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Items: 1 to 20 of 28

1.

XPA: A key scaffold for human nucleotide excision repair.

Sugitani N, Sivley RM, Perry KE, Capra JA, Chazin WJ.

DNA Repair (Amst). 2016 May 20. pii: S1568-7864(16)30098-2. doi: 10.1016/j.dnarep.2016.05.018. [Epub ahead of print]

PMID:
27247238
2.

The phenotypic legacy of admixture between modern humans and Neandertals.

Simonti CN, Vernot B, Bastarache L, Bottinger E, Carrell DS, Chisholm RL, Crosslin DR, Hebbring SJ, Jarvik GP, Kullo IJ, Li R, Pathak J, Ritchie MD, Roden DM, Verma SS, Tromp G, Prato JD, Bush WS, Akey JM, Denny JC, Capra JA.

Science. 2016 Feb 12;351(6274):737-41. doi: 10.1126/science.aad2149.

PMID:
26912863
3.

Joint mouse-human phenome-wide association to test gene function and disease risk.

Wang X, Pandey AK, Mulligan MK, Williams EG, Mozhui K, Li Z, Jovaisaite V, Quarles LD, Xiao Z, Huang J, Capra JA, Chen Z, Taylor WL, Bastarache L, Niu X, Pollard KS, Ciobanu DC, Reznik AO, Tishkov AV, Zhulin IB, Peng J, Nelson SF, Denny JC, Auwerx J, Lu L, Williams RW.

Nat Commun. 2016 Feb 2;7:10464. doi: 10.1038/ncomms10464.

4.

GEneSTATION 1.0: a synthetic resource of diverse evolutionary and functional genomic data for studying the evolution of pregnancy-associated tissues and phenotypes.

Kim M, Cooper BA, Venkat R, Phillips JB, Eidem HR, Hirbo J, Nutakki S, Williams SM, Muglia LJ, Capra JA, Petren K, Abbot P, Rokas A, McGary KL.

Nucleic Acids Res. 2016 Jan 4;44(D1):D908-16. doi: 10.1093/nar/gkv1137. Epub 2015 Nov 14.

5.

The evolution of the human genome.

Simonti CN, Capra JA.

Curr Opin Genet Dev. 2015 Dec;35:9-15. doi: 10.1016/j.gde.2015.08.005. Epub 2015 Sep 9. Review.

PMID:
26338498
6.

Evolution of lysine acetylation in the RNA polymerase II C-terminal domain.

Simonti CN, Pollard KS, Schröder S, He D, Bruneau BG, Ott M, Capra JA.

BMC Evol Biol. 2015 Mar 10;15:35. doi: 10.1186/s12862-015-0327-z.

7.
8.

The essential Schizosaccharomyces pombe Pfh1 DNA helicase promotes fork movement past G-quadruplex motifs to prevent DNA damage.

Sabouri N, Capra JA, Zakian VA.

BMC Biol. 2014 Dec 4;12:101. doi: 10.1186/s12915-014-0101-5.

9.

Log-odds sequence logos.

Yu YK, Capra JA, Stojmirović A, Landsman D, Altschul SF.

Bioinformatics. 2015 Feb 1;31(3):324-31. doi: 10.1093/bioinformatics/btu634. Epub 2014 Oct 6.

10.

Modeling DNA methylation dynamics with approaches from phylogenetics.

Capra JA, Kostka D.

Bioinformatics. 2014 Sep 1;30(17):i408-14. doi: 10.1093/bioinformatics/btu445.

11.

Integrating diverse datasets improves developmental enhancer prediction.

Erwin GD, Oksenberg N, Truty RM, Kostka D, Murphy KK, Ahituv N, Pollard KS, Capra JA.

PLoS Comput Biol. 2014 Jun 26;10(6):e1003677. doi: 10.1371/journal.pcbi.1003677. eCollection 2014 Jun.

12.

Many human accelerated regions are developmental enhancers.

Capra JA, Erwin GD, McKinsey G, Rubenstein JL, Pollard KS.

Philos Trans R Soc Lond B Biol Sci. 2013 Nov 11;368(1632):20130025. doi: 10.1098/rstb.2013.0025. Print 2013 Dec 19.

13.

Acetylation of RNA polymerase II regulates growth-factor-induced gene transcription in mammalian cells.

Schröder S, Herker E, Itzen F, He D, Thomas S, Gilchrist DA, Kaehlcke K, Cho S, Pollard KS, Capra JA, Schnölzer M, Cole PA, Geyer M, Bruneau BG, Adelman K, Ott M.

Mol Cell. 2013 Nov 7;52(3):314-24. doi: 10.1016/j.molcel.2013.10.009.

14.

A model-based analysis of GC-biased gene conversion in the human and chimpanzee genomes.

Capra JA, Hubisz MJ, Kostka D, Pollard KS, Siepel A.

PLoS Genet. 2013;9(8):e1003684. doi: 10.1371/journal.pgen.1003684. Epub 2013 Aug 15.

15.

How old is my gene?

Capra JA, Stolzer M, Durand D, Pollard KS.

Trends Genet. 2013 Nov;29(11):659-68. doi: 10.1016/j.tig.2013.07.001. Epub 2013 Aug 1. Review.

16.

Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage.

Wamstad JA, Alexander JM, Truty RM, Shrikumar A, Li F, Eilertson KE, Ding H, Wylie JN, Pico AR, Capra JA, Erwin G, Kattman SJ, Keller GM, Srivastava D, Levine SS, Pollard KS, Holloway AK, Boyer LA, Bruneau BG.

Cell. 2012 Sep 28;151(1):206-20. doi: 10.1016/j.cell.2012.07.035. Epub 2012 Sep 12.

17.

ProteinHistorian: tools for the comparative analysis of eukaryote protein origin.

Capra JA, Williams AG, Pollard KS.

PLoS Comput Biol. 2012;8(6):e1002567. doi: 10.1371/journal.pcbi.1002567. Epub 2012 Jun 28.

18.

SIRT1 and SIRT3 deacetylate homologous substrates: AceCS1,2 and HMGCS1,2.

Hirschey MD, Shimazu T, Capra JA, Pollard KS, Verdin E.

Aging (Albany NY). 2011 Jun;3(6):635-42.

19.

Ongoing GC-biased evolution is widespread in the human genome and enriched near recombination hot spots.

Katzman S, Capra JA, Haussler D, Pollard KS.

Genome Biol Evol. 2011;3:614-26. doi: 10.1093/gbe/evr058. Epub 2011 Jun 21.

20.

Substitution patterns are GC-biased in divergent sequences across the metazoans.

Capra JA, Pollard KS.

Genome Biol Evol. 2011;3:516-27. doi: 10.1093/gbe/evr051. Epub 2011 Jun 13.

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