Thomas Abeel

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Ashlee EarlBroad Institute of MIT & HarvardVerified email at broadinstitute.org
Yves Van de PeerProfessor in Bioinformatics and Genome Biology, Ghent University, BelgiumVerified email at psb.ugent.be
Yvan SaeysVIB - Ghent UniversityVerified email at ugent.be
Abigail L. MansonBroad Institute of MIT and HarvardVerified email at broadinstitute.org
Alex N. SalazarPhD Candidate, Delft University of TechnologyVerified email at tudelft.nl
Jennifer WortmanVice President, Clinical Discovery and Research Technologies, Seres TherapeuticsVerified email at serestherapeutics.com
Christina A. CuomoBrown UniversityVerified email at brown.edu
Pierre RouzéVIB Plant Systems Biology, U. Ghent, ,BelgiumVerified email at psb.ugent.be
James GalaganAssociate Professor, Boston UniversityVerified email at bu.edu
A PymAfrica Health Research Institute (AHRI)Verified email at wellcome.org
Thies GehrmannPostDoc, University of AntwerpenVerified email at lumc.nl
Max O'DonnellColumbia University Medical CenterVerified email at columbia.edu
Pierre DupontProfessor of Computer Science, ICTEAM, EPL, Université catholique de LouvainVerified email at uclouvain.be
Geoff MacintyreComputational Oncology Group Leader, CNIO, Madrid, SpainVerified email at cnio.es
Jeremy ZuckerPacific Northwest National LaboratoryVerified email at pnnl.gov
Ken S HeyndrickxInari AgricultureVerified email at inari.com
Klaas VandepoeleFull Professor, Ghent University - Group leader VIB Center for Plant Systems BiologyVerified email at psb.vib-ugent.be
Dirk InzeHoogleraar plantenbiotechnologie, Universiteit GentVerified email at psb.ugent.be
Jelle Van LeeneUniversiteit Gent/Vlaams Instituut BiotechnologieVerified email at psb.vib-ugent.be
Sofie Van LandeghemFreelance NLP & ML expertVerified email at oxykodit.com

Thomas Abeel

Associate Professor at TU Delft - Visiting Scientist at Broad Institute of MIT and Harvard

Verified email at broadinstitute.org - Homepage

Sequence analysis microbial genomics machine learning


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Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement BJ Walker, T Abeel, T Shea, M Priest, A Abouelliel, S Sakthikumar, ... PloS one 9 (11), e112963, 2014	7547	2014
Robust feature selection using ensemble feature selection techniques Y Saeys, T Abeel, Y Van de Peer Machine Learning and Knowledge Discovery in Databases: European Conference …, 2008	900	2008
Robust biomarker identification for cancer diagnosis with ensemble feature selection methods T Abeel, T Helleputte, Y Van de Peer, P Dupont, Y Saeys Bioinformatics 26 (3), 392-398, 2010	745	2010
The Mycobacterium tuberculosis regulatory network and hypoxia JE Galagan, K Minch, M Peterson, A Lyubetskaya, E Azizi, L Sweet, ... Nature 499 (7457), 178-183, 2013	487	2013
Computational pan-genomics: status, promises and challenges Briefings in bioinformatics 19 (1), 118-135, 2018	352	2018
Evolution of Extensively Drug-Resistant Tuberculosis over Four Decades: Whole Genome Sequencing and Dating Analysis of Mycobacterium tuberculosis Isolates … KA Cohen, T Abeel, A Manson McGuire, CA Desjardins, V Munsamy, ... PLoS medicine 12 (9), e1001880, 2015	315	2015
Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance AL Manson, KA Cohen, T Abeel, CA Desjardins, DT Armstrong, ... Nature genetics 49 (3), 395-402, 2017	305	2017
Generic eukaryotic core promoter prediction using structural features of DNA T Abeel, Y Saeys, E Bonnet, P Rouzé, Y Van de Peer Genome research 18 (2), 310-323, 2008	250	2008
ANGUSTIFOLIA3 Binds to SWI/SNF Chromatin Remodeling Complexes to Regulate Transcription during Arabidopsis Leaf Development L Vercruyssen, A Verkest, N Gonzalez, KS Heyndrickx, D Eeckhout, ... The Plant Cell 26 (1), 210-229, 2014	228	2014
Java-ml: A machine learning library T Abeel, Y Van de Peer, Y Saeys Journal of Machine Learning Research 10, 931-934, 2009	196	2009
Genomic and functional analyses of Mycobacterium tuberculosis strains implicate ald in D-cycloserine resistance CA Desjardins, KA Cohen, V Munsamy, T Abeel, K Maharaj, BJ Walker, ... Nature genetics 48 (5), 544-551, 2016	195	2016
ORCAE: online resource for community annotation of eukaryotes L Sterck, K Billiau, T Abeel, P Rouze, Y Van de Peer Nature methods 9 (11), 1041-1041, 2012	180	2012
GenomeView: a next-generation genome browser T Abeel, T Van Parys, Y Saeys, J Galagan, Y Van de Peer Nucleic Acids Research 40 (2), e12-e12, 2012	164	2012
Comparative and Functional Genomics of Rhodococcus opacus PD630 for Biofuels Development JW Holder, JC Ulrich, AC DeBono, PA Godfrey, CA Desjardins, J Zucker, ... PLoS Genetics 7 (9), e1002219, 2011	152	2011
Deciphering drug resistance in Mycobacterium tuberculosis using whole-genome sequencing: progress, promise, and challenges KA Cohen, AL Manson, CA Desjardins, T Abeel, AM Earl Genome medicine 11 (1), 45, 2019	143	2019
Comparative analysis of mycobacterium and related actinomycetes yields insight into the evolution of mycobacterium tuberculosis pathogenesis AM McGuire, B Weiner, ST Park, I Wapinski, S Raman, G Dolganov, ... BMC genomics 13, 1-27, 2012	113	2012
Evolution of Invasion in a Diverse Set of Fusobacterium Species A Manson McGuire, K Cochrane, AD Griggs, BJ Haas, T Abeel, Q Zeng, ... MBio 5 (6), 10.1128/mbio. 01864-14, 2014	108*	2014
ProSOM: core promoter prediction based on unsupervised clustering of DNA physical profiles T Abeel, Y Saeys, P Rouzé, Y Van de Peer Bioinformatics 24 (13), i24-i31, 2008	105	2008
Toward a gold standard for promoter prediction evaluation T Abeel, Y Van de Peer, Y Saeys Bioinformatics 25 (12), i313-i320, 2009	103	2009
Computational methods for strain-level microbial detection in colony and metagenome sequencing data C Anyansi, TJ Straub, AL Manson, AM Earl, T Abeel Frontiers in Microbiology 11, 1925, 2020	100	2020

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