MEME Suite

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Timothy BaileyUniversity of Nevada, RenoVerified email at unr.edu
William Stafford NobleProfessor of Genome Sciences, University of WashingtonVerified email at uw.edu
Charles E. GrantUniversity of WashingtonVerified email at uw.edu
Charles ElkanProfessor of Computer Science, University of California, San DiegoVerified email at ucsd.edu
Mikael BodenThe University of QueenslandVerified email at uq.edu.au
Wilfred W. LiUniversity 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
Tom WhitingtonSchibstedVerified email at schibsted.com
Michael E. BakerResearch Professor, University of California, San DiegoVerified email at ucsd.edu
Neil SaundersVerified email at curtin.edu.au
Bostjan KobeProfessor of Structural Biology, The University of QueenslandVerified email at uq.edu.au
Wenxiu MaUniversity of California, RiversideVerified email at ucr.edu
Denis C. BauerCSIRO eHealth - Biomedical Informatics Group - Transformational Bioinformatics TeamVerified email at csiro.au
Gabriel Cuellar PartidaGilead SciencesVerified email at gilead.com
Tom LesluyesIUCT Oncopole (Toulouse, France)Verified email at iuct-oncopole.fr
Michael M. HoffmanChair and Senior Scientist, University Health Network/Associate Professor, University of TorontoVerified email at utoronto.ca
Coby VinerGraduate Student, Department of Computer Science, University of TorontoVerified email at cs.toronto.edu

MEME Suite

Motif-based sequence analysis software

Verified email at uw.edu - Homepage

Computational biology


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
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	9284	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	6159	1994
FIMO: scanning for occurrences of a given motif CE Grant, TL Bailey, WS Noble Bioinformatics 27 (7), 1017-1018, 2011	3747	2011
The MEME suite TL Bailey, J Johnson, CE Grant, WS Noble Nucleic acids research 43 (W1), W39-W49, 2015	2804	2015
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	2750	2006
Quantifying similarity between motifs S Gupta, JA Stamatoyannopoulos, TL Bailey, WS Noble Genome biology 8, 1-9, 2007	1922	2007
MEME-ChIP: motif analysis of large DNA datasets P Machanick, TL Bailey Bioinformatics 27 (12), 1696-1697, 2011	1693	2011
Combining evidence using p-values: application to sequence homology searches. TL Bailey, M Gribskov Bioinformatics (Oxford, England) 14 (1), 48-54, 1998	1458	1998
DREME: motif discovery in transcription factor ChIP-seq data TL Bailey Bioinformatics 27 (12), 1653-1659, 2011	1163	2011
Unsupervised learning of multiple motifs in biopolymers using expectation maximization TL Bailey, C Elkan Machine learning 21, 51-80, 1995	978	1995
The value of prior knowledge in discovering motifs with MEME. TL Bailey, C Elkan Ismb 3, 21-29, 1995	925	1995
Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data RC McLeay, TL Bailey BMC bioinformatics 11, 1-11, 2010	633	2010
Inferring direct DNA binding from ChIP-seq TL Bailey, P Machanick Nucleic Acids Research 40 (17), e128-e128, 2012	502	2012
Discovering sequence motifs with arbitrary insertions and deletions MC Frith, NFW Saunders, B Kobe, TL Bailey PLoS computational biology 4 (5), e1000071, 2008	391	2008
STREME: accurate and versatile sequence motif discovery TL Bailey Bioinformatics 37 (18), 2834-2840, 2021	321	2021
Meta-MEME: motif-based hidden Markov models of protein families WN Grundy, TL Bailey, CP Elkan, ME Baker Bioinformatics 13 (4), 397-406, 1997	277	1997
Motif-based analysis of large nucleotide data sets using MEME-ChIP W Ma, WS Noble, TL Bailey Nature protocols 9 (6), 1428-1450, 2014	219	2014
Assigning roles to DNA regulatory motifs using comparative genomics FA Buske, M Bodén, DC Bauer, TL Bailey Bioinformatics 26 (7), 860-866, 2010	199	2010
Searching for statistically significant regulatory modules TL Bailey, WS Noble Bioinformatics-Oxford 19 (2), 16-25, 2003	185	2003
Proceedings: Second international conference on intelligent systems for molecular biology R Altman, D Brutlag, P Karp, R Lathrop, D Searls Stanford Univ., CA (United States), 1994	178	1994

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