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Results: 1 to 20 of 186

1.

Best Practices: Best Practices for Increasing Access to SSI and SSDI on Exit From Criminal Justice Settings.

Dennis D, Ware D, Steadman HJ.

Psychiatr Serv. 2014 Sep 1;65(9):1081-3. doi: 10.1176/appi.ps.201400120.

PMID:
24981962
[PubMed - in process]
2.

High-throughput comparison, functional annotation, and metabolic modeling of plant genomes using the PlantSEED resource.

Seaver SM, Gerdes S, Frelin O, Lerma-Ortiz C, Bradbury LM, Zallot R, Hasnain G, Niehaus TD, El Yacoubi B, Pasternak S, Olson R, Pusch G, Overbeek R, Stevens R, de Crécy-Lagard V, Ware D, Hanson AD, Henry CS.

Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9645-50. doi: 10.1073/pnas.1401329111. Epub 2014 Jun 9.

PMID:
24927599
[PubMed - in process]
3.

Joint variant and de novo mutation identification on pedigrees from high-throughput sequencing data.

Cleary JG, Braithwaite R, Gaastra K, Hilbush BS, Inglis S, Irvine SA, Jackson A, Littin R, Nohzadeh-Malakshah S, Rathod M, Ware D, Trigg L, De La Vega FM.

J Comput Biol. 2014 Jun;21(6):405-19. doi: 10.1089/cmb.2014.0029.

PMID:
24874280
[PubMed - in process]
4.

Household reporting of childhood respiratory health and air pollution in rural Alaska Native communities.

Ware DN, Lewis J, Hopkins S, Boyer B, Montrose L, Noonan CW, Semmens EO, Ward TJ.

Int J Circumpolar Health. 2014 May 9;73:1-10. doi: 10.3402/ijch.v73.24324. eCollection 2014.

PMID:
24822173
[PubMed - in process]
Free PMC Article
5.

Disentangling methodological and biological sources of gene tree discordance on oryza (poaceae) chromosome 3.

Zwickl DJ, Stein JC, Wing RA, Ware D, Sanderson MJ.

Syst Biol. 2014 Sep;63(5):645-59. doi: 10.1093/sysbio/syu027. Epub 2014 Apr 9.

PMID:
24721692
[PubMed - in process]
6.

Regulatory modules controlling maize inflorescence architecture.

Eveland AL, Goldshmidt A, Pautler M, Morohashi K, Liseron-Monfils C, Lewis MW, Kumari S, Hiraga S, Yang F, Unger-Wallace E, Olson A, Hake S, Vollbrecht E, Grotewold E, Ware D, Jackson D.

Genome Res. 2014 Mar;24(3):431-43. doi: 10.1101/gr.166397.113. Epub 2013 Dec 4.

PMID:
24307553
[PubMed - in process]
Free PMC Article
7.

MAKER-P: a tool kit for the rapid creation, management, and quality control of plant genome annotations.

Campbell MS, Law M, Holt C, Stein JC, Moghe GD, Hufnagel DE, Lei J, Achawanantakun R, Jiao D, Lawrence CJ, Ware D, Shiu SH, Childs KL, Sun Y, Jiang N, Yandell M.

Plant Physiol. 2014 Feb;164(2):513-24. doi: 10.1104/pp.113.230144. Epub 2013 Dec 4.

PMID:
24306534
[PubMed - in process]
Free PMC Article
8.

A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress.

Dharmawardhana P, Ren L, Amarasinghe V, Monaco M, Thomason J, Ravenscroft D, McCouch S, Ware D, Jaiswal P.

Rice (N Y). 2013 May 29;6(1):15. doi: 10.1186/1939-8433-6-15.

PMID:
24280345
[PubMed]
9.

Gramene 2013: comparative plant genomics resources.

Monaco MK, Stein J, Naithani S, Wei S, Dharmawardhana P, Kumari S, Amarasinghe V, Youens-Clark K, Thomason J, Preece J, Pasternak S, Olson A, Jiao Y, Lu Z, Bolser D, Kerhornou A, Staines D, Walts B, Wu G, D'Eustachio P, Haw R, Croft D, Kersey PJ, Stein L, Jaiswal P, Ware D.

Nucleic Acids Res. 2014 Jan;42(Database issue):D1193-9. doi: 10.1093/nar/gkt1110. Epub 2013 Nov 11.

PMID:
24217918
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Genome-wide computational prediction and analysis of core promoter elements across plant monocots and dicots.

Kumari S, Ware D.

PLoS One. 2013 Oct 29;8(10):e79011. doi: 10.1371/journal.pone.0079011. eCollection 2013.

PMID:
24205361
[PubMed - in process]
Free PMC Article
11.

Ensembl Genomes 2013: scaling up access to genome-wide data.

Kersey PJ, Allen JE, Christensen M, Davis P, Falin LJ, Grabmueller C, Hughes DS, Humphrey J, Kerhornou A, Khobova J, Langridge N, McDowall MD, Maheswari U, Maslen G, Nuhn M, Ong CK, Paulini M, Pedro H, Toneva I, Tuli MA, Walts B, Williams G, Wilson D, Youens-Clark K, Monaco MK, Stein J, Wei X, Ware D, Bolser DM, Howe KL, Kulesha E, Lawson D, Staines DM.

Nucleic Acids Res. 2014 Jan;42(Database issue):D546-52. doi: 10.1093/nar/gkt979. Epub 2013 Oct 25.

PMID:
24163254
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Cross-bridged cyclen or cyclam Co(III) complexes containing cytotoxic ligands as hypoxia-activated prodrugs.

Chang JY, Lu GL, Stevenson RJ, Brothers PJ, Clark GR, Botting KJ, Ferry DM, Tercel M, Wilson WR, Denny WA, Ware DC.

Inorg Chem. 2013 Jul 1;52(13):7688-98. doi: 10.1021/ic4006967. Epub 2013 Jun 17.

PMID:
23773210
[PubMed - indexed for MEDLINE]
13.

The maize methylome influences mRNA splice sites and reveals widespread paramutation-like switches guided by small RNA.

Regulski M, Lu Z, Kendall J, Donoghue MT, Reinders J, Llaca V, Deschamps S, Smith A, Levy D, McCombie WR, Tingey S, Rafalski A, Hicks J, Ware D, Martienssen RA.

Genome Res. 2013 Oct;23(10):1651-62. doi: 10.1101/gr.153510.112. Epub 2013 Jun 5.

PMID:
23739895
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor.

Luo MC, Gu YQ, You FM, Deal KR, Ma Y, Hu Y, Huo N, Wang Y, Wang J, Chen S, Jorgensen CM, Zhang Y, McGuire PE, Pasternak S, Stein JC, Ware D, Kramer M, McCombie WR, Kianian SF, Martis MM, Mayer KF, Sehgal SK, Li W, Gill BS, Bevan MW, Simková H, Dolezel J, Weining S, Lazo GR, Anderson OD, Dvorak J.

Proc Natl Acad Sci U S A. 2013 May 7;110(19):7940-5. doi: 10.1073/pnas.1219082110. Epub 2013 Apr 22.

PMID:
23610408
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

The zebrafish reference genome sequence and its relationship to the human genome.

Howe K, Clark MD, Torroja CF, Torrance J, Berthelot C, Muffato M, Collins JE, Humphray S, McLaren K, Matthews L, McLaren S, Sealy I, Caccamo M, Churcher C, Scott C, Barrett JC, Koch R, Rauch GJ, White S, Chow W, Kilian B, Quintais LT, Guerra-Assunção JA, Zhou Y, Gu Y, Yen J, Vogel JH, Eyre T, Redmond S, Banerjee R, Chi J, Fu B, Langley E, Maguire SF, Laird GK, Lloyd D, Kenyon E, Donaldson S, Sehra H, Almeida-King J, Loveland J, Trevanion S, Jones M, Quail M, Willey D, Hunt A, Burton J, Sims S, McLay K, Plumb B, Davis J, Clee C, Oliver K, Clark R, Riddle C, Elliot D, Threadgold G, Harden G, Ware D, Begum S, Mortimore B, Kerry G, Heath P, Phillimore B, Tracey A, Corby N, Dunn M, Johnson C, Wood J, Clark S, Pelan S, Griffiths G, Smith M, Glithero R, Howden P, Barker N, Lloyd C, Stevens C, Harley J, Holt K, Panagiotidis G, Lovell J, Beasley H, Henderson C, Gordon D, Auger K, Wright D, Collins J, Raisen C, Dyer L, Leung K, Robertson L, Ambridge K, Leongamornlert D, McGuire S, Gilderthorp R, Griffiths C, Manthravadi D, Nichol S, Barker G, Whitehead S, Kay M, Brown J, Murnane C, Gray E, Humphries M, Sycamore N, Barker D, Saunders D, Wallis J, Babbage A, Hammond S, Mashreghi-Mohammadi M, Barr L, Martin S, Wray P, Ellington A, Matthews N, Ellwood M, Woodmansey R, Clark G, Cooper J, Tromans A, Grafham D, Skuce C, Pandian R, Andrews R, Harrison E, Kimberley A, Garnett J, Fosker N, Hall R, Garner P, Kelly D, Bird C, Palmer S, Gehring I, Berger A, Dooley CM, Ersan-Ürün Z, Eser C, Geiger H, Geisler M, Karotki L, Kirn A, Konantz J, Konantz M, Oberländer M, Rudolph-Geiger S, Teucke M, Lanz C, Raddatz G, Osoegawa K, Zhu B, Rapp A, Widaa S, Langford C, Yang F, Schuster SC, Carter NP, Harrow J, Ning Z, Herrero J, Searle SM, Enright A, Geisler R, Plasterk RH, Lee C, Westerfield M, de Jong PJ, Zon LI, Postlethwait JH, Nüsslein-Volhard C, Hubbard TJ, Roest Crollius H, Rogers J, Stemple DL.

Nature. 2013 Apr 25;496(7446):498-503. doi: 10.1038/nature12111. Epub 2013 Apr 17. Erratum in: Nature. 2014 Jan 9;505(7482):248. Cooper, James [corrected to Cooper, James D]; Eliott, David [corrected to Elliot, David]; Mortimer, Beverly [corrected to Mortimore, Beverley]; Begum, Sharmin [added]; Lloyd, Christine [added]; Lanz, Christa [added]; Raddatz, Günter [added]; Schuster, Stephan C [added].

PMID:
23594743
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Sources and perceptions of indoor and ambient air pollution in rural Alaska.

Ware D, Lewis J, Hopkins S, Boyer B, Noonan C, Ward T.

J Community Health. 2013 Aug;38(4):773-80. doi: 10.1007/s10900-013-9678-9.

PMID:
23526077
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Characterization of miRNAs in response to short-term waterlogging in three inbred lines of Zea mays.

Liu Z, Kumari S, Zhang L, Zheng Y, Ware D.

PLoS One. 2012;7(6):e39786. doi: 10.1371/journal.pone.0039786. Epub 2012 Jun 29.

PMID:
22768123
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

ZmCCT and the genetic basis of day-length adaptation underlying the postdomestication spread of maize.

Hung HY, Shannon LM, Tian F, Bradbury PJ, Chen C, Flint-Garcia SA, McMullen MD, Ware D, Buckler ES, Doebley JF, Holland JB.

Proc Natl Acad Sci U S A. 2012 Jul 10;109(28):E1913-21. doi: 10.1073/pnas.1203189109. Epub 2012 Jun 18.

PMID:
22711828
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Comparative population genomics of maize domestication and improvement.

Hufford MB, Xu X, van Heerwaarden J, Pyhäjärvi T, Chia JM, Cartwright RA, Elshire RJ, Glaubitz JC, Guill KE, Kaeppler SM, Lai J, Morrell PL, Shannon LM, Song C, Springer NM, Swanson-Wagner RA, Tiffin P, Wang J, Zhang G, Doebley J, McMullen MD, Ware D, Buckler ES, Yang S, Ross-Ibarra J.

Nat Genet. 2012 Jun 3;44(7):808-11. doi: 10.1038/ng.2309.

PMID:
22660546
[PubMed - indexed for MEDLINE]
20.

Maize HapMap2 identifies extant variation from a genome in flux.

Chia JM, Song C, Bradbury PJ, Costich D, de Leon N, Doebley J, Elshire RJ, Gaut B, Geller L, Glaubitz JC, Gore M, Guill KE, Holland J, Hufford MB, Lai J, Li M, Liu X, Lu Y, McCombie R, Nelson R, Poland J, Prasanna BM, Pyhäjärvi T, Rong T, Sekhon RS, Sun Q, Tenaillon MI, Tian F, Wang J, Xu X, Zhang Z, Kaeppler SM, Ross-Ibarra J, McMullen MD, Buckler ES, Zhang G, Xu Y, Ware D.

Nat Genet. 2012 Jun 3;44(7):803-7. doi: 10.1038/ng.2313.

PMID:
22660545
[PubMed - indexed for MEDLINE]

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