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Homodimerization regulates an endothelial specific signature of the SOX18 transcription factor.
- Published in:
- Nucleic Acids Research, 2018, v. 46, n. 21, p. 11381, doi. 10.1093/nar/gky897
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- Article
Krüppel-like factors compete for promoters and enhancers to fine-tune transcription.
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- Nucleic Acids Research, 2017, v. 45, n. 11, p. 6572, doi. 10.1093/nar/gkx441
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- Article
CISMAPPER: predicting regulatory interactions from transcription factor ChIP-seq data.
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- Nucleic Acids Research, 2017, v. 45, n. 4, p. 1, doi. 10.1093/nar/gkw956
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- Article
The MEME Suite.
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- Nucleic Acids Research, 2015, v. 43, n. W1, p. W39, doi. 10.1093/nar/gkv416
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- Article
Creating and validating cis-regulatory maps of tissue-specific gene expression regulation.
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- Nucleic Acids Research, 2014, v. 42, n. 17, p. 11000, doi. 10.1093/nar/gku801
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- Article
Inferring direct DNA binding from ChIP-seq.
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- Nucleic Acids Research, 2012, v. 40, n. 17, p. e128, doi. 10.1093/nar/gks433
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- Article
Inferring transcription factor complexes from ChIP-seq data.
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- Nucleic Acids Research, 2011, v. 39, n. 15, p. e98, doi. 10.1093/nar/gkr341
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- Article
High-throughput chromatin information enables accurate tissue-specific prediction of transcription factor binding sites.
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- Nucleic Acids Research, 2009, v. 37, n. 1, p. 14, doi. 10.1093/nar/gkn866
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- Article
MEME Suite: tools for motif discovery and searching.
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- Nucleic Acids Research, 2009, v. 37, n. suppl_2, p. W202, doi. 10.1093/nar/gkp335
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- Article
Associating transcription factor-binding site motifs with target GO terms and target genes.
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- Nucleic Acids Research, 2008, v. 36, n. 12, p. 4108, doi. 10.1093/nar/gkn374
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- Article
Assessing computational tools for the discovery of transcription factor binding sites.
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- Nature Biotechnology, 2005, v. 23, n. 1, p. 137, doi. 10.1038/nbt1053
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- Article
Conservation analysis of sequences flanking the testis-determining gene Sry in 17 mammalian species.
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- BMC Developmental Biology, 2015, v. 15, n. 1, p. 1, doi. 10.1186/s12861-015-0085-6
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- Article
Conservation analysis of sequences flanking the testis-determining gene Sry in 17 mammalian species.
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- BMC Developmental Biology, 2015, v. 15, p. 1, doi. 10.1186/s12861-015-0085-6
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- Publication type:
- Article
STREME: accurate and versatile sequence motif discovery.
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- Bioinformatics, 2021, v. 37, n. 18, p. 2834, doi. 10.1093/bioinformatics/btab203
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- Article
Prediction of protein B-factor profiles.
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- Proteins, 2005, v. 58, n. 4, p. 905, doi. 10.1002/prot.20375
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- Article
NFIA Controls Telencephalic Progenitor Cell Differentiation through Repression of the Notch Effector Hes1.
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- Journal of Neuroscience, 2010, v. 30, n. 27, p. 9127, doi. 10.1523/JNEUROSCI.6167-09.2010
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- Publication type:
- Article
Prediction of novel long non-coding RNAs based on RNA-Seq data of mouse Klf1 knockout study.
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- BMC Bioinformatics, 2012, v. 13, n. 1, p. 1, doi. 10.1186/1471-2105-13-331
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- Article
Dual-functioning transcription factors in thedevelopmental gene network of Drosophilamelanogaster.
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- BMC Bioinformatics, 2010, v. 11, p. 366, doi. 10.1186/1471-2105-11-366
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- Article
The value of position-specific priors in motif discovery using MEME.
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- BMC Bioinformatics, 2010, v. 11, p. 179, doi. 10.1186/1471-2105-11-179
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- Article
Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data.
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- BMC Bioinformatics, 2010, v. 11, p. 165, doi. 10.1186/1471-2105-11-165
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- Article
Studying the functional conservation of cis-regulatory modules and their transcriptional output.
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- BMC Bioinformatics, 2008, v. 9, p. 1, doi. 10.1186/1471-2105-9-220
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- Article
Discriminative motif discovery in DNA and protein sequences using the DEME algorithm.
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- BMC Bioinformatics, 2007, v. 8, p. 385, doi. 10.1186/1471-2105-8-385
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- Article
Cyclic Peptides Arising by Evolutionary Parallelism via Asparaginyl-Endopeptidase–Mediated Biosynthesis.
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- Plant Cell, 2012, v. 24, n. 7, p. 2765, doi. 10.1105/tpc.112.099085
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- Article
MEME: discovering and analyzing DNA and protein sequence motifs.
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- Nucleic Acids Research, 2006, v. 34, n. 11, p. w369, doi. 10.1093/nar/gkl198
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- Article
Discovering Sequence Motifs with Arbitrary Insertions and Deletions.
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- PLoS Computational Biology, 2008, v. 4, n. 5, p. 1, doi. 10.1371/journal.pcbi.1000071
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- Article
Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet.
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- Genome Biology, 2024, v. 25, n. 1, p. 1, doi. 10.1186/s13059-023-03070-0
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- Article
Expression of nuclear factor one A and -B in the olfactory bulb.
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- Journal of Comparative Neurology, 2014, v. 522, n. 11, p. 2688, doi. 10.1002/cne.23574
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- Article
Expression of nuclear factor one A and -B in the olfactory bulb.
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- Journal of Comparative Neurology, 2012, v. 520, n. 14, p. 3135, doi. 10.1002/cne.23081
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- Article
NFIX Regulates Proliferation and Migration Within the Murine SVZ Neurogenic Niche.
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- Cerebral Cortex, 2015, v. 25, n. 10, p. 3758, doi. 10.1093/cercor/bhu253
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- Article
NFIX Regulates Neural Progenitor Cell Differentiation During Hippocampal Morphogenesis.
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- Cerebral Cortex, 2014, v. 24, n. 1, p. 261, doi. 10.1093/cercor/bhs307
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- Article
Concerning the accuracy of MAST E-values.
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- Bioinformatics, 2000, v. 16, n. 5, p. 488, doi. 10.1093/bioinformatics/16.5.488
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- Article
Family pairwise search with embedded motif models.
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- Bioinformatics, 1999, v. 15, n. 6, p. 463, doi. 10.1093/bioinformatics/15.6.463
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- Article
Combining evidence using p‐values: application to sequence homology searches.
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- Bioinformatics, 1998, v. 14, n. 1, p. 48, doi. 10.1093/bioinformatics/14.1.48
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- Article
The Abundance of Short Proteins<br /> in the Mammalian Proteome.
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- PLoS Genetics, 2006, v. 2, n. 4, p. e52, doi. 10.1371/journal.pgen.0020052
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- Article
Pseudo-Messenger RNA: Phantoms<br /> of the Transcriptome.
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- PLoS Genetics, 2006, v. 2, n. 4, p. e23, doi. 10.1371/journal.pgen.0020023
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- Article
Motif-based analysis of large nucleotide data sets using MEME-ChIP.
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- Nature Protocols, 2014, v. 9, n. 6, p. 1428, doi. 10.1038/nprot.2014.083
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- Article
Differential motif enrichment analysis of paired ChIP-seq experiments.
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- BMC Genomics, 2014, v. 15, n. 1, p. 752, doi. 10.1186/1471-2164-15-752
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- Article
An overlapping set of genes is regulated by both NFIB and the glucocorticoid receptor during lung maturation.
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- BMC Genomics, 2014, v. 15, n. 1, p. 231, doi. 10.1186/1471-2164-15-231
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- Article
T-Gene: improved target gene prediction.
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- Bioinformatics, 2020, v. 36, n. 12, p. 3902, doi. 10.1093/bioinformatics/btaa227
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- Article
MoMo: discovery of statistically significant post-translational modification motifs.
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- Bioinformatics, 2019, v. 35, n. 16, p. 2774, doi. 10.1093/bioinformatics/bty1058
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- Article
MCAST: scanning for cis-regulatory motif clusters.
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- Bioinformatics, 2016, v. 32, n. 8, p. 1217, doi. 10.1093/bioinformatics/btv750
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- Article
GT-Scan: identifying unique genomic targets.
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- Bioinformatics, 2014, v. 30, n. 18, p. 2673, doi. 10.1093/bioinformatics/btu354
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- Article
Improving MEME via a two-tiered significance analysis.
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- Bioinformatics, 2014, v. 30, n. 14, p. 1965, doi. 10.1093/bioinformatics/btu163
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- Article
Triplex-Inspector: an analysis tool for triplex-mediated targeting of genomic loci.
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- Bioinformatics, 2013, v. 29, n. 15, p. 1895, doi. 10.1093/bioinformatics/btt315
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- Article
DLocalMotif: a discriminative approach for discovering local motifs in protein sequences.
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- Bioinformatics, 2013, v. 29, n. 1, p. 39, doi. 10.1093/bioinformatics/bts654
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- Article
Genome-wide in silico prediction of gene expression.
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- Bioinformatics, 2012, v. 28, n. 21, p. 2789, doi. 10.1093/bioinformatics/bts529
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- Article
Epigenetic priors for identifying active transcription factor binding sites.
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- Bioinformatics, 2012, v. 28, n. 1, p. 56, doi. 10.1093/bioinformatics/btr614
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- Publication type:
- Article
Tissue-specific prediction of directly regulated genes.
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- Bioinformatics, 2011, v. 27, n. 17, p. 2354, doi. 10.1093/bioinformatics/btr399
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- Article
Sorting the nuclear proteome.
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- Bioinformatics, 2011, v. 27, n. 13, p. i7, doi. 10.1093/bioinformatics/btr217
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- Publication type:
- Article
DREME: motif discovery in transcription factor ChIP-seq data.
- Published in:
- Bioinformatics, 2011, v. 27, n. 12, p. 1653, doi. 10.1093/bioinformatics/btr261
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- Article