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

El-Kalioby M, Abouelhoda M, Krüger J, Giegerich R, Sczyrba A, Wall DP, Tonellato P (2012)
BMC Bioinformatics 13(Suppl 17): S22.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
DOI
Autor*in
El-Kalioby, Mohamed; Abouelhoda, Mohamed; Krüger, JanUniBi; Giegerich, RobertUniBi; Sczyrba, AlexanderUniBi ; Wall, Dennis P; Tonellato, Peter
Einrichtung
Centrum für Biotechnologie > Arbeitsgruppe A. Sczyrba
Technische Fakultät > Computational Metagenomics
Erscheinungsjahr
2012
Zeitschriftentitel
BMC Bioinformatics
Band
13
Ausgabe
Suppl 17
Art.-Nr.
S22
ISSN
1471-2105
Page URI
https://pub.uni-bielefeld.de/record/2547307

Zitieren

El-Kalioby M, Abouelhoda M, Krüger J, et al. Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics. 2012;13(Suppl 17): S22.
El-Kalioby, M., Abouelhoda, M., Krüger, J., Giegerich, R., Sczyrba, A., Wall, D. P., & Tonellato, P. (2012). Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics, 13(Suppl 17), S22. doi:10.1186/1471-2105-13-S17-S22
El-Kalioby, Mohamed, Abouelhoda, Mohamed, Krüger, Jan, Giegerich, Robert, Sczyrba, Alexander, Wall, Dennis P, and Tonellato, Peter. 2012. “Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package”. BMC Bioinformatics 13 (Suppl 17): S22.
El-Kalioby, M., Abouelhoda, M., Krüger, J., Giegerich, R., Sczyrba, A., Wall, D. P., and Tonellato, P. (2012). Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics 13:S22.
El-Kalioby, M., et al., 2012. Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics, 13(Suppl 17): S22.
M. El-Kalioby, et al., “Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package”, BMC Bioinformatics, vol. 13, 2012, : S22.
El-Kalioby, M., Abouelhoda, M., Krüger, J., Giegerich, R., Sczyrba, A., Wall, D.P., Tonellato, P.: Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package. BMC Bioinformatics. 13, : S22 (2012).
El-Kalioby, Mohamed, Abouelhoda, Mohamed, Krüger, Jan, Giegerich, Robert, Sczyrba, Alexander, Wall, Dennis P, and Tonellato, Peter. “Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package”. BMC Bioinformatics 13.Suppl 17 (2012): S22.

5 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

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 18(1), 2017
PMID: 28107819
A primer on precision medicine informatics.
Sboner A, Elemento O., Brief Bioinform 17(1), 2016
PMID: 26048401
Parallel computing in genomic research: advances and applications.
Ocaña K, de Oliveira D., Adv Appl Bioinform Chem 8(), 2015
PMID: 26604801
Next generation distributed computing for cancer research.
Agarwal P, Owzar K., Cancer Inform 13(suppl 7), 2014
PMID: 25983539
InCoB2012 Conference: from biological data to knowledge to technological breakthroughs.
Schönbach C, Tongsima S, Chan J, Brusic V, Tan TW, Ranganathan S., BMC Bioinformatics 13 Suppl 17(), 2012
PMID: 23281929

29 References

Daten bereitgestellt von Europe PubMed Central.

Galaxy CloudMan: delivering cloud compute clusters.
Afgan E, Baker D, Coraor N, Chapman B, Nekrutenko A, Taylor J., BMC Bioinformatics 11 Suppl 12(), 2010
PMID: 21210983
In silico research in the era of cloud computing.
Dudley JT, Butte AJ., Nat. Biotechnol. 28(11), 2010
PMID: 21057489
Biomedical cloud computing with Amazon Web Services.
Fusaro VA, Patil P, Gafni E, Wall DP, Tonellato PJ., PLoS Comput. Biol. 7(8), 2011
PMID: 21901085
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 13(), 2012
PMID: 22429538
Tavaxy: integrating Taverna and Galaxy workflows with cloud computing support.
Abouelhoda M, Issa SA, Ghanem M., BMC Bioinformatics 13(), 2012
PMID: 22559942
The Sequence Alignment/Map format and SAMtools.
Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R; 1000 Genome Project Data Processing Subgroup., Bioinformatics 25(16), 2009
PMID: 19505943
EMBOSS: the European Molecular Biology Open Software Suite.
Rice P, Longden I, Bleasby A., Trends Genet. 16(6), 2000
PMID: 10827456
A greedy algorithm for aligning DNA sequences.
Zhang Z, Schwartz S, Wagner L, Miller W., J. Comput. Biol. 7(1-2), 2000
PMID: 10890397
Secondary structure prediction for aligned RNA sequences.
Hofacker IL, Fekete M, Stadler PF., J. Mol. Biol. 319(5), 2002
PMID: 12079347
Environmental genome shotgun sequencing of the Sargasso Sea.
Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fouts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffman J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH, Smith HO., Science 304(5667), 2004
PMID: 15001713
Basic local alignment search tool.
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ., J. Mol. Biol. 215(3), 1990
PMID: 2231712
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ., Nucleic Acids Res. 25(17), 1997
PMID: 9254694
The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search.
Havgaard JH, Lyngso RB, Gorodkin J., Nucleic Acids Res. 33(Web Server issue), 2005
PMID: 15980555
Galaxy: a platform for interactive large-scale genome analysis.
Giardine B, Riemer C, Hardison RC, Burhans R, Elnitski L, Shah P, Zhang Y, Blankenberg D, Albert I, Taylor J, Miller W, Kent WJ, Nekrutenko A., Genome Res. 15(10), 2005
PMID: 16169926
RNAshapes: an integrated RNA analysis package based on abstract shapes.
Steffen P, Voss B, Rehmsmeier M, Reeder J, Giegerich R., Bioinformatics 22(4), 2005
PMID: 16357029
GenePattern 2.0.
Reich M, Liefeld T, Gould J, Lerner J, Tamayo P, Mesirov JP., Nat. Genet. 38(5), 2006
PMID: 16642009
Pure multiple RNA secondary structure alignments: a progressive profile approach.
Hochsmann M, Voss B, Giegerich R., IEEE/ACM Trans Comput Biol Bioinform 1(1), 2004
PMID: 17048408
XML schemas for common bioinformatic data types and their application in workflow systems.
Seibel PN, Kruger J, Hartmeier S, Schwarzer K, Lowenthal K, Mersch H, Dandekar T, Giegerich R., BMC Bioinformatics 7(), 2006
PMID: 17087823
MEGAN analysis of metagenomic data.
Huson DH, Auch AF, Qi J, Schuster SC., Genome Res. 17(3), 2007
PMID: 17255551
Cloud computing.
Bateman A, Wood M., Bioinformatics 25(12), 2009
PMID: 19435745
Windshield splatter analysis with the Galaxy metagenomic pipeline.
Kosakovsky Pond S, Wadhawan S, Chiaromonte F, Ananda G, Chung WY, Taylor J, Nekrutenko A; Galaxy Team., Genome Res. 19(11), 2009
PMID: 19819906
Mobyle: a new full web bioinformatics framework.
Neron B, Menager H, Maufrais C, Joly N, Maupetit J, Letort S, Carrere S, Tuffery P, Letondal C., Bioinformatics 25(22), 2009
PMID: 19689959
Searching for SNPs with cloud computing.
Langmead B, Schatz MC, Lin J, Pop M, Salzberg SL., Genome Biol. 10(11), 2009
PMID: 19930550
Cloud computing for comparative genomics.
Wall DP, Kudtarkar P, Fusaro VA, Pivovarov R, Patil P, Tonellato PJ., BMC Bioinformatics 11(), 2010
PMID: 20482786
The case for cloud computing in genome informatics.
Stein LD., Genome Biol. 11(5), 2010
PMID: 20441614
Cloud computing and the DNA data race.
Schatz MC, Langmead B, Salzberg SL., Nat. Biotechnol. 28(7), 2010
PMID: 20622843
Cloud-scale RNA-sequencing differential expression analysis with Myrna.
Langmead B, Hansen KD, Leek JT., Genome Biol. 11(8), 2010
PMID: 20701754
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences.
Goecks J, Nekrutenko A, Taylor J; Galaxy Team, Afgan E, Ananda G, Baker D, Blankenberg D, Chakrabarty R, Coraor N, Goecks J, Von Kuster G, Lazarus R, Li K, Nekrutenko A, Taylor J, Vincent K., Genome Biol. 11(8), 2010
PMID: 20738864
Conveyor: a workflow engine for bioinformatic analyses.
Linke B, Giegerich R, Goesmann A., Bioinformatics 27(7), 2011
PMID: 21278189
Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®
Quellen

PMID: 23281941
PubMed | Europe PMC

Suchen in

Google Scholar