Jo Vandesompele

Jo Vandesompele

UNVERIFIED PROFILE

Are you Jo Vandesompele?   Register this Author

Register author
Jo Vandesompele

Jo Vandesompele

Publications by authors named "Jo Vandesompele"

Are you Jo Vandesompele?   Register this Author

100Publications

3350Reads

5Profile Views

SMARTer single cell total RNA sequencing.

Nucleic Acids Res 2019 09;47(16):e93

Center for Medical Genetics, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkz535DOI Listing
September 2019

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

J Neurosci Methods 2019 May 5;320:128-137. Epub 2019 Mar 5.

Laboratory of Neurochemistry and Behavior, Institute Born-Bunge, University of Antwerp, Universiteitsplein 1, BE-2610 Wilrijk, Belgium; Department of Neurology and Alzheimer Center, University Medical Center Groningen (UMCG), Hanzeplein 1, 9713 GZ Groningen, the Netherlands; Department of Neurology and Memory Clinic, Hospital Network Antwerp (ZNA) Middelheim and Hoge Beuken, Lindendreef 1, BE-2020 Antwerp, Belgium; Biobank, Institute Born-Bunge, University of Antwerp, Universiteitsplein 1, BE-2610 Antwerp, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.jneumeth.2019.03.005DOI Listing
May 2019

Long noncoding RNA expression profiling in cancer: Challenges and opportunities.

Genes Chromosomes Cancer 2019 04 20;58(4):191-199. Epub 2019 Jan 20.

Center for Medical Genetics Ghent (CMGG), Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/gcc.22709DOI Listing
April 2019

On determining the power of digital PCR experiments.

Anal Bioanal Chem 2018 Sep 30;410(23):5731-5739. Epub 2018 Jun 30.

Department of Data Analysis and Mathematical Modelling, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s00216-018-1212-6DOI Listing
September 2018

MicroRNA Expression Analysis Using Small RNA Sequencing Discovery and RT-qPCR-Based Validation.

Methods Mol Biol 2017 ;1654:197-208

Center for Medical Genetics, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-7231-9_13DOI Listing
June 2018

Computational deconvolution of transcriptomics data from mixed cell populations.

Bioinformatics 2018 06;34(11):1969-1979

Center for Medical Genetics Ghent (CMGG), Ghent University, 9000 Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/bty019DOI Listing
June 2018

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

Noncoding RNA Res 2018 Jun 23;3(2):64-74. Epub 2018 May 23.

Center for Medical Genetics, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ncrna.2018.05.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6096408PMC
June 2018

Quality control of digital PCR assays and platforms.

Anal Bioanal Chem 2017 Oct 10;409(25):5919-5931. Epub 2017 Aug 10.

Department of Mathematical Modelling, Statistics and Bioinformatics, Ghent University, Coupure Links 653, 9000, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s00216-017-0538-9DOI Listing
October 2017

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

PLoS One 2017 17;12(8):e0182832. Epub 2017 Aug 17.

Department of Mathematical Modelling, Statistics and Bioinformatics, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0182832PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5560691PMC
October 2017

High-throughput PCR assay design for targeted resequencing using primerXL.

BMC Bioinformatics 2017 Sep 6;18(1):400. Epub 2017 Sep 6.

Center for Medical Genetics, Ghent University, De Pintelaan 185, 9000, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12859-017-1809-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5588703PMC
September 2017

Reply: Direct Detection of Circulating MicroRNAs Unveiled the Absence of MicroRNA-218-5p in Smoker Subjects.

Am J Respir Crit Care Med 2017 08;196(4):533

1 Ghent University Hospital Ghent, Belgium and.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1164/rccm.201701-0224LEDOI Listing
August 2017

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

Diabetologia 2017 06 31;60(6):1114-1125. Epub 2017 Mar 31.

IRCCS - Istituto di Ricerche Farmacologiche Mario Negri, Centro Anna Maria Astori, Science and Technology Park Kilometro Rosso, Via Stezzano 87, 24126, Bergamo, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s00125-017-4248-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5423990PMC
June 2017

Long non-coding RNAs in cutaneous melanoma: clinical perspectives.

Oncotarget 2017 Jun;8(26):43470-43480

Center for Medical Genetics, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.18632/oncotarget.16478DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5522162PMC
June 2017

Zipper plot: visualizing transcriptional activity of genomic regions.

BMC Bioinformatics 2017 May 2;18(1):231. Epub 2017 May 2.

Center for Medical Genetics, Ghent University, De Pintelaan 185, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12859-017-1651-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5414305PMC
May 2017

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

Nucleic Acids Res 2017 04;45(7):e51

Research Unit Knowledge-based Systems (KERMIT), Department of Mathematical Modeling, Statistics and Bioinformatics, Ghent University, B-9000 Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkw1260DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5397177PMC
April 2017

Model-Based Classification for Digital PCR: Your Umbrella for Rain.

Anal Chem 2017 04 7;89(8):4461-4467. Epub 2017 Apr 7.

Department of Applied Mathematics, Computer Science and Statistics, Ghent University , Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1021/acs.analchem.6b04208DOI Listing
April 2017

Influence of microRNAs and Long Non-Coding RNAs in Cancer Chemoresistance.

Genes (Basel) 2017 Mar 3;8(3). Epub 2017 Mar 3.

Center for Medical Genetics Ghent, Ghent University, Ghent 9000, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3390/genes8030095DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5368699PMC
March 2017

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

Authors:
Jan Van Deun Pieter Mestdagh Patrizia Agostinis Özden Akay Sushma Anand Jasper Anckaert Zoraida Andreu Martinez Tine Baetens Els Beghein Laurence Bertier Geert Berx Janneke Boere Stephanie Boukouris Michel Bremer Dominik Buschmann James B Byrd Clara Casert Lesley Cheng Anna Cmoch Delphine Daveloose Eva De Smedt Seyma Demirsoy Victoria Depoorter Bert Dhondt Tom A P Driedonks Aleksandra Dudek Abdou Elsharawy Ilaria Floris Andrew D Foers Kathrin Gärtner Abhishek D Garg Edward Geeurickx Jan Gettemans Farzaneh Ghazavi Bernd Giebel Tom Groot Kormelink Grace Hancock Hetty Helsmoortel Andrew F Hill Vincent Hyenne Hina Kalra David Kim Joanna Kowal Sandra Kraemer Petra Leidinger Carina Leonelli Yaxuan Liang Lien Lippens Shu Liu Alessandra Lo Cicero Shaun Martin Suresh Mathivanan Prabhu Mathiyalagan Támas Matusek Gloria Milani Marta Monguió-Tortajada Liselot M Mus Dillon C Muth Andrea Németh Esther N M Nolte-'t Hoen Lorraine O'Driscoll Roberta Palmulli Michael W Pfaffl Bjarke Primdal-Bengtson Erminia Romano Quentin Rousseau Susmita Sahoo Natalia Sampaio Monisha Samuel Benjamin Scicluna Bieke Soen Anneleen Steels Johannes V Swinnen Maarit Takatalo Safia Thaminy Clotilde Théry Joeri Tulkens Isabel Van Audenhove Susanne van der Grein Alan Van Goethem Martijn J van Herwijnen Guillaume Van Niel Nadine Van Roy Alexander R Van Vliet Niels Vandamme Suzanne Vanhauwaert Glenn Vergauwen Frederik Verweij Annelynn Wallaert Marca Wauben Kenneth W Witwer Marijke I Zonneveld Olivier De Wever Jo Vandesompele An Hendrix

Nat Methods 2017 02;14(3):228-232

Laboratory of Experimental Cancer Research, Department of Radiation Oncology and Experimental Cancer Research, Cancer Research Institute Ghent (CRIG), Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nmeth.4185DOI Listing
February 2017

MicroRNA Profiling Reveals a Role for MicroRNA-218-5p in the Pathogenesis of Chronic Obstructive Pulmonary Disease.

Am J Respir Crit Care Med 2017 01;195(1):43-56

1 Laboratory for Translational Research in Obstructive Pulmonary Diseases, Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1164/rccm.201506-1182OCDOI Listing
January 2017

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

Database (Oxford) 2017 01;2017

Center for Medical Genetics Ghent (CMGG), Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/database/bax042DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5502368PMC
January 2017

Flexible analysis of digital PCR experiments using generalized linear mixed models.

Biomol Detect Quantif 2016 Sep 24;9:1-13. Epub 2016 Jun 24.

Department of Mathematical Modelling, Statistics and Bioinformatics, Ghent University, Coupure Links 653, 9000 Ghent, Belgium; National Institute for Applied Statistics Research Australia (NIASRA), University of Wollongong, NSW 2522, Australia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.bdq.2016.06.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4983648PMC
September 2016

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

Eur J Clin Invest 2016 Mar 21;46(3):213-26. Epub 2016 Jan 21.

Department of Internal Medicine IV - Nephrology and Hypertension, Medical University Innsbruck, Innsbruck, Austria.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/eci.12585DOI Listing
March 2016

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

Sci Data 2016 Feb 2;3:160004. Epub 2016 Feb 2.

Center for Medical Genetics, Ghent University Hospital, De Pintelaan 185, Ghent 9000, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/sdata.2016.4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4736656PMC
February 2016

Targeted resequencing and variant validation using pxlence PCR assays.

Biomol Detect Quantif 2016 Jan 9;6:22-6. Epub 2015 Oct 9.

Center for Medical Genetics, Ghent University, Ghent, Belgium; pxlence, Dendermonde, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.bdq.2015.09.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4822215PMC
January 2016

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

Methods Mol Biol 2015 ;1296:85-102

Center for Medical Genetics, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-2547-6_9DOI Listing
December 2015

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

Int J Cancer 2015 Aug 20;137(4):868-77. Epub 2015 Feb 20.

Translational Cancer Research, Department of Laboratory Medicine, Lund University, Lund, Sweden.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/ijc.29461DOI Listing
August 2015

Non-coding RNAs in the pathogenesis of COPD.

Thorax 2015 Aug 20;70(8):782-91. Epub 2015 May 20.

Laboratory for Translational Research in Obstructive Pulmonary Diseases, Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1136/thoraxjnl-2014-206560DOI Listing
August 2015

RNA expression signatures and posttranscriptional regulation in diabetic nephropathy.

Nephrol Dial Transplant 2015 Aug;30 Suppl 4:iv35-42

Biogazelle, Zwijnaarde, Ghent, Belgium.

View Article

Download full-text PDF

Source
https://ndt.oxfordjournals.org/content/30/suppl_4/iv35.full.
Web Search
http://dx.doi.org/10.1093/ndt/gfv079DOI Listing
August 2015

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

Cancer Cell Int 2015 30;15:76. Epub 2015 Jul 30.

Center for Medical Genetics, Ghent University, De Pintelaan 185, 9000 Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12935-015-0224-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4518532PMC
July 2015

RDML-Ninja and RDMLdb for standardized exchange of qPCR data.

BMC Bioinformatics 2015 Jun 20;16:197. Epub 2015 Jun 20.

Genomics Core Facility, European Molecular Biology Laboratory, Heidelberg, 69117, Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12859-015-0637-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4474546PMC
June 2015

MiR-34a deficiency accelerates medulloblastoma formation in vivo.

Int J Cancer 2015 May 25;136(10):2293-303. Epub 2014 Nov 25.

Department of Pediatric Oncology and Hematology, University Children's Hospital Essen, Hufelandstr. 55 45147, Essen, Germany; German Cancer Consortium (DKTK), Heidelberg, Germany; German Cancer Research Center (DKFZ), D-69120, Heidelberg, Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/ijc.29294DOI Listing
May 2015

Identification of miRNAs contributing to neuroblastoma chemoresistance.

Comput Struct Biotechnol J 2015 29;13:307-19. Epub 2015 Apr 29.

Center for Medical Genetics Ghent, Ghent University Hospital, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.csbj.2015.04.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4427660PMC
May 2015

Non-coding RNAs and respiratory disease.

Thorax 2015 Apr 5;70(4):388-90. Epub 2014 Nov 5.

Tumor Immunology Laboratory, Department of Respiratory Medicine, Ghent University Hospital, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1136/thoraxjnl-2014-206404DOI Listing
April 2015

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

Int J Cancer 2015 Mar 5;136(6):1308-20. Epub 2014 Aug 5.

Department of Pediatric Oncology and Hematology, University Children's Hospital Essen, Essen, Germany; German Cancer Consortium (DKTK), Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/ijc.29091DOI Listing
March 2015

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

Nucleic Acids Res 2015 Jan 5;43(Database issue):D174-80. Epub 2014 Nov 5.

Center for Medical Genetics, Ghent University, Ghent 9000, Belgium

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gku1060DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383901PMC
January 2015

Selection of reliable reference genes for RT-qPCR analysis.

Methods Mol Biol 2014 ;1160:19-26

Biogazelle, Technologiepark 3, 9052, Zwijnaarde, Belgium,

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-0733-5_3DOI Listing
December 2014

Lung tumours reprogram pulmonary dendritic cell immunogenicity at the microRNA level.

Int J Cancer 2014 Dec 14;135(12):2868-77. Epub 2014 May 14.

Department of Respiratory Medicine, Tumor Immunology Laboratory, Ghent University Hospital, Ghent, Belgium; VIB Inflammation Research Center, Ghent, Belgium; Department of Respiratory Medicine, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/ijc.28945DOI Listing
December 2014

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

J Extracell Vesicles 2014 18;3. Epub 2014 Sep 18.

Laboratory of Experimental Cancer Research, Department of Radiation Oncology and Experimental Cancer Research, Ghent University Hospital, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3402/jev.v3.24858DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4169610PMC
October 2014

Early targets of miR-34a in neuroblastoma.

Mol Cell Proteomics 2014 Aug 9;13(8):2114-31. Epub 2014 Jun 9.

From the ‡Centro di Ingegneria Genetica e Biotecnologie Avanzate (CEINGE), 80145 Naples, Italy; §Dipartimento di Medicina Molecolare e Biotecnologie Mediche, Università Federico II, 80131 Naples, Italy; ‖‖Centro di Medicina Trasfusionale, Azienda Ospedaliera Federico II, 80131 Naples, Italy

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1074/mcp.M113.035808DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4125741PMC
August 2014

Illumina sequencing of 15 deafness genes using fragmented amplicons.

BMC Res Notes 2014 Aug 9;7:509. Epub 2014 Aug 9.

Laboratory for Pharmaceutical Biotechnology, Ghent University, Ottergemsesteenweg 460, Ghent 9000, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1756-0500-7-509DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4266979PMC
August 2014

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

Cancer Lett 2014 Mar 18;344(2):157-65. Epub 2013 Nov 18.

Center for Medical Genetics, Ghent University Hospital, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.canlet.2013.11.002DOI Listing
March 2014

Target enrichment using parallel nanoliter quantitative PCR amplification.

BMC Genomics 2014 Mar 10;15:184. Epub 2014 Mar 10.

Center of Medical Genetics Ghent, Ghent University, Ghent, Belgium.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2164-15-184DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4234423PMC
March 2014

The need for transparency and good practices in the qPCR literature.

Nat Methods 2013 Nov;10(11):1063-7

Postgraduate Medical Institute, Anglia Ruskin University, Chelmsford, UK.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nmeth.2697DOI Listing
November 2013