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Results: 1 to 20 of 34

1.

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species.

Bradnam KR, Fass JN, Alexandrov A, Baranay P, Bechner M, Birol I, Boisvert S, Chapman JA, Chapuis G, Chikhi R, Chitsaz H, Chou WC, Corbeil J, Del Fabbro C, Docking TR, Durbin R, Earl D, Emrich S, Fedotov P, Fonseca NA, Ganapathy G, Gibbs RA, Gnerre S, Godzaridis E, Goldstein S, Haimel M, Hall G, Haussler D, Hiatt JB, Ho IY, Howard J, Hunt M, Jackman SD, Jaffe DB, Jarvis ED, Jiang H, Kazakov S, Kersey PJ, Kitzman JO, Knight JR, Koren S, Lam TW, Lavenier D, Laviolette F, Li Y, Li Z, Liu B, Liu Y, Luo R, Maccallum I, Macmanes MD, Maillet N, Melnikov S, Naquin D, Ning Z, Otto TD, Paten B, Paulo OS, Phillippy AM, Pina-Martins F, Place M, Przybylski D, Qin X, Qu C, Ribeiro FJ, Richards S, Rokhsar DS, Ruby JG, Scalabrin S, Schatz MC, Schwartz DC, Sergushichev A, Sharpe T, Shaw TI, Shendure J, Shi Y, Simpson JT, Song H, Tsarev F, Vezzi F, Vicedomini R, Vieira BM, Wang J, Worley KC, Yin S, Yiu SM, Yuan J, Zhang G, Zhang H, Zhou S, Korf IF.

Gigascience. 2013 Jul 22;2(1):10. doi: 10.1186/2047-217X-2-10.

PMID:
23870653
[PubMed]
Free PMC Article
2.

HIV N-linked glycosylation site analyzer and its further usage in anchored alignment.

Shaw TI, Zhang M.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W454-8. doi: 10.1093/nar/gkt472. Epub 2013 Jun 8.

PMID:
23748959
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

STRAW: Species TRee Analysis Web server.

Shaw TI, Ruan Z, Glenn TC, Liu L.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W238-41. doi: 10.1093/nar/gkt377. Epub 2013 May 9.

PMID:
23661681
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Expression profiling of lymph node cells from deer mice infected with Andes virus.

Schountz T, Shaw TI, Glenn TC, Feldmann H, Prescott J.

BMC Immunol. 2013 Apr 9;14:18. doi: 10.1186/1471-2172-14-18.

PMID:
23570545
[PubMed - in process]
Free PMC Article
5.

Transcriptome sequencing and annotation for the Jamaican fruit bat (Artibeus jamaicensis).

Shaw TI, Srivastava A, Chou WC, Liu L, Hawkinson A, Glenn TC, Adams R, Schountz T.

PLoS One. 2012;7(11):e48472. doi: 10.1371/journal.pone.0048472. Epub 2012 Nov 15.

PMID:
23166587
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Information-theoretic uncertainty of SCFG-modeled folding space of the non-coding RNA.

Manzourolajdad A, Wang Y, Shaw TI, Malmberg RL.

J Theor Biol. 2013 Feb 7;318:140-63. doi: 10.1016/j.jtbi.2012.10.023. Epub 2012 Nov 14.

PMID:
23160142
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Transcriptome analysis of a North American songbird, Melospiza melodia.

Srivastava A, Winker K, Shaw TI, Jones KL, Glenn TC.

DNA Res. 2012;19(4):325-33. doi: 10.1093/dnares/dss015. Epub 2012 May 29.

PMID:
22645122
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Stable stem enabled Shannon entropies distinguish non-coding RNAs from random backgrounds.

Wang Y, Manzour A, Shareghi P, Shaw TI, Li YW, Malmberg RL, Cai L.

BMC Bioinformatics. 2012 Apr 12;13 Suppl 5:S1. doi: 10.1186/1471-2105-13-S5-S1.

PMID:
22537005
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Assemblathon 1: a competitive assessment of de novo short read assembly methods.

Earl D, Bradnam K, St John J, Darling A, Lin D, Fass J, Yu HO, Buffalo V, Zerbino DR, Diekhans M, Nguyen N, Ariyaratne PN, Sung WK, Ning Z, Haimel M, Simpson JT, Fonseca NA, Birol İ, Docking TR, Ho IY, Rokhsar DS, Chikhi R, Lavenier D, Chapuis G, Naquin D, Maillet N, Schatz MC, Kelley DR, Phillippy AM, Koren S, Yang SP, Wu W, Chou WC, Srivastava A, Shaw TI, Ruby JG, Skewes-Cox P, Betegon M, Dimon MT, Solovyev V, Seledtsov I, Kosarev P, Vorobyev D, Ramirez-Gonzalez R, Leggett R, MacLean D, Xia F, Luo R, Li Z, Xie Y, Liu B, Gnerre S, MacCallum I, Przybylski D, Ribeiro FJ, Yin S, Sharpe T, Hall G, Kersey PJ, Durbin R, Jackman SD, Chapman JA, Huang X, DeRisi JL, Caccamo M, Li Y, Jaffe DB, Green RE, Haussler D, Korf I, Paten B.

Genome Res. 2011 Dec;21(12):2224-41. doi: 10.1101/gr.126599.111. Epub 2011 Sep 16.

PMID:
21926179
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Analyzing modular RNA structure reveals low global structural entropy in microRNA sequence.

Shaw TI, Manzour A, Wang Y, Malmberg RL, Cai L.

J Bioinform Comput Biol. 2011 Apr;9(2):283-98.

PMID:
21523933
[PubMed - indexed for MEDLINE]
11.

RNApasta: a tool for analysis of RNA structural alignments.

Malmberg RL, Shaw TI, Cai L.

Int J Bioinform Res Appl. 2010;6(6):571-83.

PMID:
21354963
[PubMed - indexed for MEDLINE]
12.

Movement in a ganglion.

Shaw TI, Newby BJ.

Biochim Biophys Acta. 1972 Jan 17;255(1):411-2. No abstract available.

PMID:
5011005
[PubMed - indexed for MEDLINE]
13.

Sodium transport by perfused giant axons of Loligo.

Baker PF, Foster RF, Gilbert DS, Shaw TI.

J Physiol. 1971 Dec;219(2):487-506.

PMID:
5158405
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

The production of adenosine triphosphate in perfused giant axons of Loligo.

Martin K, Shaw TI.

J Physiol. 1970 May;208(1):171-85.

PMID:
4322582
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Extrusion and perfusion of the giant nerve fibre of Myxicola infundibulum.

Gilbert DS, Shaw TI.

J Physiol. 1969 Sep;204(1):28P-29P. No abstract available.

PMID:
5352053
[PubMed - indexed for MEDLINE]
16.

Maintenance of sodium transport in perfused axons.

Foster RF, Gilbert DS, Shaw TI.

Biochim Biophys Acta. 1969 Jul 15;183(2):401-3. No abstract available.

PMID:
5792250
[PubMed - indexed for MEDLINE]
17.

The circular dichroism of suspensions of frog rod outer segments.

Crescitelli F, Foster RF, Shaw TI.

J Physiol. 1969 May;202(1):189-95.

PMID:
5770882
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

The ouabain-sensitive fluxes of sodium and potassium in squid giant axons.

Baker PF, Blaustein MP, Keynes RD, Manil J, Shaw TI, Steinhardt RA.

J Physiol. 1969 Feb;200(2):459-96.

PMID:
5812424
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Sodium transport and perfused axons.

Baker PF, Foster RG, Gilbert DS, Shaw TI.

Biochim Biophys Acta. 1968 Dec 10;163(4):560-2. No abstract available.

PMID:
5727397
[PubMed - indexed for MEDLINE]
20.

The circular dichroism of visual pigments, particularly in the ultra-violet.

Crescitelli F, Mommaerts WF, Shaw TI.

J Physiol. 1967 Apr;189(2):74P-75P. No abstract available.

PMID:
6034137
[PubMed - indexed for MEDLINE]

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