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Results: 1 to 20 of 33

1.

Loss of neuronal 3D chromatin organization causes transcriptional and behavioural deficits related to serotonergic dysfunction.

Ito S, Magalska A, Alcaraz-Iborra M, Lopez-Atalaya JP, Rovira V, Contreras-Moreira B, Lipinski M, Olivares R, Martinez-Hernandez J, Ruszczycki B, Lujan R, Geijo-Barrientos E, Wilczynski GM, Barco A.

Nat Commun. 2014 Jul 18;5:4450. doi: 10.1038/ncomms5450.

PMID:
25034090
[PubMed - in process]
2.

HvFT1 polymorphism and effect-survey of barley germplasm and expression analysis.

Loscos J, Igartua E, Contreras-Moreira B, Gracia MP, Casas AM.

Front Plant Sci. 2014 Jun 6;5:251. doi: 10.3389/fpls.2014.00251. eCollection 2014.

PMID:
24936204
[PubMed]
Free PMC Article
3.

Integrating bioinformatic resources to predict transcription factors interacting with cis-sequences conserved in co-regulated genes.

Dubos C, Kelemen Z, Sebastian A, Bülow L, Huep G, Xu W, Grain D, Salsac F, Brousse C, Lepiniec L, Weisshaar B, Contreras-Moreira B, Hehl R.

BMC Genomics. 2014 Apr 28;15:317. doi: 10.1186/1471-2164-15-317.

PMID:
24773781
[PubMed - in process]
Free Article
4.

footprintDB: a database of transcription factors with annotated cis elements and binding interfaces.

Sebastian A, Contreras-Moreira B.

Bioinformatics. 2014 Jan 15;30(2):258-65. doi: 10.1093/bioinformatics/btt663. Epub 2013 Nov 14.

PMID:
24234003
[PubMed - indexed for MEDLINE]
5.

Genetic recombination is associated with intrinsic disorder in plant proteomes.

Yruela I, Contreras-Moreira B.

BMC Genomics. 2013 Nov 9;14:772. doi: 10.1186/1471-2164-14-772.

PMID:
24206529
[PubMed - in process]
Free PMC Article
6.

GET_HOMOLOGUES, a versatile software package for scalable and robust microbial pangenome analysis.

Contreras-Moreira B, Vinuesa P.

Appl Environ Microbiol. 2013 Dec;79(24):7696-701. doi: 10.1128/AEM.02411-13. Epub 2013 Oct 4.

PMID:
24096415
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Fine mapping of the Rrs1 resistance locus against scald in two large populations derived from Spanish barley landraces.

Hofmann K, Silvar C, Casas AM, Herz M, Büttner B, Gracia MP, Contreras-Moreira B, Wallwork H, Igartua E, Schweizer G.

Theor Appl Genet. 2013 Dec;126(12):3091-102. doi: 10.1007/s00122-013-2196-4. Epub 2013 Sep 26.

PMID:
24068343
[PubMed - indexed for MEDLINE]
8.

OsRMC, a negative regulator of salt stress response in rice, is regulated by two AP2/ERF transcription factors.

Serra TS, Figueiredo DD, Cordeiro AM, Almeida DM, Lourenço T, Abreu IA, Sebastián A, Fernandes L, Contreras-Moreira B, Oliveira MM, Saibo NJ.

Plant Mol Biol. 2013 Jul;82(4-5):439-55. doi: 10.1007/s11103-013-0073-9. Epub 2013 May 24.

PMID:
23703395
[PubMed - indexed for MEDLINE]
9.

The twilight zone of cis element alignments.

Sebastian A, Contreras-Moreira B.

Nucleic Acids Res. 2013 Feb 1;41(3):1438-49. doi: 10.1093/nar/gks1301. Epub 2012 Dec 24.

PMID:
23268451
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Protein disorder in plants: a view from the chloroplast.

Yruela I, Contreras-Moreira B.

BMC Plant Biol. 2012 Sep 13;12:165.

PMID:
22970728
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

HvFT1 (VrnH3) drives latitudinal adaptation in Spanish barleys.

Casas AM, Djemel A, Ciudad FJ, Yahiaoui S, Ponce LJ, Contreras-Moreira B, Gracia MP, Lasa JM, Igartua E.

Theor Appl Genet. 2011 May;122(7):1293-304. doi: 10.1007/s00122-011-1531-x. Epub 2011 Jan 30.

PMID:
21279626
[PubMed - indexed for MEDLINE]
12.

Evolutionary divergence of chloroplast FAD synthetase proteins.

Yruela I, Arilla-Luna S, Medina M, Contreras-Moreira B.

BMC Evol Biol. 2010 Oct 18;10:311. doi: 10.1186/1471-2148-10-311.

PMID:
20955574
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Dissecting the expression patterns of transcription factors across conditions using an integrated network-based approach.

Janga SC, Contreras-Moreira B.

Nucleic Acids Res. 2010 Nov;38(20):6841-56. doi: 10.1093/nar/gkq612. Epub 2010 Jul 14.

PMID:
20631006
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli.

Mendoza-Vargas A, Olvera L, Olvera M, Grande R, Vega-Alvarado L, Taboada B, Jimenez-Jacinto V, Salgado H, Juárez K, Contreras-Moreira B, Huerta AM, Collado-Vides J, Morett E.

PLoS One. 2009 Oct 19;4(10):e7526. doi: 10.1371/journal.pone.0007526.

PMID:
19838305
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

3D-footprint: a database for the structural analysis of protein-DNA complexes.

Contreras-Moreira B.

Nucleic Acids Res. 2010 Jan;38(Database issue):D91-7. doi: 10.1093/nar/gkp781. Epub 2009 Sep 18.

PMID:
19767616
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Comparison of DNA binding across protein superfamilies.

Contreras-Moreira B, Sancho J, Angarica VE.

Proteins. 2010 Jan;78(1):52-62. doi: 10.1002/prot.22525.

PMID:
19731374
[PubMed - indexed for MEDLINE]
17.

primers4clades: a web server that uses phylogenetic trees to design lineage-specific PCR primers for metagenomic and diversity studies.

Contreras-Moreira B, Sachman-Ruiz B, Figueroa-Palacios I, Vinuesa P.

Nucleic Acids Res. 2009 Jul;37(Web Server issue):W95-W100. doi: 10.1093/nar/gkp377. Epub 2009 May 21.

PMID:
19465390
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Prediction of TF target sites based on atomistic models of protein-DNA complexes.

Angarica VE, Pérez AG, Vasconcelos AT, Collado-Vides J, Contreras-Moreira B.

BMC Bioinformatics. 2008 Oct 16;9:436. doi: 10.1186/1471-2105-9-436.

PMID:
18922190
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Multilocus sequence analysis for assessment of the biogeography and evolutionary genetics of four Bradyrhizobium species that nodulate soybeans on the asiatic continent.

Vinuesa P, Rojas-Jiménez K, Contreras-Moreira B, Mahna SK, Prasad BN, Moe H, Selvaraju SB, Thierfelder H, Werner D.

Appl Environ Microbiol. 2008 Nov;74(22):6987-96. doi: 10.1128/AEM.00875-08. Epub 2008 Sep 12.

PMID:
18791003
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

The role of DNA-binding specificity in the evolution of bacterial regulatory networks.

Lozada-Chávez I, Angarica VE, Collado-Vides J, Contreras-Moreira B.

J Mol Biol. 2008 Jun 6;379(3):627-43. doi: 10.1016/j.jmb.2008.04.008. Epub 2008 Apr 9.

PMID:
18466918
[PubMed - indexed for MEDLINE]
Free PMC Article

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