{"id":"https://openalex.org/W2080752625","doi":"https://doi.org/10.1145/2484762.2484827","title":"Experiences in building a next-generation sequencing analysis service using galaxy, globus online and Amazon web service","display_name":"Experiences in building a next-generation sequencing analysis service using galaxy, globus online and Amazon web service","publication_year":2013,"publication_date":"2013-07-22","ids":{"openalex":"https://openalex.org/W2080752625","doi":"https://doi.org/10.1145/2484762.2484827","mag":"2080752625"},"language":"en","primary_location":{"id":"doi:10.1145/2484762.2484827","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2484762.2484827","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5022967107","display_name":"Ravi Madduri","orcid":"https://orcid.org/0000-0003-2130-2887"},"institutions":[{"id":"https://openalex.org/I1282105669","display_name":"Argonne National Laboratory","ror":"https://ror.org/05gvnxz63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1282105669","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ravi K. Madduri","raw_affiliation_strings":["Argonne National Laboratory, Argonne, IL"],"affiliations":[{"raw_affiliation_string":"Argonne National Laboratory, Argonne, IL","institution_ids":["https://openalex.org/I1282105669"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010645166","display_name":"Paul Dave","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Paul Dave","raw_affiliation_strings":["University of Chicago, Chicago, IL"],"affiliations":[{"raw_affiliation_string":"University of Chicago, Chicago, IL","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075004675","display_name":"Dinanath Sulakhe","orcid":"https://orcid.org/0000-0002-4680-1212"},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dinanath Sulakhe","raw_affiliation_strings":["University of Chicago, Chicago, IL"],"affiliations":[{"raw_affiliation_string":"University of Chicago, Chicago, IL","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084449063","display_name":"\u0141ukasz \u0141aci\u0144ski","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lukasz Lacinski","raw_affiliation_strings":["University of Chicago, Chicago, IL"],"affiliations":[{"raw_affiliation_string":"University of Chicago, Chicago, IL","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114377956","display_name":"Bo Liu","orcid":null},"institutions":[{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bo Liu","raw_affiliation_strings":["University of Chicago, Chicago, IL"],"affiliations":[{"raw_affiliation_string":"University of Chicago, Chicago, IL","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032231503","display_name":"Ian Foster","orcid":"https://orcid.org/0000-0003-2129-5269"},"institutions":[{"id":"https://openalex.org/I1282105669","display_name":"Argonne National Laboratory","ror":"https://ror.org/05gvnxz63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1282105669","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I40347166"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ian T. Foster","raw_affiliation_strings":["Argonne National Laboratory, Argonne, IL"],"affiliations":[{"raw_affiliation_string":"Argonne National Laboratory, Argonne, IL","institution_ids":["https://openalex.org/I1282105669"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5022967107"],"corresponding_institution_ids":["https://openalex.org/I1282105669"],"apc_list":null,"apc_paid":null,"fwci":10.8119,"has_fulltext":false,"cited_by_count":17,"citation_normalized_percentile":{"value":0.97977169,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"3"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T11287","display_name":"Cancer Genomics and Diagnostics","score":0.9896000027656555,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9858999848365784,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.731961727142334},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5257121920585632},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.5156092047691345},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.47195449471473694},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.46892625093460083},{"id":"https://openalex.org/keywords/pipeline-transport","display_name":"Pipeline transport","score":0.4650128483772278},{"id":"https://openalex.org/keywords/interoperability","display_name":"Interoperability","score":0.4114457070827484},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.40545862913131714},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3557547926902771},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.14267751574516296}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.731961727142334},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5257121920585632},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.5156092047691345},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.47195449471473694},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.46892625093460083},{"id":"https://openalex.org/C175309249","wikidata":"https://www.wikidata.org/wiki/Q725864","display_name":"Pipeline transport","level":2,"score":0.4650128483772278},{"id":"https://openalex.org/C20136886","wikidata":"https://www.wikidata.org/wiki/Q749647","display_name":"Interoperability","level":2,"score":0.4114457070827484},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.40545862913131714},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3557547926902771},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.14267751574516296},{"id":"https://openalex.org/C87717796","wikidata":"https://www.wikidata.org/wiki/Q146326","display_name":"Environmental engineering","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2484762.2484827","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2484762.2484827","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the Conference on Extreme Science and Engineering Discovery Environment: Gateway to Discovery","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G7647730357","display_name":null,"funder_award_id":"R24HL085343","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320310598","display_name":"Amazon Web Services","ror":"https://ror.org/04mv4n011"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W110825830","https://openalex.org/W259012431","https://openalex.org/W1965856472","https://openalex.org/W2001938458","https://openalex.org/W2005112508","https://openalex.org/W2009900694","https://openalex.org/W2061596350","https://openalex.org/W2065783627","https://openalex.org/W2088379928","https://openalex.org/W2136482257","https://openalex.org/W4249504476"],"related_works":["https://openalex.org/W4380433113","https://openalex.org/W4386072068","https://openalex.org/W252339960","https://openalex.org/W2390529043","https://openalex.org/W2378320433","https://openalex.org/W2358343511","https://openalex.org/W2051877971","https://openalex.org/W1970117064","https://openalex.org/W1787170397","https://openalex.org/W4292347844"],"abstract_inverted_index":{"We":[0],"describe":[1],"Globus":[2,54,68],"Genomics,":[3],"a":[4,113,117],"system":[5,23,99],"that":[6],"we":[7],"have":[8],"developed":[9],"for":[10,26],"rapid":[11,105],"analysis":[12,40,106],"of":[13,16,30,37,76,88,107],"large":[14,108],"quantities":[15],"next-generation":[17],"sequencing":[18,48],"(NGS)":[19],"genomic":[20],"data.":[21],"This":[22],"is":[24],"notable":[25],"its":[27],"high":[28],"degree":[29],"end-to-end":[31],"automation,":[32],"which":[33],"encompasses":[34],"every":[35],"stage":[36],"the":[38,53,67,81,95],"data":[39,44],"pipeline":[41],"from":[42],"initial":[43],"access":[45],"(from":[46],"remote":[47],"center":[49],"or":[50],"database,":[51],"by":[52],"Online":[55],"file":[56],"transfer":[57],"system)":[58],"to":[59,103],"on-demand":[60],"resource":[61],"acquisition":[62],"(on":[63],"Amazon":[64],"EC2,":[65],"via":[66],"Provision":[69],"cloud":[70],"manager);":[71],"specification,":[72],"configuration,":[73],"and":[74,85],"reuse":[75],"multi-step":[77],"processing":[78],"pipelines":[79,90],"(via":[80,94],"Galaxy":[82],"workflow":[83],"system);":[84],"efficient":[86],"scheduling":[87],"these":[89],"over":[91],"many":[92],"processors":[93],"Condor":[96],"scheduler).":[97],"The":[98],"allows":[100],"biomedical":[101],"researchers":[102],"perform":[104],"NGS":[109],"datasets":[110],"using":[111],"just":[112],"web":[114],"browser":[115],"in":[116],"fully":[118],"automated":[119],"manner,":[120],"without":[121],"software":[122],"installation.":[123]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":7},{"year":2013,"cited_by_count":3}],"updated_date":"2026-04-11T08:14:18.477133","created_date":"2025-10-10T00:00:00"}
