{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,6,19]],"date-time":"2025-06-19T04:22:21Z","timestamp":1750306941699,"version":"3.41.0"},"publisher-location":"New York, NY, USA","reference-count":47,"publisher":"ACM","license":[{"start":{"date-parts":[[2013,7,22]],"date-time":"2013-07-22T00:00:00Z","timestamp":1374451200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2013,7,22]]},"DOI":"10.1145\/2484762.2484809","type":"proceedings-article","created":{"date-parts":[[2013,7,30]],"date-time":"2013-07-30T13:40:50Z","timestamp":1375191650000},"page":"1-6","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":0,"title":["High performance computing workflow for protein functional annotation"],"prefix":"10.1145","author":[{"given":"Larissa","family":"Stanberry","sequence":"first","affiliation":[{"name":"Seattle Children's Research Institute (SCRI), DELSA, Global"}]},{"given":"Yuan","family":"Liu","sequence":"additional","affiliation":[{"name":"JICS UT - ORNL"}]},{"given":"Bhanu","family":"Rekepalli","sequence":"additional","affiliation":[{"name":"University of Tennessee \u00e2\u0102\u015e, DELSA, Global"}]},{"given":"Paul","family":"Giblock","sequence":"additional","affiliation":[{"name":"JICS UT - ORNL"}]},{"given":"Roger","family":"Higdon","sequence":"additional","affiliation":[{"name":"Bioinformatics & High-Throughput Analysis Laboratory and High-throughput Analysis Core, SCRI DELSA Global"}]},{"given":"William","family":"Broomall","sequence":"additional","affiliation":[{"name":"High-Throughput Analysis Core, SCRI; DELSA Global"}]}],"member":"320","published-online":{"date-parts":[[2013,7,22]]},"reference":[{"key":"e_1_3_2_1_1_1","doi-asserted-by":"publisher","DOI":"10.1016\/S0022-2836(05)80360-2"},{"key":"e_1_3_2_1_2_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/25.17.3389"},{"key":"e_1_3_2_1_3_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btm229"},{"key":"e_1_3_2_1_4_1","first-page":"22144687","article-title":"GenBank. Nucleic acids research, 40(Database issue)","author":"Benson D. A.","year":"2012","unstructured":"D. A. Benson , I. Karsch-Mizrachi , K. Clark , D. J. Lipman , J. Ostell , and E. W. Sayers . GenBank. Nucleic acids research, 40(Database issue) : D48--53 , Jan. 2012 . PMID: 22144687 . D. A. Benson, I. Karsch-Mizrachi, K. Clark, D. J. Lipman, J. Ostell, and E. W. Sayers. GenBank. Nucleic acids research, 40(Database issue):D48--53, Jan. 2012. PMID: 22144687.","journal-title":"D48--53"},{"key":"e_1_3_2_1_5_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.10.4.398"},{"key":"e_1_3_2_1_6_1","volume-title":"Lustre: A scalable, high performance file system","author":"Systems Cluster File","year":"2002","unstructured":"Cluster File Systems , Inc . Lustre: A scalable, high performance file system . 2002 . Cluster File Systems, Inc. Lustre: A scalable, high performance file system. 2002."},{"key":"e_1_3_2_1_7_1","volume-title":"In Proceedings of ClusterWorld 2003","author":"Darling A. E.","year":"2003","unstructured":"A. E. Darling , L. Carey , and W. chun Feng . The design, implementation, and evaluation of mpiblast . In In Proceedings of ClusterWorld 2003 , 2003 . A. E. Darling, L. Carey, and W. chun Feng. The design, implementation, and evaluation of mpiblast. In In Proceedings of ClusterWorld 2003, 2003."},{"key":"e_1_3_2_1_8_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh340"},{"key":"e_1_3_2_1_9_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/30.7.1575"},{"key":"e_1_3_2_1_10_1","doi-asserted-by":"publisher","DOI":"10.1021\/cr068303k"},{"key":"e_1_3_2_1_11_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.copbio.2006.08.007"},{"key":"e_1_3_2_1_12_1","doi-asserted-by":"publisher","DOI":"10.1089\/big.2012.1505"},{"key":"e_1_3_2_1_13_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkm796"},{"key":"e_1_3_2_1_14_1","volume-title":"The C programming Language","author":"Kernighan B. W.","year":"1988","unstructured":"B. W. Kernighan and D. M. Ritchie . The C programming Language . 1988 . B. W. Kernighan and D. M. Ritchie. The C programming Language. 1988."},{"key":"e_1_3_2_1_15_1","first-page":"22139914","article-title":"MOPED: model organism protein expression database. Nucleic Acids Research, 40(Database issue)","author":"Kolker E.","year":"2012","unstructured":"E. Kolker , R. Higdon , W. Haynes , D. Welch , W. Broomall , D. Lancet , L. Stanberry , and N. Kolker . MOPED: model organism protein expression database. Nucleic Acids Research, 40(Database issue) : D1093--1099 , Jan. 2012 . PMID: 22139914 . E. Kolker, R. Higdon, W. Haynes, D. Welch, W. Broomall, D. Lancet, L. Stanberry, and N. Kolker. MOPED: model organism protein expression database. Nucleic Acids Research, 40(Database issue):D1093--1099, Jan. 2012. PMID: 22139914.","journal-title":"D1093--1099"},{"key":"e_1_3_2_1_16_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.jprot.2011.05.009"},{"key":"e_1_3_2_1_17_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkh555"},{"key":"e_1_3_2_1_18_1","doi-asserted-by":"publisher","DOI":"10.1089\/ind.2012.1528"},{"key":"e_1_3_2_1_19_1","doi-asserted-by":"publisher","DOI":"10.1089\/omi.2011.0101"},{"key":"e_1_3_2_1_20_1","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-4757-3783-7","volume-title":"Sequence - evolution - function: computational approaches in comparative genomics","author":"Koonin E.","year":"2003","unstructured":"E. Koonin and M. Galperin . Sequence - evolution - function: computational approaches in comparative genomics . Kluwer Academic , 2003 . E. Koonin and M. Galperin. Sequence - evolution - function: computational approaches in comparative genomics. Kluwer Academic, 2003."},{"key":"e_1_3_2_1_21_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/28.1.270"},{"key":"e_1_3_2_1_22_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/29.1.33"},{"key":"e_1_3_2_1_23_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btg192"},{"key":"e_1_3_2_1_24_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btl158"},{"key":"e_1_3_2_1_25_1","doi-asserted-by":"publisher","DOI":"10.1109\/IPDPS.2005.190"},{"key":"e_1_3_2_1_26_1","doi-asserted-by":"publisher","DOI":"10.1145\/2110486.2110490"},{"key":"e_1_3_2_1_27_1","unstructured":"National Institute for Computational Sciences. Kraken. http:\/\/www.nics.tennessee.edu\/computing-resources\/kraken.  National Institute for Computational Sciences. Kraken. http:\/\/www.nics.tennessee.edu\/computing-resources\/kraken."},{"key":"e_1_3_2_1_28_1","unstructured":"NCBI. Genome assembly\/annotation projects. ftp:\/\/ftp.ncbi.nih.gov\/genomes\/Bacteria.  NCBI. Genome assembly\/annotation projects. ftp:\/\/ftp.ncbi.nih.gov\/genomes\/Bacteria."},{"key":"e_1_3_2_1_29_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt013"},{"key":"e_1_3_2_1_30_1","doi-asserted-by":"publisher","DOI":"10.1089\/omi.2011.03ed"},{"key":"e_1_3_2_1_31_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.331.6018.666"},{"key":"e_1_3_2_1_32_1","volume-title":"eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. Nucleic Acids Research, 40(D1):D284--D289","author":"Powell S.","year":"2012","unstructured":"S. Powell , D. Szklarczyk , K. Trachana , A. Roth , M. Kuhn , J. Muller , R. Arnold , T. Rattei , I. Letunic , T. Doerks , L. J. Jensen , C. von Mering , and P. Bork . eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. Nucleic Acids Research, 40(D1):D284--D289 , 2012 . S. Powell, D. Szklarczyk, K. Trachana, A. Roth, M. Kuhn, J. Muller, R. Arnold, T. Rattei, I. Letunic, T. Doerks, L. J. Jensen, C. von Mering, and P. Bork. eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges. Nucleic Acids Research, 40(D1):D284--D289, 2012."},{"key":"e_1_3_2_1_33_1","volume-title":"R: A Language and Environment for Statistical Computing","author":"Team R Core","year":"2012","unstructured":"R Core Team . R: A Language and Environment for Statistical Computing . R Foundation for Statistical Computing, Vienna, Austria , 2012 . ISBN 3-900051-07-0. R Core Team. R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria, 2012. ISBN 3-900051-07-0."},{"key":"e_1_3_2_1_34_1","volume-title":"High Availability and Performance Workshop","author":"Rangwala H.","year":"2005","unstructured":"H. Rangwala , E. Lantz , R. Musselman , K. Pinnow , B. Smith , and B. Wallenfelt . Massively parallel BLAST for the Blue Gene\/L . In High Availability and Performance Workshop , 2005 . H. Rangwala, E. Lantz, R. Musselman, K. Pinnow, B. Smith, and B. Wallenfelt. Massively parallel BLAST for the Blue Gene\/L. In High Availability and Performance Workshop, 2005."},{"key":"e_1_3_2_1_35_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-14-S9-S3"},{"key":"e_1_3_2_1_36_1","first-page":"37","volume-title":"Proceedings of the 3rd International Conference on Bioinformatics and Computational Biology (BICoB)","author":"Rekepalli B.","year":"2012","unstructured":"B. Rekepalli , A. Vose , and P. Giblock . HSPp-BLAST: Highly Scalable Parallel PSI-BLAST for very large-scale sequence searches . In Proceedings of the 3rd International Conference on Bioinformatics and Computational Biology (BICoB) , pages 37 -- 42 . BICoB, 2012 . B. Rekepalli, A. Vose, and P. Giblock. HSPp-BLAST: Highly Scalable Parallel PSI-BLAST for very large-scale sequence searches. In Proceedings of the 3rd International Conference on Bioinformatics and Computational Biology (BICoB), pages 37--42. BICoB, 2012."},{"key":"e_1_3_2_1_37_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.331.6023.1386"},{"key":"e_1_3_2_1_38_1","doi-asserted-by":"publisher","DOI":"10.1038\/nbt0710-691"},{"key":"e_1_3_2_1_39_1","volume-title":"Visualizing the protein sequence universe. Concurrency and Computation: Practice and Experience, (in press)","author":"Stanberry L.","year":"2013","unstructured":"L. Stanberry , R. Higdon , W. Haynes , N. Kolker , W. Broomall , S. Ekanayake , Y. Ruan , J. Qiu , E. Kolker , and G. Fox . Visualizing the protein sequence universe. Concurrency and Computation: Practice and Experience, (in press) , 2013 . L. Stanberry, R. Higdon, W. Haynes, N. Kolker, W. Broomall, S. Ekanayake, Y. Ruan, J. Qiu, E. Kolker, and G. Fox. Visualizing the protein sequence universe. Concurrency and Computation: Practice and Experience, (in press), 2013."},{"key":"e_1_3_2_1_40_1","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2010-11-5-207"},{"key":"e_1_3_2_1_41_1","doi-asserted-by":"publisher","DOI":"10.1126\/science.278.5338.631"},{"key":"e_1_3_2_1_42_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-4-41"},{"key":"e_1_3_2_1_43_1","unstructured":"The Earth Microbiome Project. http:\/\/www.earthmicrobiome.org.  The Earth Microbiome Project. http:\/\/www.earthmicrobiome.org."},{"key":"e_1_3_2_1_44_1","unstructured":"The University of Tennessee. Newton HPC Program -- High Performance Computing. http:\/\/newton.utk.edu.  The University of Tennessee. Newton HPC Program -- High Performance Computing. http:\/\/newton.utk.edu."},{"key":"e_1_3_2_1_45_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-10-99"},{"key":"e_1_3_2_1_46_1","doi-asserted-by":"publisher","DOI":"10.1186\/1745-6150-7-46"},{"key":"e_1_3_2_1_47_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/28.1.49"}],"event":{"name":"XSEDE '13: Extreme Science and Engineering Discovery Environment: Gateway to Discovery","acronym":"XSEDE '13","location":"San Diego California USA"},"container-title":["Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery"],"original-title":[],"link":[{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/2484762.2484809","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/2484762.2484809","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,18]],"date-time":"2025-06-18T08:35:52Z","timestamp":1750235752000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/2484762.2484809"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,7,22]]},"references-count":47,"alternative-id":["10.1145\/2484762.2484809","10.1145\/2484762"],"URL":"https:\/\/doi.org\/10.1145\/2484762.2484809","relation":{},"subject":[],"published":{"date-parts":[[2013,7,22]]},"assertion":[{"value":"2013-07-22","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}