goossens

A1 Journal Article in NEW PHYTOLOGIST

Fetal microchimeric cells in blood of women with an autoimmune thyroid disease

Trees LepezMado VandewoestyneShahid HussainFilip Van NieuwerburghKris PoppeBrigitte VelkeniersJean KaufmanDieter Deforce

A1 Journal Article in PLOS ONE

Modification of citrulline residues with 2,3-butanedione facilitates their detection by liquid chromatography/mass spectrometry

Marlies De CeuleneerVanessa De WitKatleen Van SteendamFilip Van NieuwerburghKelly TillemanDieter Deforce

A1 Journal Article in RAPID COMMUNICATIONS IN MASS SPECTROMETRY

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

Kim De LeeneerJoachim De SchrijverLieven ClementMachteld BaetensSteve LefeverSarah De KeulenaerWim Van CriekingeDieter DeforceFilip Van NieuwerburghSofie Bekaert et al.

A1 Journal Article in PLOS ONE

Quantitative bias in Illumina TruSeq and a novel post amplification barcoding strategy for multiplexed DNA and small RNA deep sequencing

Filip Van NieuwerburghSandra SoetaertKatie PodshivalovaEileen Ay-Lin WangLana SchafferDieter DeforceDaniel R SalomonSteven R HeadPhillip Ordoukhanian

A1 Journal Article in PLOS ONE

Sources of DNA contamination and decontamination procedures in the forensic laboratory

Mado VandewoestyneDavid Van HoofstatSabine De GrooteNicky Van ThuyneSaskia HaerinckFilip Van NieuwerburghDieter Deforce

A2 Journal Article in INTERNATIONAL JOURNAL OF FORENSIC PRACTICE AND RESEARCH

Transcriptome analysis of apical and sub-apical cells of Artemisia annua trichomes with next-generation-sequencing

Sandra SoetaertFilip Van NieuwerburghPeter BrodeliusAlain GoossensDieter Deforce

Whole genome sequence analysis of Helicobacter heilmannii

Annemieke SmetFilip Van NieuwerburghBram FlahouFrank PasmansDieter DeforceRichard DucatelleFreddy Haesebrouck

2010

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

Joachim De SchrijverKim De LeeneerSteve LefeverNick SabbeFilip PattynFilip Van NieuwerburghPaul CouckeDieter DeforceJo VandesompeleSofie Bekaert et al.

A1 Journal Article in BMC BIOINFORMATICS

Complete nucleotide sequence of CTX-M-15-plasmids from clinical Escherichia coli isolates: insertional events of transposons and insertion sequences

Annemieke SmetFilip Van NieuwerburghTom VandekerckhoveAn MartelDieter DeforcePatrick ButayeFreddy Haesebrouck

A1 Journal Article in PLOS ONE

Compulsivity in mouse strains homologous with chromosomes 7p and 15q linked tot obsessive-compulsive disorder

Martien JH KasCigdem GelegenFilip Van NieuwerburghHerman GM WestenbergDieter DeforceDamiaan Denys

A1 Journal Article in AMERICAN JOURNAL OF MEDICAL GENETICS PART B-NEUROPSYCHIATRIC GENETICS

The role of the COMT Val158Met polymorphism in the phenotypic expression of obsessive-compulsive disorder

Hilga KaterbergDanielle C CathDamiaan AJP DenysPeter HeutinkAnnemiek PolmanFilip Van NieuwerburghDieter DeforceZoltán BochdanovitsAnton JLM van BalkomJohan A den Boer

A1 Journal Article in AMERICAN JOURNAL OF MEDICAL GENETICS PART B-NEUROPSYCHIATRIC GENETICS

2009

Automatic detection of spermatozoa for laser capture microdissection

Mado VandewoestyneDavid Van HoofstatFilip Van NieuwerburghDieter Deforce

A1 Journal Article in INTERNATIONAL JOURNAL OF LEGAL MEDICINE

Impact of allelic dropout on evidential value of forensic DNA profiles

Filip Van NieuwerburghEls GoetghebeurMado VandewoestyneDieter Deforce

A1 Journal Article in BIOINFORMATICS

Metabolite analysis of laser captured apical and subapical cells of Artemisia annua trichomes

Sandra SoetaertFilip Van NieuwerburghSofie Vande CasteeleMikael E OlssonMado VandewoestynePeter E BrodeliusAlain GoossensDieter Deforce

Phytohormonal regulation of gland formation and artemisinin biosynthesis in Artemisia annua

Filip Van NieuwerburghLies MaesSofie Vande CasteeleSandra SoetaertMarc Van MontaguDirk InzéDieter DeforceAlain Goossens

RMNE probability of Forensic DNA profiles with allelic drop-out

Filip Van NieuwerburghEls GoetghebeurMado VandewoestyneDieter Deforce

A2 Journal Article in Forensic science international. Genetics

Response to serotonin reuptake inhibitors in OCD is not influenced by common CYP2D6 polymorphisms

Filip Van NieuwerburghDamiaan DenysHerman WestenbergDieter Deforce

A1 Journal Article in INTERNATIONAL JOURNAL OF PSYCHIATRY IN CLINICAL PRACTICE

Suspension fluorescence in situ hybridization (S-FISH) combined with automatic detection and laser microdissection for STR profiling of male cells in male/female mixtures

Mado VandewoestyneDavid Van HoofstatFilip Van NieuwerburghDieter Deforce

A1 Journal Article in INTERNATIONAL JOURNAL OF LEGAL MEDICINE

2008

Automatic detection of spermatozoa for laser capture microdissection

Mado VandewoestyneDavid Van HoofstatFilip Van NieuwerburghDieter Deforce

Response to paroxetine and venlafaxine in OCD is not determined by common CYP2D6 polymorphisms

Filip Van NieuwerburghD. DenysDieter Deforce

Serotonin Related Genes Affect Antidepressant Treatment in Obsessive-Compulsive Disorder

Filip Van NieuwerburghDieter DeforceD DENYS

A2 Journal Article in Progress in Neurotherapeutics and Neuropsychopharmacology

Serotonin related genes affect antidepressant treatment in obsessive-compulsive disorder

Filip Van NieuwerburghDieter DeforceDamiaan Denys

Bookchapter in Progress in Neurotherapeutics and Neuropsychopharmacology

Shorter CAG repeats in the androgen receptor gene may enhance hyperandrogenicity in polycystic ovary syndrome

Filip Van NieuwerburghDominic StoopPatrick CabriMarc DhontDieter DeforcePetra De Sutter

A1 Journal Article in GYNECOLOGICAL ENDOCRINOLOGY

Shorter CAG repeats in the androgen receptor gene may enhance hyperandrogenicity in polycystic ovary syndrome (PCOS)

Filip Van NieuwerburghDominic StoopPatrick CabriMarc DhontPetra De SutterDieter Deforce

2007

Gene discovery: Polymorphism association with obsessive-compulsive disorder and proteome analysis of Artemisia annua.

Filip Van NieuwerburghD Deforce

Prediction of response to paroxetine and venlafaxine by serotonin-related genes in obsessive-compulsive disorder in a randomized, double-blind trial

Damiaan DenysFilip Van NieuwerburghDieter DeforceHerman GM Westenberg

A1 Journal Article in JOURNAL OF CLINICAL PSYCHIATRY

Virilizing clinical features of PCO patients with normal androgen levels may result from a shorter CAG repeat length of the androgen receptor gene

D STOOPFilip Van NieuwerburghY ZAHNLENKA GALAJDOVAKAATJE DIRCKXP CABRIEVA VERSCHUERENJan GerrisMarc DhontDieter Deforce et al.

2006

Association between serotonergic candidate genes and specific phenotypes of obsessive compulsive disorder

D DENYSFilip Van NieuwerburghDieter DeforceHGM WESTENBERG

A1 Journal Article in JOURNAL OF AFFECTIVE DISORDERS

Association between the dopamine D-2 receptor TaqI A2 allele and low activity COMT allele with obsessive-compulsive disorder in males

D DENYSFilip Van NieuwerburghDieter DeforceH WESTENBERG

A1 Journal Article in EUROPEAN NEUROPSYCHOPHARMACOLOGY

Development and evaluation of different normalization strategies for gene expression studies in Candida albicans biofilms by real-time PCR

Heleen NailisTom CoenyeFilip Van NieuwerburghDieter DeforceHans Nelis

A1 Journal Article in BMC MOLECULAR BIOLOGY

Quantitation of artemisinin and its biosynthetic precursors in Artemisia annua L. by high performance liquid chromatography - electrospray quadrupole time-of-flight tandem mass spectrometry

Filip Van NieuwerburghSofie Vande CasteeleLies MaesAlain GoossensDirk InzéJan Van BocxlaerDieter Deforce

A1 Journal Article in JOURNAL OF CHROMATOGRAPHY A

2005

Prediction of response to paroxetine and venlafaxine by serotonin related genes in obsessive-compulsive disorder

Damiaan DenysFilip Van NieuwerburghDieter DeforceHerman Westenberg