The Genome Institute Publications
Smajs D, Norris SJ, Weinstock GM.
Genetic diversity in Treponema pallidum: Implications for pathogenesis, evolution and molecular diagnostics of syphilis and yaws.
Infect Genet Evol. 2011 Dec 15. [Epub ahead of print] PubMed | View Abstract
Graubert T, Shen D, Ding L, Okeyo-Owuor T, Lunn CL, Shao J, Krysiak K, Harris…
Recurrent mutations in the U2AF1 splicing factor in myelodysplastic syndromes
Nature Genetics. 2011 Dec 11. [Advanced online publication] PubMed | View Abstract
Larson DE, Harris CC, Chen K, Koboldt DC, Abbott TE, Dooling DJ, Ley TJ, Mardis…
SomaticSniper: Identification of Somatic Point Mutations in Whole Genome Sequencing Data.
Bioinformatics. 2011 Dec 6. [Epub ahead of print] PubMed | View Abstract
Martin J, Abubucker S, Heizer E, Taylor CM, Mitreva M.
Nematode.net update 2011: addition of data sets and tools featuring next-generation sequencing data.
Nucleic Acids Res. 2011 Dec 1. [Epub ahead of print] PubMed | View Abstract
Graubert TA, Mardis ER.
Genomics of acute myeloid leukemia.
Cancer J. 2011 Nov;17(6):487-91. PubMed | View Abstract
Holtz LR, Wylie KM, Sodergren E, Jiang Y, Franz CJ, Weinstock GM, Storch GA, Wang…
Astrovirus MLB2 Viremia in Febrile Child.
Emerg Infect Dis. 2011 Nov;17(11):2050-2. PubMed | View Abstract
Yao G, Ye L, Gao H, Minx P, Warren WC, Weinstock GM.
Graph accordance of next-generation sequence assemblies.
Bioinformatics. 2011 Oct 23. [Epub ahead of print] PubMed | View Abstract
Soblik H, Younis AE, Mitreva M, Renard BY, Kirchner M, Geisinger F, Steen H, Brattig…
Life cycle stage-resolved proteomic analysis of the excretome/secretome from Strongyloides ratti: Identification of stage-specific protease.
Mol Cell Proteomics. 2011 Oct 16. [Epub ahead of print]. PubMed | View Abstract
Lindblad-Toh K, Garber M, Zuk O, Lin MF, Parker BJ, Washietl S, Kheradpour P, Ernst…
A high-resolution map of human evolutionary constraint using 29 mammals.
Nature. 2011 Oct 12;478(7370):476-82. doi: 10.1038/nature10530. PubMed | View Abstract
Monier A, Welsh RM, Gentemann C, Weinstock G, Sodergren E, Armbrust EV, Eisen JA, Worden…
Phosphate transporters in marine phytoplankton and their viruses: cross-domain commonalities in viral-host gene exchanges.
Environ Microbiol. 2011 Sep 14. doi: 10.1111/j.1462-2920.2011.02576.x. [Epub ahead of print] PubMed | View Abstract
Marth GT, Yu F, Indap AR, Garimella K, Gravel S, Leong WF, Tyler-Smith C, Bainbridge…
The functional spectrum of low-frequency coding variation.
Genome Biol. 2011 Sep 14;12(9):R84. [Epub ahead of print] PubMed | View Abstract
Arias CA, Panesso D, McGrath DM, Qin X, Mojica MF, Miller C, Diaz L, Tran…
Genetic Basis for In Vivo Daptomycin Resistance in Enterococci
N Engl J Med. 2011 Sep 8;365(10):892-900. PubMed | View Abstract
Renfree MB, Papenfuss AT, Deakin JE, Lindsay J, Heider T, Belov K, Rens W, Waters…
Genome sequence of an Australian kangaroo, Macropus eugenii, provides insight into the evolution of mammalian reproduction and development.
Genome Biol. 2011 Aug 29;12(8):R81. [Epub ahead of print] PubMed | View Abstract
Younis AE, Geisinger F, Ajonina-Ekoti I, Soblik H, Steen H, Mitreva M, Erttmann KD, Perbandt…
Stage-specific excretory-secretory small heat shock proteins from the parasitic nematode Strongyloides ratti--putative links to host's intestinal mucosal defense system.
FEBS J. 2011 Sep;278(18):3319-36. doi: 10.1111/j.1742-4658.2011.08248.x. Epub 2011 Aug 24. PubMed | View Abstract
Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA, Handsaker RE, Lunter…
The variant call format and VCFtools.
Bioinformatics. 2011 Aug 1;27(15):2156-8. Epub 2011 Jun 7. PubMed | View Abstract
Gravel S, Henn BM, Gutenkunst RN, Indap AR, Marth GT, Clark AG, Yu F, Gibbs…
Demographic history and rare allele sharing among human populations.
Proc Natl Acad Sci U S A. 2011 Jul 19;108(29):11983-11988. Epub 2011 Jul 5. PubMed | View Abstract
Abubucker S, Martin J, Taylor CM, Mitreva M.
HelmCoP: an online resource for helminth functional genomics and drug and vaccine targets prioritiza
PLoS One. 2011;6(7):e21832. Epub 2011 Jul 8. PubMed | View Abstract
Church DM, Schneider VA, Graves T, Auger K, Cunningham F, Bouk N, Chen HC, Agarwala…
Modernizing reference genome assemblies.
PLoS Biol. 2011 Jul;9(7):e1001091. Epub 2011 Jul 5. PubMed | View Abstract
The Cancer Genome Atlas Research Network
Integrated genomic analyses of ovarian carcinoma
Nature. 2011 Jun 29;474(7353):609-15. doi: 10.1038/nature10166. PubMed | View Abstract
Jung S, Swart EC, Minx PJ, Magrini V, Mardis ER, Landweber LF, Eddy SR.
Exploiting Oxytricha trifallax nanochromosomes to screen for non-coding RNA genes.
Nucleic Acids Res. 2011 Jun 28. [Epub ahead of print] PubMed | View Abstract
Ventura M, Catacchio CR, Alkan C, Marques-Bonet T, Sajjadian S, Graves TA, Hormozdiari F, Navarro…
Gorilla genome structural variation reveals evolutionary parallelisms with chimpanzee.
Genome Res. 2011 Jul 20. [Epub ahead of print] PubMed | View Abstract
Wang J, Czech B, Crunk A, Wallace A, Mitreva M, Hannon GJ, Davis RE.
Deep small RNA sequencing from the nematode Ascaris reveals conservation, functional diversification, and novel developmental profiles.
Genome Res. 2011 Jun 17. [Epub ahead of print] PubMed | View Abstract
Wang J, Mullighan CG, Easton J, Roberts S, Heatley SL, Ma J, Rusch MC, Chen…
CREST maps somatic structural variation in cancer genomes with base-pair resolution.
Nat Methods. 2011 Jun 12. doi: 10.1038/nmeth.1628. [Epub ahead of print] PubMed | View Abstract
The 1000 Genomes Project, Conrad DF, Keebler JE, Depristo MA, Lindsay SJ, Zhang Y, Casals…
Variation in genome-wide mutation rates within and between human families.
Nat Genet. 2011 Jun 12;43(7):712-714. doi: 10.1038/ng.862. PubMed | View Abstract
Bowne SJ, Humphries MM, Sullivan LS, Kenna PF, Tam LC, Kiang AS, Campbell M, Weinstock…
A dominant mutation in RPE65 identified by whole-exome sequencing causes retinitis pigmentosa with choroidal involvement.
Eur J Hum Genet. 2011 Jun 8. doi: 10.1038/ejhg.2011.86. [Epub ahead of print] PubMed | View Abstract
