Jaime A Castro-Mondragon
Jaime A Castro-Mondragon
Bioinformatician, Nykode Therapeutics AS
Verified email at - Homepage
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JASPAR 2020: update of the open-access database of transcription factor binding profiles
O Fornes, JA Castro-Mondragon, A Khan, R Van der Lee, X Zhang, ...
Nucleic acids research 48 (D1), D87-D92, 2020
JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework
A Khan, O Fornes, A Stigliani, M Gheorghe, JA Castro-Mondragon, ...
Nucleic acids research 46 (D1), D260-D266, 2018
JASPAR 2022: the 9th release of the open-access database of transcription factor binding profiles
JA Castro-Mondragon, R Riudavets-Puig, I Rauluseviciute, ...
Nucleic acids research 50 (D1), D165-D173, 2022
RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond
S Gama-Castro, H Salgado, A Santos-Zavaleta, D Ledezma-Tejeida, ...
Nucleic acids research 44 (D1), D133-D143, 2016
RSAT 2015: regulatory sequence analysis tools
A Medina-Rivera, M Defrance, O Sand, C Herrmann, ...
Nucleic acids research 43 (W1), W50-W56, 2015
Genome-wide characterization of mammalian promoters with distal enhancer functions
LTM Dao, AO Galindo-Albarrán, JA Castro-Mondragon, C Andrieu-Soler, ...
Nature genetics 49 (7), 1073-1081, 2017
RSAT 2018: regulatory sequence analysis tools 20th anniversary
NTT Nguyen, B Contreras-Moreira, JA Castro-Mondragon, ...
Nucleic acids research 46 (W1), W209-W214, 2018
RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections
JA Castro-Mondragon, S Jaeger, D Thieffry, M Thomas-Chollier, ...
Nucleic Acids Research 45 (13), e119-e119, 2017
UniBind: maps of high-confidence direct TF-DNA interactions across nine species
RR Puig, P Boddie, A Khan, JA Castro-Mondragon, A Mathelier
BMC Genomics, 2021
RSAT 2022: regulatory sequence analysis tools
W Santana-Garcia, JA Castro-Mondragon, M Padilla-Gálvez, NTT Nguyen, ...
Nucleic Acids Research 50 (W1), W670-W676, 2022
JASPAR 2024: 20th anniversary of the open-access database of transcription factor binding profiles
I Rauluseviciute, R Riudavets-Puig, R Blanc-Mathieu, ...
Nucleic Acids Research 52 (D1), D174-D182, 2024
Crosstalk between microRNA expression and DNA methylation drives the hormone-dependent phenotype of breast cancer
MR Aure, T Fleischer, S Bjørklund, J Ankill, JA Castro-Mondragon, ...
Genome medicine 13 (1), 72, 2021
Genomic basis of symbiovar mimosae in Rhizobium etli
MA Rogel, P Bustos, RI Santamaría, V González, D Romero, MÁ Cevallos, ...
BMC genomics 15, 1-10, 2014
Tuning promoter boundaries improves regulatory motif discovery in nonmodel plants: the peach example
N Ksouri, JA Castro-Mondragón, F Montardit-Tarda, J van Helden, ...
Plant Physiology 185 (3), 1242-1258, 2021
Epromoters function as a hub to recruit key transcription factors required for the inflammatory response
D Santiago-Algarra, C Souaid, H Singh, LTM Dao, S Hussain, ...
Nature communications 12 (1), 6660, 2021
Proteins in the periplasmic space and outer membrane vesicles of Rhizobium etli CE3 grown in minimal medium are largely distinct and change with growth phase
H Taboada, N Meneses, MF Dunn, C Vargas-Lagunas, N Buchs, ...
Microbiology 165 (6), 2018
RSAT:: Plants: motif discovery within clusters of upstream sequences in plant genomes
B Contreras-Moreira, JA Castro-Mondragon, C Rioualen, ...
Plant Synthetic Promoters: Methods and Protocols, 279-295, 2016
Genetic architecture of natural variation of cardiac performance from flies to humans
S Saha, L Spinelli, JAC Mondragon, A Kervadec, M Lynott, L Kremmer, ...
Elife 11, e82459, 2022
RSAT:: Plants: motif discovery in chip-Seq peaks of plant genomes
JA Castro-Mondragon, C Rioualen, B Contreras-Moreira, J Van Helden
Plant Synthetic Promoters: Methods and Protocols, 297-322, 2016
Cis-regulatory mutations associate with transcriptional and post-transcriptional deregulation of gene regulatory programs in cancers
JA Castro-Mondragon, MR Aure, OC Lingjærde, A Langerød, ...
Nucleic Acids Research 50 (21), 12131-12148, 2022
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