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Items: 1 to 20 of 134

1.

Workflow and web application for annotating NCBI BioProject transcriptome data.

Vera Alvarez R, Medeiros Vidal N, Garzón-Martínez GA, Barrero LS, Landsman D, Mariño-Ramírez L.

Database (Oxford). 2017 Jan 1;2017. doi: 10.1093/database/bax008.

2.

MS_HistoneDB, a manually curated resource for proteomic analysis of human and mouse histones.

El Kennani S, Adrait A, Shaytan AK, Khochbin S, Bruley C, Panchenko AR, Landsman D, Pflieger D, Govin J.

Epigenetics Chromatin. 2017 Jan 10;10:2. doi: 10.1186/s13072-016-0109-x. eCollection 2017.

3.

Quantifying deleterious effects of regulatory variants.

Li S, Alvarez RV, Sharan R, Landsman D, Ovcharenko I.

Nucleic Acids Res. 2017 Mar 17;45(5):2307-2317. doi: 10.1093/nar/gkw1263.

4.

Most of the tight positional conservation of transcription factor binding sites near the transcription start site reflects their co-localization within regulatory modules.

Acevedo-Luna N, Mariño-Ramírez L, Halbert A, Hansen U, Landsman D, Spouge JL.

BMC Bioinformatics. 2016 Nov 21;17(1):479.

5.

Dataset of Arabidopsis plants that overexpress FT driven by a meristem-specific KNAT1 promoter.

Duplat-Bermúdez L, Ruiz-Medrano R, Landsman D, Mariño-Ramírez L, Xoconostle-Cázares B.

Data Brief. 2016 Jun 8;8:520-8. doi: 10.1016/j.dib.2016.06.002. eCollection 2016 Sep.

6.

Trajectories of microsecond molecular dynamics simulations of nucleosomes and nucleosome core particles.

Shaytan AK, Armeev GA, Goncearenco A, Zhurkin VB, Landsman D, Panchenko AR.

Data Brief. 2016 May 6;7:1678-81. doi: 10.1016/j.dib.2016.04.073. eCollection 2016 Jun.

7.

Transcriptomic analysis of Arabidopsis overexpressing flowering locus T driven by a meristem-specific promoter that induces early flowering.

Duplat-Bermúdez L, Ruiz-Medrano R, Landsman D, Mariño-Ramírez L, Xoconostle-Cázares B.

Gene. 2016 Aug 10;587(2):120-31. doi: 10.1016/j.gene.2016.04.060. Epub 2016 May 3.

8.

Genome Sequence of the Banana Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens PS006.

Gamez RM, Rodríguez F, Ramírez S, Gómez Y, Agarwala R, Landsman D, Mariño-Ramírez L.

Genome Announc. 2016 May 5;4(3). pii: e00329-16. doi: 10.1128/genomeA.00329-16.

9.

HMGN proteins modulate chromatin regulatory sites and gene expression during activation of naïve B cells.

Zhang S, Zhu I, Deng T, Furusawa T, Rochman M, Vacchio MS, Bosselut R, Yamane A, Casellas R, Landsman D, Bustin M.

Nucleic Acids Res. 2016 Sep 6;44(15):7144-58. doi: 10.1093/nar/gkw323. Epub 2016 Apr 25.

10.

HistoneDB 2.0: a histone database with variants--an integrated resource to explore histones and their variants.

Draizen EJ, Shaytan AK, Mariño-Ramírez L, Talbert PB, Landsman D, Panchenko AR.

Database (Oxford). 2016 Mar 17;2016. pii: baw014. doi: 10.1093/database/baw014. Print 2016.

11.

Whole-Genome Sequences of Two Campylobacter coli Isolates from the Antimicrobial Resistance Monitoring Program in Colombia.

Bernal JF, Donado-Godoy P, Valencia MF, León M, Gómez Y, Rodríguez F, Agarwala R, Landsman D, Mariño-Ramírez L.

Genome Announc. 2016 Mar 17;4(2). pii: e00131-16. doi: 10.1128/genomeA.00131-16.

12.

Whole-Genome Sequence of Multidrug-Resistant Campylobacter coli Strain COL B1-266, Isolated from the Colombian Poultry Chain.

Bernal JF, Donado-Godoy P, Arévalo A, Duarte C, Realpe ME, Díaz PL, Gómez Y, Rodríguez F, Agarwala R, Landsman D, Mariño-Ramírez L.

Genome Announc. 2016 Mar 17;4(2). pii: e00130-16. doi: 10.1128/genomeA.00130-16.

13.

Coupling between Histone Conformations and DNA Geometry in Nucleosomes on a Microsecond Timescale: Atomistic Insights into Nucleosome Functions.

Shaytan AK, Armeev GA, Goncearenco A, Zhurkin VB, Landsman D, Panchenko AR.

J Mol Biol. 2016 Jan 16;428(1):221-37. doi: 10.1016/j.jmb.2015.12.004. Epub 2015 Dec 14.

14.

Database resources of the National Center for Biotechnology Information.

NCBI Resource Coordinators.

Nucleic Acids Res. 2016 Jan 4;44(D1):D7-19. doi: 10.1093/nar/gkv1290. Epub 2015 Nov 28.

15.

Genome Sequence of the Banana Plant Growth-Promoting Rhizobacterium Bacillus amyloliquefaciens BS006.

Gamez RM, Rodríguez F, Bernal JF, Agarwala R, Landsman D, Mariño-Ramírez L.

Genome Announc. 2015 Nov 25;3(6). pii: e01391-15. doi: 10.1128/genomeA.01391-15.

16.

Genetic diversity and population structure in Physalis peruviana and related taxa based on InDels and SNPs derived from COSII and IRG markers.

Garzón-Martínez GA, Osorio-Guarín JA, Delgadillo-Durán P, Mayorga F, Enciso-Rodríguez FE, Landsman D, Mariño-Ramírez L, Barrero LS.

Plant Gene. 2015 Dec 1;4:29-37.

17.

Genome Sequences of Multidrug-Resistant Salmonella enterica Serovar Paratyphi B (dT+) and Heidelberg Strains from the Colombian Poultry Chain.

Donado-Godoy P, Bernal JF, Rodríguez F, Gomez Y, Agarwala R, Landsman D, Mariño-Ramírez L.

Genome Announc. 2015 Oct 22;3(5). pii: e01265-15. doi: 10.1128/genomeA.01265-15.

18.

Progressive MS: from pathophysiology to drug discovery.

Salvetti M, Landsman D, Schwarz-Lam P, Comi G, Thompson AJ, Fox RJ.

Mult Scler. 2015 Oct;21(11):1376-84. doi: 10.1177/1352458515603802. Epub 2015 Sep 11. Review.

PMID:
26362902
19.

Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat.

Babbitt PC, Bagos PG, Bairoch A, Bateman A, Chatonnet A, Chen MJ, Craik DJ, Finn RD, Gloriam D, Haft DH, Henrissat B, Holliday GL, Isberg V, Kaas Q, Landsman D, Lenfant N, Manning G, Nagano N, Srinivasan N, O'Donovan C, Pruitt KD, Sowdhamini R, Rawlings ND, Saier MH Jr, Sharman JL, Spedding M, Tsirigos KD, Vastermark A, Vriend G.

Database (Oxford). 2015 Jul 11;2015:bav063. doi: 10.1093/database/bav063. eCollection 2015.

20.

Functional compensation among HMGN variants modulates the DNase I hypersensitive sites at enhancers.

Deng T, Zhu ZI, Zhang S, Postnikov Y, Huang D, Horsch M, Furusawa T, Beckers J, Rozman J, Klingenspor M, Amarie O, Graw J, Rathkolb B, Wolf E, Adler T, Busch DH, Gailus-Durner V, Fuchs H, Hrabě de Angelis M, van der Velde A, Tessarollo L, Ovcherenko I, Landsman D, Bustin M.

Genome Res. 2015 Sep;25(9):1295-308. doi: 10.1101/gr.192229.115. Epub 2015 Jul 8.

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