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Results: 1 to 20 of 64

1.

Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response.

Becker EA, Seitzer PM, Tritt A, Larsen D, Krusor M, Yao AI, Wu D, Madern D, Eisen JA, Darling AE, Facciotti MT.

PLoS Genet. 2014 Nov 13;10(11):e1004784. doi: 10.1371/journal.pgen.1004784. eCollection 2014 Nov.

PMID:
25393412
[PubMed - in process]
Free PMC Article
2.

An Open-Source Sandbox for Increasing the Accessibility of Functional Programming to the Bioinformatics and Scientific Communities.

Fenwick M, Sesanker C, Schiller MR, Ellis HJ, Hinman ML, Vyas J, Gryk MR.

Proc Int Conf Inf Technol New Gener. 2012;2012:89-94.

PMID:
25328913
[PubMed]
Free PMC Article
3.

Polyglot programming in applications used for genetic data analysis.

Nowak RM.

Biomed Res Int. 2014;2014:253013. doi: 10.1155/2014/253013. Epub 2014 Aug 14.

PMID:
25197633
[PubMed - in process]
Free PMC Article
4.

Effective automated feature construction and selection for classification of biological sequences.

Kamath U, De Jong K, Shehu A.

PLoS One. 2014 Jul 17;9(7):e99982. doi: 10.1371/journal.pone.0099982. eCollection 2014.

PMID:
25033270
[PubMed - in process]
Free PMC Article
5.

BiQ Analyzer HiMod: an interactive software tool for high-throughput locus-specific analysis of 5-methylcytosine and its oxidized derivatives.

Becker D, Lutsik P, Ebert P, Bock C, Lengauer T, Walter J.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W501-7. doi: 10.1093/nar/gku457. Epub 2014 May 29.

PMID:
24875479
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Composable languages for bioinformatics: the NYoSh experiment.

Simi M, Campagne F.

PeerJ. 2014 Jan 2;2:e241. doi: 10.7717/peerj.241. eCollection 2014.

PMID:
24482760
[PubMed]
Free PMC Article
7.

HPDB-Haskell library for processing atomic biomolecular structures in Protein Data Bank format.

Gajda MJ.

BMC Res Notes. 2013 Nov 23;6:483. doi: 10.1186/1756-0500-6-483.

PMID:
24267035
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Genomic prediction in maize breeding populations with genotyping-by-sequencing.

Crossa J, Beyene Y, Kassa S, Pérez P, Hickey JM, Chen C, de los Campos G, Burgueño J, Windhausen VS, Buckler E, Jannink JL, Lopez Cruz MA, Babu R.

G3 (Bethesda). 2013 Nov 6;3(11):1903-26. doi: 10.1534/g3.113.008227.

PMID:
24022750
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

JContextExplorer: a tree-based approach to facilitate cross-species genomic context comparison.

Seitzer P, Huynh TA, Facciotti MT.

BMC Bioinformatics. 2013 Jan 16;14:18. doi: 10.1186/1471-2105-14-18.

PMID:
23324080
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Accurate diagnostics for Bovine tuberculosis based on high-throughput sequencing.

Churbanov A, Milligan B.

PLoS One. 2012;7(11):e50147. doi: 10.1371/journal.pone.0050147. Epub 2012 Nov 30.

PMID:
23226242
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Scribl: an HTML5 Canvas-based graphics library for visualizing genomic data over the web.

Miller CA, Anthony J, Meyer MM, Marth G.

Bioinformatics. 2013 Feb 1;29(3):381-3. doi: 10.1093/bioinformatics/bts677. Epub 2012 Nov 19.

PMID:
23172864
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

XiP: a computational environment to create, extend and share workflows.

Nagasaki M, Fujita A, Sekiya Y, Saito A, Ikeda E, Li C, Miyano S.

Bioinformatics. 2013 Jan 1;29(1):137-9. doi: 10.1093/bioinformatics/bts630. Epub 2012 Oct 25.

PMID:
23104885
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Coalescent: an open-source and scalable framework for exact calculations in coalescent theory.

Tewari S, Spouge JL.

BMC Bioinformatics. 2012 Oct 3;13:257. doi: 10.1186/1471-2105-13-257.

PMID:
23033878
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

JEnsembl: a version-aware Java API to Ensembl data systems.

Paterson T, Law A.

Bioinformatics. 2012 Nov 1;28(21):2724-31. doi: 10.1093/bioinformatics/bts525. Epub 2012 Sep 3.

PMID:
22945789
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Comparison of different ranking methods in protein-ligand binding site prediction.

Gao J, Liu Q, Kang H, Cao Z, Zhu R.

Int J Mol Sci. 2012;13(7):8752-61. doi: 10.3390/ijms13078752. Epub 2012 Jul 16.

PMID:
22942732
[PubMed - in process]
Free PMC Article
16.

Bio.Phylo: a unified toolkit for processing, analyzing and visualizing phylogenetic trees in Biopython.

Talevich E, Invergo BM, Cock PJ, Chapman BA.

BMC Bioinformatics. 2012 Aug 21;13:209. doi: 10.1186/1471-2105-13-209.

PMID:
22909249
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

BioJava: an open-source framework for bioinformatics in 2012.

Prlić A, Yates A, Bliven SE, Rose PW, Jacobsen J, Troshin PV, Chapman M, Gao J, Koh CH, Foisy S, Holland R, Rimsa G, Heuer ML, Brandstätter-Müller H, Bourne PE, Willis S.

Bioinformatics. 2012 Oct 15;28(20):2693-5. doi: 10.1093/bioinformatics/bts494. Epub 2012 Aug 9.

PMID:
22877863
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

HDX workbench: software for the analysis of H/D exchange MS data.

Pascal BD, Willis S, Lauer JL, Landgraf RR, West GM, Marciano D, Novick S, Goswami D, Chalmers MJ, Griffin PR.

J Am Soc Mass Spectrom. 2012 Sep;23(9):1512-21. doi: 10.1007/s13361-012-0419-6. Epub 2012 Jun 13.

PMID:
22692830
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics.

Lohse M, Bolger AM, Nagel A, Fernie AR, Lunn JE, Stitt M, Usadel B.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W622-7. doi: 10.1093/nar/gks540. Epub 2012 Jun 8.

PMID:
22684630
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

QGRS-H Predictor: a web server for predicting homologous quadruplex forming G-rich sequence motifs in nucleotide sequences.

Menendez C, Frees S, Bagga PS.

Nucleic Acids Res. 2012 Jul;40(Web Server issue):W96-W103. doi: 10.1093/nar/gks422. Epub 2012 May 10.

PMID:
22576365
[PubMed - indexed for MEDLINE]
Free PMC Article
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