Juan M Vaquerizas
TitleCited byYear
An integrated encyclopedia of DNA elements in the human genome
ENCODE Project Consortium
Nature 489 (7414), 57, 2012
85802012
A census of human transcription factors: function, expression and evolution
JM Vaquerizas, SK Kummerfeld, SA Teichmann, NM Luscombe
Nature Reviews Genetics 10 (4), 252, 2009
11652009
A user’s guide to the encyclopedia of DNA elements (ENCODE)
ENCODE Project Consortium
PLoS Biol 9 (4), e1001046, 2011
10672011
DNA-binding specificities of human transcription factors
A Jolma, J Yan, T Whitington, J Toivonen, KR Nitta, P Rastas, ...
Cell 152 (1-2), 327-339, 2013
6972013
Multiplexed massively parallel SELEX for characterization of human transcription factor binding specificities
A Jolma, T Kivioja, J Toivonen, L Cheng, G Wei, M Enge, M Taipale, ...
Genome research 20 (6), 861-873, 2010
3232010
BABELOMICS: a systems biology perspective in the functional annotation of genome-scale experiments
F Al-Shahrour, P Minguez, J Tárraga, D Montaner, E Alloza, ...
Nucleic acids research 34 (suppl_2), W472-W476, 2006
3022006
BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments
F Al-Shahrour, P Minguez, JM Vaquerizas, L Conde, J Dopazo
Nucleic acids research 33 (suppl_2), W460-W464, 2005
2942005
PupaSuite: finding functional single nucleotide polymorphisms for large-scale genotyping purposes
L Conde, JM Vaquerizas, H Dopazo, L Arbiza, J Reumers, F Rousseau, ...
Nucleic acids research 34 (suppl_2), W621-W625, 2006
2542006
GEPAS: a web-based resource for microarray gene expression data analysis
J Herrero, F Al-Shahrour, R Diaz-Uriarte, A Mateos, JM Vaquerizas, ...
Nucleic acids research 31 (13), 3461-3467, 2003
2302003
Nuclear pore proteins nup153 and megator define transcriptionally active regions in the Drosophila genome
JM Vaquerizas, R Suyama, J Kind, K Miura, NM Luscombe, A Akhtar
PLoS genetics 6 (2), e1000846, 2010
1932010
Genome-wide analysis reveals MOF as a key regulator of dosage compensation and gene expression in Drosophila
J Kind, JM Vaquerizas, P Gebhardt, M Gentzel, NM Luscombe, P Bertone, ...
Cell 133 (5), 813-828, 2008
1542008
Next station in microarray data analysis: GEPAS
D Montaner, J Tárraga, J Huerta-Cepas, J Burguet, JM Vaquerizas, ...
Nucleic Acids Research 34 (suppl_2), W486-W491, 2006
1412006
Chromatin architecture emerges during zygotic genome activation independent of transcription
CB Hug, AG Grimaldi, K Kruse, JM Vaquerizas
Cell 169 (2), 216-228. e19, 2017
1192017
GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data
JM Vaquerizas, L Conde, P Yankilevich, A Cabezon, P Minguez, ...
Nucleic acids research 33 (suppl_2), W616-W620, 2005
1182005
The nonspecific lethal complex is a transcriptional regulator in Drosophila
SJ Raja, I Charapitsa, T Conrad, JM Vaquerizas, P Gebhardt, H Holz, ...
Molecular cell 38 (6), 827-841, 2010
1162010
PupaSNP Finder: a web tool for finding SNPs with putative effect at transcriptional level
L Conde, JM Vaquerizas, J Santoyo, F Al-Shahrour, S Ruiz-Llorente, ...
Nucleic acids research 32 (suppl_2), W242-W248, 2004
1122004
Early embryonic-like cells are induced by downregulating replication-dependent chromatin assembly
T Ishiuchi, R Enriquez-Gasca, E Mizutani, A Bošković, C Ziegler-Birling, ...
Nature structural & molecular biology 22 (9), 662, 2015
1092015
DNMAD: web-based diagnosis and normalization for microarray data
JM Vaquerizas, J Dopazo, R Díaz-Uriarte
Bioinformatics 20 (18), 3656-3658, 2004
782004
Comprehensive reanalysis of transcription factor knockout expression data in Saccharomyces cerevisiae reveals many new targets
J Reimand, JM Vaquerizas, AE Todd, J Vilo, NM Luscombe
Nucleic acids research 38 (14), 4768-4777, 2010
762010
New challenges in gene expression data analysis and the extended GEPAS
J Herrero, JM Vaquerizas, F Al-Shahrour, L Conde, A Mateos, ...
Nucleic acids research 32 (suppl_2), W485-W491, 2004
762004
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Articles 1–20