Timothy Bailey

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William Stafford NobleProfessor of Genome Sciences, University of WashingtonVerified email at uw.edu
Mikael BodenThe University of QueenslandVerified email at uq.edu.au
Charles E. GrantUniversity of WashingtonVerified email at uw.edu
Charles ElkanProfessor of Computer Science, University of California, San DiegoVerified email at ucsd.edu
Martin FrithNational Institute of Advanced Industrial Science and Technology (AIST), University of TokyoVerified email at edu.k.u-tokyo.ac.jp
Fabian A. BuskeGarvan Institute of Medical ResearchVerified email at garvan.org.au
Michael GribskovPurdue UniversityVerified email at purdue.edu
Philip MachanickDepartment of Computer Science, Rhodes University, South Africa – https://orcid.org/0000-0001-6648Verified email at ru.ac.za
Andrew PerkinsProfessor of Cancer GenomicsVerified email at monash.edu
Denis C. BauerCSIRO eHealth - Biomedical Informatics Group - Transformational Bioinformatics TeamVerified email at csiro.au
Graziano PesoleProfessor of Molecular Biology, Università degli Studi di Bari and National Research CouncilVerified email at uniba.it
Richard GronostajskiUniversity At BuffaloVerified email at buffalo.edu
Michael E. BakerResearch Professor, University of California, San DiegoVerified email at ucsd.edu
George ChurchHarvard Medical SchoolVerified email at harvard.edu
Eleazar EskinUniversity of California, Los AngelesVerified email at cs.ucla.edu
Giulio PavesiAssociate Professor of Computer Science (Bioinformatics), University of Milano, ItalyVerified email at unimi.it
De Moor BartKU Leuven ESAT-StadiusVerified email at esat.kuleuven.be
Carninci PieroRIKEN IMS (Yokohama, JP) and Human Technopole (Milan, IT)Verified email at postman.riken.jp
Prof. Sean M. GrimmondThe University of Melbourne Centre for Cancer ResearchVerified email at unimelb.edu.au
Wilfred W. LiUniversity of California, San DiegoVerified email at ucsd.edu

Timothy Bailey

University of Nevada, Reno

Verified email at unr.edu - Homepage

Bioinformatics


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MEME Suite: tools for motif discovery and searching TL Bailey, M Boden, FA Buske, M Frith, CE Grant, L Clementi, J Ren, ... Nucleic acids research 37 (suppl_2), W202-W208, 2009	5892	2009
Fitting a mixture model by expectation maximization to discover motifs in bipolymers TL Bailey, C Elkan Department of Computer Science and Engineering, University of California …, 1994	5266	1994
The transcriptional landscape of the mammalian genome P Carninci, T Kasukawa, S Katayama, J Gough, MC Frith, N Maeda, ... Science 309 (5740), 1559-1563, 2005	3577	2005
FIMO: scanning for occurrences of a given motif CE Grant, TL Bailey, WS Noble Bioinformatics 27 (7), 1017-1018, 2011	2305	2011
MEME: discovering and analyzing DNA and protein sequence motifs TL Bailey, N Williams, C Misleh, WW Li Nucleic acids research 34 (suppl_2), W369-W373, 2006	2172	2006
Assessing computational tools for the discovery of transcription factor binding sites M Tompa, N Li, TL Bailey, GM Church, B De Moor, E Eskin, AV Favorov, ... Nature biotechnology 23 (1), 137-144, 2005	1510	2005
Quantifying similarity between motifs S Gupta, JA Stamatoyannopoulos, TL Bailey, WS Noble Genome biology 8 (2), 1-9, 2007	1324	2007
Combining evidence using p-values: application to sequence homology searches. TL Bailey, M Gribskov Bioinformatics (Oxford, England) 14 (1), 48-54, 1998	1284	1998
MEME-ChIP: motif analysis of large DNA datasets P Machanick, TL Bailey Bioinformatics 27 (12), 1696-1697, 2011	1151	2011
Unsupervised learning of multiple motifs in biopolymers using expectation maximization TL Bailey, C Elkan Machine learning 21 (1), 51-80, 1995	911	1995
DREME: motif discovery in transcription factor ChIP-seq data TL Bailey Bioinformatics 27 (12), 1653-1659, 2011	888	2011
The value of prior knowledge in discovering motifs with MEME. TL Bailey, C Elkan Ismb 3, 21-29, 1995	845	1995
The MEME suite TL Bailey, J Johnson, CE Grant, WS Noble Nucleic acids research 43 (W1), W39-W49, 2015	822	2015
Defining the RGG/RG motif P Thandapani, TR O’Connor, TL Bailey, S Richard Molecular cell 50 (5), 613-623, 2013	383	2013
Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data RC McLeay, TL Bailey BMC bioinformatics 11 (1), 1-11, 2010	378	2010
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line H Suzuki, ARR Forrest, E Van Nimwegen, CO Daub, PJ Balwierz, ... Nature genetics 41 (5), 553, 2009	354	2009
Inferring direct DNA binding from ChIP-seq TL Bailey, P Machanick Nucleic acids research 40 (17), e128-e128, 2012	353	2012
Statistical confidence estimation for Hi-C data reveals regulatory chromatin contacts F Ay, TL Bailey, WS Noble Genome research 24 (6), 999-1011, 2014	325	2014
Discovering sequence motifs with arbitrary insertions and deletions MC Frith, NFW Saunders, B Kobe, TL Bailey PLoS Comput Biol 4 (5), e1000071, 2008	319	2008
Practical guidelines for the comprehensive analysis of ChIP-seq data T Bailey, P Krajewski, I Ladunga, C Lefebvre, Q Li, T Liu, P Madrigal, ... PLoS Comput Biol 9 (11), e1003326, 2013	283	2013

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