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Items: 1 to 20 of 222

1.

Atlas2 Cloud: a framework for personal genome analysis in the cloud.

Evani US, Challis D, Yu J, Jackson AR, Paithankar S, Bainbridge MN, Jakkamsetti A, Pham P, Coarfa C, Milosavljevic A, Yu F.

BMC Genomics. 2012;13 Suppl 6:S19. doi: 10.1186/1471-2164-13-S6-S19. Epub 2012 Oct 26.

2.

An integrative variant analysis suite for whole exome next-generation sequencing data.

Challis D, Yu J, Evani US, Jackson AR, Paithankar S, Coarfa C, Milosavljevic A, Gibbs RA, Yu F.

BMC Bioinformatics. 2012 Jan 12;13:8. doi: 10.1186/1471-2105-13-8.

3.

Processing shotgun proteomics data on the Amazon cloud with the trans-proteomic pipeline.

Slagel J, Mendoza L, Shteynberg D, Deutsch EW, Moritz RL.

Mol Cell Proteomics. 2015 Feb;14(2):399-404. doi: 10.1074/mcp.O114.043380. Epub 2014 Nov 23.

4.

Rainbow: a tool for large-scale whole-genome sequencing data analysis using cloud computing.

Zhao S, Prenger K, Smith L, Messina T, Fan H, Jaeger E, Stephens S.

BMC Genomics. 2013 Jun 27;14:425. doi: 10.1186/1471-2164-14-425.

5.

Cloud Computing with iPlant Atmosphere.

McKay SJ, Skidmore EJ, LaRose CJ, Mercer AW, Noutsos C.

Curr Protoc Bioinformatics. 2013 Oct 15;43:9.15.1-20. doi: 10.1002/0471250953.bi0915s43.

PMID:
26270172
6.

Launching genomics into the cloud: deployment of Mercury, a next generation sequence analysis pipeline.

Reid JG, Carroll A, Veeraraghavan N, Dahdouli M, Sundquist A, English A, Bainbridge M, White S, Salerno W, Buhay C, Yu F, Muzny D, Daly R, Duyk G, Gibbs RA, Boerwinkle E.

BMC Bioinformatics. 2014 Jan 29;15:30. doi: 10.1186/1471-2105-15-30.

7.

Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing.

Angiuoli SV, White JR, Matalka M, White O, Fricke WF.

PLoS One. 2011;6(10):e26624. doi: 10.1371/journal.pone.0026624. Epub 2011 Oct 19.

8.

Cloud BioLinux: pre-configured and on-demand bioinformatics computing for the genomics community.

Krampis K, Booth T, Chapman B, Tiwari B, Bicak M, Field D, Nelson KE.

BMC Bioinformatics. 2012 Mar 19;13:42. doi: 10.1186/1471-2105-13-42.

9.

CloVR: a virtual machine for automated and portable sequence analysis from the desktop using cloud computing.

Angiuoli SV, Matalka M, Gussman A, Galens K, Vangala M, Riley DR, Arze C, White JR, White O, Fricke WF.

BMC Bioinformatics. 2011 Aug 30;12:356. doi: 10.1186/1471-2105-12-356.

10.

Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.

El-Kalioby M, Abouelhoda M, Kr├╝ger J, Giegerich R, Sczyrba A, Wall DP, Tonellato P.

BMC Bioinformatics. 2012;13 Suppl 17:S22. doi: 10.1186/1471-2105-13-S17-S22. Epub 2012 Dec 13.

11.

DDBJ read annotation pipeline: a cloud computing-based pipeline for high-throughput analysis of next-generation sequencing data.

Nagasaki H, Mochizuki T, Kodama Y, Saruhashi S, Morizaki S, Sugawara H, Ohyanagi H, Kurata N, Okubo K, Takagi T, Kaminuma E, Nakamura Y.

DNA Res. 2013 Aug;20(4):383-90. doi: 10.1093/dnares/dst017. Epub 2013 May 8.

12.

GATECloud.net: a platform for large-scale, open-source text processing on the cloud.

Tablan V, Roberts I, Cunningham H, Bontcheva K.

Philos Trans A Math Phys Eng Sci. 2012 Dec 10;371(1983):20120071. doi: 10.1098/rsta.2012.0071. Print 2013 Jan 28.

13.

Biomedical cloud computing with Amazon Web Services.

Fusaro VA, Patil P, Gafni E, Wall DP, Tonellato PJ.

PLoS Comput Biol. 2011 Aug;7(8):e1002147. doi: 10.1371/journal.pcbi.1002147. Epub 2011 Aug 25.

14.

SIMPLEX: cloud-enabled pipeline for the comprehensive analysis of exome sequencing data.

Fischer M, Snajder R, Pabinger S, Dander A, Schossig A, Zschocke J, Trajanoski Z, Stocker G.

PLoS One. 2012;7(8):e41948. doi: 10.1371/journal.pone.0041948. Epub 2012 Aug 1.

15.

Genomics Virtual Laboratory: A Practical Bioinformatics Workbench for the Cloud.

Afgan E, Sloggett C, Goonasekera N, Makunin I, Benson D, Crowe M, Gladman S, Kowsar Y, Pheasant M, Horst R, Lonie A.

PLoS One. 2015 Oct 26;10(10):e0140829. doi: 10.1371/journal.pone.0140829. eCollection 2015.

16.

MC-GenomeKey: a multicloud system for the detection and annotation of genomic variants.

Elshazly H, Souilmi Y, Tonellato PJ, Wall DP, Abouelhoda M.

BMC Bioinformatics. 2017 Jan 20;18(1):49. doi: 10.1186/s12859-016-1454-2.

17.

Providing Assistive Technology Applications as a Service Through Cloud Computing.

Mulfari D, Celesti A, Villari M, Puliafito A.

Assist Technol. 2015 Spring;27(1):44-51. doi: 10.1080/10400435.2014.963258.

PMID:
26132225
18.

STORMSeq: an open-source, user-friendly pipeline for processing personal genomics data in the cloud.

Karczewski KJ, Fernald GH, Martin AR, Snyder M, Tatonetti NP, Dudley JT.

PLoS One. 2014 Jan 15;9(1):e84860. doi: 10.1371/journal.pone.0084860. eCollection 2014.

19.

A case study for cloud based high throughput analysis of NGS data using the globus genomics system.

Bhuvaneshwar K, Sulakhe D, Gauba R, Rodriguez A, Madduri R, Dave U, Lacinski L, Foster I, Gusev Y, Madhavan S.

Comput Struct Biotechnol J. 2014 Nov 7;13:64-74. doi: 10.1016/j.csbj.2014.11.001. eCollection 2015.

20.

VAT: a computational framework to functionally annotate variants in personal genomes within a cloud-computing environment.

Habegger L, Balasubramanian S, Chen DZ, Khurana E, Sboner A, Harmanci A, Rozowsky J, Clarke D, Snyder M, Gerstein M.

Bioinformatics. 2012 Sep 1;28(17):2267-9. Epub 2012 Jun 28.

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