{"id":"https://openalex.org/W2148688069","doi":"https://doi.org/10.1109/tcbb.2014.2361327","title":"RBioCloud: A Light-Weight Framework for Bioconductor and R-based Jobs on the Cloud","display_name":"RBioCloud: A Light-Weight Framework for Bioconductor and R-based Jobs on the Cloud","publication_year":2014,"publication_date":"2014-10-02","ids":{"openalex":"https://openalex.org/W2148688069","doi":"https://doi.org/10.1109/tcbb.2014.2361327","mag":"2148688069","pmid":"https://pubmed.ncbi.nlm.nih.gov/26357328"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2014.2361327","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2361327","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://research-repository.st-andrews.ac.uk/bitstream/10023/6061/1/06915694.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5074563743","display_name":"Blesson Varghese","orcid":"https://orcid.org/0000-0001-8392-832X"},"institutions":[{"id":"https://openalex.org/I16835326","display_name":"University of St Andrews","ror":"https://ror.org/02wn5qz54","country_code":"GB","type":"education","lineage":["https://openalex.org/I16835326"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Blesson Varghese","raw_affiliation_strings":["School of Computer Science, University of St Andrews, Fife, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of St Andrews, Fife, United Kingdom","institution_ids":["https://openalex.org/I16835326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060243661","display_name":"Ishan Patel","orcid":"https://orcid.org/0000-0001-5537-9386"},"institutions":[{"id":"https://openalex.org/I4210113654","display_name":"IBM (Canada)","ror":"https://ror.org/025sxka56","country_code":"CA","type":"company","lineage":["https://openalex.org/I1341412227","https://openalex.org/I4210113654"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Ishan Patel","raw_affiliation_strings":["IBM Canada Ltd, Markham, ON L3R 9Z7, Canada"],"affiliations":[{"raw_affiliation_string":"IBM Canada Ltd, Markham, ON L3R 9Z7, Canada","institution_ids":["https://openalex.org/I4210113654"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5057205845","display_name":"Adam Barker","orcid":"https://orcid.org/0000-0002-0463-7207"},"institutions":[{"id":"https://openalex.org/I16835326","display_name":"University of St Andrews","ror":"https://ror.org/02wn5qz54","country_code":"GB","type":"education","lineage":["https://openalex.org/I16835326"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Adam Barker","raw_affiliation_strings":["School of Computer Science, University of St Andrews, Fife, United Kingdom"],"affiliations":[{"raw_affiliation_string":"School of Computer Science, University of St Andrews, Fife, United Kingdom","institution_ids":["https://openalex.org/I16835326"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5074563743"],"corresponding_institution_ids":["https://openalex.org/I16835326"],"apc_list":null,"apc_paid":null,"fwci":0.1426,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.55635354,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"12","issue":"4","first_page":"871","last_page":"878"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9976999759674072,"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"}},"topics":[{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9976999759674072,"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"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9876999855041504,"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"}},{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9725000262260437,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.878535270690918},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7985817193984985},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.664082407951355},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.6347047090530396},{"id":"https://openalex.org/keywords/dashboard","display_name":"Dashboard","score":0.5993097424507141},{"id":"https://openalex.org/keywords/analytics","display_name":"Analytics","score":0.5880239605903625},{"id":"https://openalex.org/keywords/bioconductor","display_name":"Bioconductor","score":0.5287753343582153},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.42399781942367554},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.4206539988517761},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.38067305088043213},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.3460840582847595},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.33528411388397217},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.29115521907806396},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.2786714732646942},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.09334155917167664}],"concepts":[{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.878535270690918},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7985817193984985},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.664082407951355},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.6347047090530396},{"id":"https://openalex.org/C33499554","wikidata":"https://www.wikidata.org/wiki/Q1417134","display_name":"Dashboard","level":2,"score":0.5993097424507141},{"id":"https://openalex.org/C79158427","wikidata":"https://www.wikidata.org/wiki/Q485396","display_name":"Analytics","level":2,"score":0.5880239605903625},{"id":"https://openalex.org/C2779694297","wikidata":"https://www.wikidata.org/wiki/Q2888953","display_name":"Bioconductor","level":3,"score":0.5287753343582153},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.42399781942367554},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.4206539988517761},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.38067305088043213},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.3460840582847595},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.33528411388397217},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.29115521907806396},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.2786714732646942},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.09334155917167664},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000067917","descriptor_name":"Cloud Computing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000067917","descriptor_name":"Cloud Computing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000067917","descriptor_name":"Cloud Computing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1109/tcbb.2014.2361327","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2361327","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26357328","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26357328","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":null},{"id":"pmh:oai:research-repository.st-andrews.ac.uk:10023/6061","is_oa":true,"landing_page_url":"https://hdl.handle.net/10023/6061","pdf_url":"https://research-repository.st-andrews.ac.uk/bitstream/10023/6061/1/06915694.pdf","source":{"id":"https://openalex.org/S4306400230","display_name":"St Andrews Research Repository (St Andrews Research Repository)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I16835326","host_organization_name":"University of St Andrews","host_organization_lineage":["https://openalex.org/I16835326"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.691.4267","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.691.4267","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://research-repository.st-andrews.ac.uk/bitstream/10023/6061/1/06915694.pdf","raw_type":"text"}],"best_oa_location":{"id":"pmh:oai:research-repository.st-andrews.ac.uk:10023/6061","is_oa":true,"landing_page_url":"https://hdl.handle.net/10023/6061","pdf_url":"https://research-repository.st-andrews.ac.uk/bitstream/10023/6061/1/06915694.pdf","source":{"id":"https://openalex.org/S4306400230","display_name":"St Andrews Research Repository (St Andrews Research Repository)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I16835326","host_organization_name":"University of St Andrews","host_organization_lineage":["https://openalex.org/I16835326"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.6600000262260437,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2148688069.pdf"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W52410658","https://openalex.org/W1533335653","https://openalex.org/W1759510101","https://openalex.org/W1972831383","https://openalex.org/W1990073900","https://openalex.org/W1997512351","https://openalex.org/W2011411346","https://openalex.org/W2023116290","https://openalex.org/W2024728905","https://openalex.org/W2024872854","https://openalex.org/W2038397847","https://openalex.org/W2053462745","https://openalex.org/W2055459874","https://openalex.org/W2064704940","https://openalex.org/W2065783627","https://openalex.org/W2073536358","https://openalex.org/W2074089196","https://openalex.org/W2103487267","https://openalex.org/W2121762798","https://openalex.org/W2128491398","https://openalex.org/W2131072552","https://openalex.org/W2131229759","https://openalex.org/W2133990756","https://openalex.org/W2135277010","https://openalex.org/W2142432438","https://openalex.org/W2157795344","https://openalex.org/W2160697532","https://openalex.org/W2160777802","https://openalex.org/W2161845758","https://openalex.org/W2164839434","https://openalex.org/W2167283581","https://openalex.org/W2169328938","https://openalex.org/W2169659816","https://openalex.org/W2533392273","https://openalex.org/W2582743722","https://openalex.org/W4233387794","https://openalex.org/W4294107304","https://openalex.org/W6637891420","https://openalex.org/W6643339455"],"related_works":["https://openalex.org/W2135678793","https://openalex.org/W2109288169","https://openalex.org/W4223449272","https://openalex.org/W2978247079","https://openalex.org/W2166887457","https://openalex.org/W2148708580","https://openalex.org/W3037604406","https://openalex.org/W4286750062","https://openalex.org/W2901307568","https://openalex.org/W2973053048"],"abstract_inverted_index":{"Large-scale":[0],"ad":[1],"hoc":[2],"analytics":[3],"of":[4,41,79,139,153,163],"genomic":[5],"data":[6,104,149],"is":[7,112,131,167],"popular":[8],"using":[9,124],"the":[10,46,70,73,80,95,101,107,145,148,151,154,161],"R-programming":[11],"language":[12],"supported":[13],"by":[14,20,45,106],"over":[15],"700":[16],"software":[17],"packages":[18],"provided":[19],"Bioconductor.":[21],"More":[22],"recently,":[23],"analytical":[24,55,84],"jobs":[25,85],"are":[26,43],"benefitting":[27],"from":[28,169],"on-demand":[29],"computing":[30],"and":[31,35,50,57,103,133,150],"storage,":[32],"their":[33,36,61],"scalability":[34],"low":[37],"maintenance":[38],"cost,":[39],"all":[40],"which":[42],"offered":[44],"cloud.":[47],"While":[48],"biologists":[49],"bioinformaticists":[51],"can":[52,86,109],"take":[53],"an":[54],"job":[56,71,108],"execute":[58,69],"it":[59,64],"on":[60,72,94],"personal":[62],"workstations,":[63],"remains":[65],"challenging":[66],"to":[67,128],"seamlessly":[68],"cloud":[74,81,146],"infrastructure":[75],"without":[76],"extensive":[77],"knowledge":[78],"dashboard.":[82],"How":[83],"not":[87],"only":[88],"with":[89],"minimum":[90],"effort":[91],"be":[92,110],"executed":[93],"cloud,":[96],"but":[97],"also":[98],"how":[99],"both":[100],"resources":[102],"required":[105],"managed":[111],"explored":[113],"in":[114],"this":[115],"paper.":[116],"An":[117],"open-source":[118],"light-weight":[119],"framework":[120,166],"for":[121,143],"executing":[122],"R-scripts":[123],"Bioconductor":[125],"packages,":[126],"referred":[127],"as":[129],"`RBioCloud',":[130],"designed":[132],"developed.":[134],"RBioCloud":[135],"offers":[136],"a":[137],"set":[138],"simple":[140],"command-line":[141],"tools":[142],"managing":[144],"resources,":[147],"execution":[152],"job.":[155],"Three":[156],"biological":[157],"test":[158],"cases":[159],"validate":[160],"feasibility":[162],"RBioCloud.":[164],"The":[165],"available":[168],"http://www.rbiocloud.com.":[170]},"counts_by_year":[{"year":2016,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
