Timothy L. Bailey

54 papers A* 1A 3B 2C 2Journal 45
YearRankTypeTitle / Venue / Authors
2021 J jnl
STREME: accurate and versatile sequence motif discovery.
Bioinform.
Timothy L. Bailey
2020 J jnl
T-Gene: improved target gene prediction.
Bioinform.
Timothy O'Connor, Charles E. Grant, Mikael Bodén, Timothy L. Bailey
2019 J jnl
MoMo: discovery of statistically significant post-translational modification motifs.
Bioinform.
Alice Cheng, Charles E. Grant, William S. Noble, Timothy L. Bailey
2016 J jnl
MCAST: scanning for
Bioinform.
Charles E. Grant, James Johnson, Timothy L. Bailey, William Stafford Noble
2015 J jnl
The MEME Suite.
Nucleic Acids Res.
Timothy L. Bailey, James Johnson, Charles E. Grant, William S. Noble
2014 J jnl
GT-Scan: identifying unique genomic targets.
Bioinform.
Aidan O'Brien, Timothy L. Bailey
2014 J jnl
Improving MEME via a two-tiered significance analysis.
Bioinform.
Emi Tanaka, Timothy L. Bailey, Uri Keich
2013 J jnl
DLocalMotif: a discriminative approach for discovering local motifs in protein sequences.
Bioinform.
Ahmed M. Mehdi, Muhammad Shoaib B. Sehgal, Bostjan Kobe, Timothy L. Bailey, Mikael Bodén
2013 J jnl
Triplex-Inspector: an analysis tool for triplex-mediated targeting of genomic loci.
Bioinform.
Fabian A. Buske, Denis C. Bauer, John S. Mattick, Timothy L. Bailey
2012 J jnl
Epigenetic priors for identifying active transcription factor binding sites.
Bioinform.
Gabriel Cuéllar-Partida, Fabian A. Buske, Robert C. McLeay, Tom Whitington, William Stafford Noble, Timothy L. Bailey
2012 J jnl
Genome-wide
Bioinform.
Robert C. McLeay, Tom Lesluyes, Gabriel Cuéllar-Partida, Timothy L. Bailey
2012 J jnl
Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study.
BMC Bioinform.
Lei Sun, Zhihua Zhang, Timothy L. Bailey, Andrew C. Perkins, Michael R. Tallack, Zhao Xu, Hui Liu
2011 J jnl
A probabilistic model of nuclear import of proteins.
Bioinform.
Ahmed M. Mehdi, Muhammad Shoaib B. Sehgal, Bostjan Kobe, Timothy L. Bailey, Mikael Bodén
2011 J jnl
DREME: motif discovery in transcription factor ChIP-seq data.
Bioinform.
Timothy L. Bailey
2011 J jnl
FIMO: scanning for occurrences of a given motif.
Bioinform.
Charles E. Grant, Timothy L. Bailey, William Stafford Noble
2011 J jnl
Improved similarity scores for comparing motifs.
Bioinform.
Emi Tanaka, Timothy L. Bailey, Charles E. Grant, William Stafford Noble, Uri Keich
2011 J jnl
MEME-ChIP: motif analysis of large DNA datasets.
Bioinform.
Philip Machanick, Timothy L. Bailey
2011 J jnl
Sorting the nuclear proteome.
Bioinform.
Denis C. Bauer, Kai Willadsen, Fabian A. Buske, Kim-Anh Lê Cao, Timothy L. Bailey, Graham Dellaire, Mikael Bodén
2011 J jnl
Tissue-specific prediction of directly regulated genes.
Bioinform.
Robert C. McLeay, Chris J. Leat, Timothy L. Bailey
2010 J jnl
A Bayesian Network Model of Proteins' Association with Promyelocytic Leukemia (PML) Nuclear Bodies.
J. Comput. Biol.
Mikael Bodén, Graham Dellaire, Kevin Burrage, Timothy L. Bailey
2010 J jnl
Assigning roles to DNA regulatory motifs using comparative genomics.
Bioinform.
Fabian A. Buske, Mikael Bodén, Denis C. Bauer, Timothy L. Bailey
2010 J jnl
Dual-functioning transcription factors in the developmental gene network of
BMC Bioinform.
Denis C. Bauer, Fabian A. Buske, Timothy L. Bailey
2010 C conf
Improved prediction of transcription binding sites from chromatin modification data.
CIBCB
Kengo Sato, Tom Whitington, Timothy L. Bailey, Paul Horton
2010 J jnl
Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data.
BMC Bioinform.
Robert C. McLeay, Timothy L. Bailey
2010 J jnl
Predicting SUMOylation sites in developmental transcription factors of Drosophila melanogaster.
Neurocomputing
Denis C. Bauer, Fabian A. Buske, Timothy L. Bailey, Mikael Bodén
2010 J jnl
The value of position-specific priors in motif discovery using MEME.
BMC Bioinform.
Timothy L. Bailey, Mikael Bodén, Tom Whitington, Philip Machanick
2009 J jnl
Assessing phylogenetic motif models for predicting transcription factor binding sites.
Bioinform.
John Hawkins, Charles E. Grant, William Stafford Noble, Timothy L. Bailey
2009 J jnl
MEME SUITE: tools for motif discovery and searching.
Nucleic Acids Res.
Timothy L. Bailey, Mikael Bodén, Fabian A. Buske, Martin C. Frith, Charles E. Grant, Luca Clementi, Jingyuan Ren, Wilfred W. Li, William Stafford Noble
2009 J jnl
Optimizing static thermodynamic models of transcriptional regulation.
Bioinform.
Denis C. Bauer, Timothy L. Bailey
2008 J jnl
Discovering Sequence Motifs with Arbitrary Insertions and Deletions.
PLoS Comput. Biol.
Martin C. Frith, Neil F. W. Saunders, Bostjan Kobe, Timothy L. Bailey
2008 J jnl
STREAM: Static Thermodynamic REgulAtory Model of transcription.
Bioinform.
Denis C. Bauer, Timothy L. Bailey
2008 J jnl
Studying the functional conservation of cis-regulatory modules and their transcriptional output.
BMC Bioinform.
Denis C. Bauer, Timothy L. Bailey
2008 B conf
The Statistical Power of Phylogenetic Motif Models.
RECOMB
John Hawkins, Timothy L. Bailey
2007 J jnl
Discriminative motif discovery in DNA and protein sequences using the DEME algorithm.
BMC Bioinform.
Emma Redhead, Timothy L. Bailey
2006 J jnl
GONOME: measuring correlations between GO terms and genomic positions.
BMC Bioinform.
Stefan M. Stanley, Timothy L. Bailey, John S. Mattick
2006 J jnl
Identifying sequence regions undergoing conformational change via predicted continuum secondary structure.
Bioinform.
Mikael Bodén, Timothy L. Bailey
2006 J jnl
MEME: discovering and analyzing DNA and protein sequence motifs.
Nucleic Acids Res.
Timothy L. Bailey, Nadya Williams, Chris Misleh, Wilfred W. Li
2006 J jnl
Prediction of protein continuum secondary structure with probabilistic models based on NMR solved structures.
BMC Bioinform.
Mikael Bodén, Zheng Yuan, Timothy L. Bailey
2003 J jnl
Estimating and Evaluating the Statistics of Gapped Local-Alignment Scores.
J. Comput. Biol.
Timothy L. Bailey, Michael Gribskov
2003 C conf
Searching for statistically significant regulatory modules.
ECCB
Timothy L. Bailey, William Stafford Noble
2000 J jnl
Concerning the accuracy of MAST E-values.
Bioinform.
Timothy L. Bailey, Michael Gribskov
1999 B conf
Classifying proteins by family using the product of correlated
RECOMB
Timothy L. Bailey, William Noble Grundy
1999 J jnl
Family pairwise search with embedded motif models.
Bioinform.
William Noble Grundy, Timothy L. Bailey
1999 — ch.
MEME, MAST, and Meta-MEME: New Tools for Motif Discovery in Protein Sequences.
Pattern Discovery in Biomolecular Data
Timothy L. Bailey, Michael E. Baker, Charles Elkan, William Noble Grundy
1998 J jnl
Combining evidence using p-values: application to sequence homology searches.
Bioinform.
Timothy L. Bailey, Michael Gribskov
1998 J jnl
Methods and Statistics for Combining Motif Match Scores.
J. Comput. Biol.
Timothy L. Bailey, Michael Gribskov
1997 J jnl
Meta-MEME: motif-based hidden Markov models of protein families.
Comput. Appl. Biosci.
William Noble Grundy, Timothy L. Bailey, Charles Elkan, Michael E. Baker
1997 J jnl
Score Distributions for Simultaneous Matching to Multiple Motifs.
J. Comput. Biol.
Timothy L. Bailey, Michael Gribskov
1996 J jnl
ParaMEME: a parallel implementation and a web interface for a DNA and protein motif discovery tool.
Comput. Appl. Biosci.
William Noble Grundy, Timothy L. Bailey, Charles Elkan
1996 A conf
The Megaprior Heuristic for Discovering Protein Sequence Patterns.
ISMB
Timothy L. Bailey, Michael Gribskov
1995 A conf
The Value of Prior Knowledge in Discovering Motifs with MEME.
ISMB
Timothy L. Bailey, Charles Elkan
1995 J jnl
Unsupervised Learning of Multiple Motifs in Biopolymers Using Expectation Maximization.
Mach. Learn.
Timothy L. Bailey, Charles Elkan
1994 A conf
Fitting a Mixture Model By Expectation Maximization To Discover Motifs In Biopolymer.
ISMB
Timothy L. Bailey, Charles Elkan
1993 A* conf
Estimating the Accuracy of Learned Concepts.
IJCAI
Timothy L. Bailey, Charles Elkan