{"id":"https://openalex.org/W2132438828","doi":"https://doi.org/10.1145/1995896.1995946","title":"MP-PIPE","display_name":"MP-PIPE","publication_year":2011,"publication_date":"2011-05-31","ids":{"openalex":"https://openalex.org/W2132438828","doi":"https://doi.org/10.1145/1995896.1995946","mag":"2132438828"},"language":"en","primary_location":{"id":"doi:10.1145/1995896.1995946","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1995896.1995946","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the international conference on Supercomputing","raw_type":"proceedings-article"},"type":"conference-paper","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/A5077984172","display_name":"Andrew Schoenrock","orcid":null},"institutions":[{"id":"https://openalex.org/I67031392","display_name":"Carleton University","ror":"https://ror.org/02qtvee93","country_code":"CA","type":"education","lineage":["https://openalex.org/I67031392"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Andrew Schoenrock","raw_affiliation_strings":["Carleton University, Ottawa, Canada","Carleton University / Ottawa / Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]},{"raw_affiliation_string":"Carleton University / Ottawa / Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113496226","display_name":"Frank Dehne","orcid":null},"institutions":[{"id":"https://openalex.org/I67031392","display_name":"Carleton University","ror":"https://ror.org/02qtvee93","country_code":"CA","type":"education","lineage":["https://openalex.org/I67031392"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Frank Dehne","raw_affiliation_strings":["Carleton University, Ottawa, Canada","Carleton University / Ottawa / Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]},{"raw_affiliation_string":"Carleton University / Ottawa / Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078223816","display_name":"James R. Green","orcid":"https://orcid.org/0000-0002-6039-2355"},"institutions":[{"id":"https://openalex.org/I67031392","display_name":"Carleton University","ror":"https://ror.org/02qtvee93","country_code":"CA","type":"education","lineage":["https://openalex.org/I67031392"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"James R. Green","raw_affiliation_strings":["Carleton University, Ottawa, Canada","Carleton University / Ottawa / Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]},{"raw_affiliation_string":"Carleton University / Ottawa / Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005719112","display_name":"Ashkan Golshani","orcid":"https://orcid.org/0009-0008-9171-6245"},"institutions":[{"id":"https://openalex.org/I67031392","display_name":"Carleton University","ror":"https://ror.org/02qtvee93","country_code":"CA","type":"education","lineage":["https://openalex.org/I67031392"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Ashkan Golshani","raw_affiliation_strings":["Carleton University, Ottawa, Canada","Carleton University / Ottawa / Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]},{"raw_affiliation_string":"Carleton University / Ottawa / Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018171773","display_name":"Sylvain Pitre","orcid":null},"institutions":[{"id":"https://openalex.org/I67031392","display_name":"Carleton University","ror":"https://ror.org/02qtvee93","country_code":"CA","type":"education","lineage":["https://openalex.org/I67031392"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Sylvain Pitre","raw_affiliation_strings":["Carleton University, Ottawa, Canada","Carleton University / Ottawa / Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]},{"raw_affiliation_string":"Carleton University / Ottawa / Canada","institution_ids":["https://openalex.org/I67031392"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I67031392"],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"327","last_page":"337"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9934999942779541,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9904000163078308,"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":0.707222044467926},{"id":"https://openalex.org/keywords/massively-parallel","display_name":"Massively parallel","score":0.6021130084991455},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.5424831509590149},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.4857052266597748},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.42654597759246826},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.19242432713508606},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11310100555419922}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.707222044467926},{"id":"https://openalex.org/C190475519","wikidata":"https://www.wikidata.org/wiki/Q544384","display_name":"Massively parallel","level":2,"score":0.6021130084991455},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.5424831509590149},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.4857052266597748},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.42654597759246826},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.19242432713508606},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11310100555419922},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/1995896.1995946","is_oa":false,"landing_page_url":"https://doi.org/10.1145/1995896.1995946","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the international conference on Supercomputing","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W113156574","https://openalex.org/W145805655","https://openalex.org/W1486854136","https://openalex.org/W1533936090","https://openalex.org/W1977186059","https://openalex.org/W1982267716","https://openalex.org/W1987546980","https://openalex.org/W1987582651","https://openalex.org/W1987705964","https://openalex.org/W1988422871","https://openalex.org/W1992006348","https://openalex.org/W1995117714","https://openalex.org/W2012042319","https://openalex.org/W2023305210","https://openalex.org/W2037433020","https://openalex.org/W2045100386","https://openalex.org/W2045131140","https://openalex.org/W2057885377","https://openalex.org/W2065304353","https://openalex.org/W2074019887","https://openalex.org/W2075582876","https://openalex.org/W2080922074","https://openalex.org/W2097463865","https://openalex.org/W2109715166","https://openalex.org/W2112286591","https://openalex.org/W2117403572","https://openalex.org/W2119603641","https://openalex.org/W2120973253","https://openalex.org/W2127351311","https://openalex.org/W2128888818","https://openalex.org/W2133654213","https://openalex.org/W2144810256","https://openalex.org/W2145753039","https://openalex.org/W2146312020","https://openalex.org/W2147736120","https://openalex.org/W2150452800","https://openalex.org/W2152444476","https://openalex.org/W2152568394","https://openalex.org/W2152705149","https://openalex.org/W2153320040","https://openalex.org/W2161701113","https://openalex.org/W2162041888","https://openalex.org/W2164289561","https://openalex.org/W2166468869","https://openalex.org/W2167398093","https://openalex.org/W2167869241","https://openalex.org/W2168549338","https://openalex.org/W2170525533","https://openalex.org/W2172097289"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W1774183074","https://openalex.org/W2057488824","https://openalex.org/W2334687145","https://openalex.org/W2178011914","https://openalex.org/W4235962491","https://openalex.org/W2061778832","https://openalex.org/W1513001507","https://openalex.org/W2257153718","https://openalex.org/W3134702077"],"abstract_inverted_index":{"Interactions":[0],"among":[1],"proteins":[2],"are":[3,60,187],"essential":[4],"to":[5,34,126,189],"many":[6],"biological":[7],"functions":[8],"in":[9,39,94,200],"living":[10],"cells":[11,202],"but":[12],"experimentally":[13],"detected":[14],"interactions":[15,195],"represent":[16],"only":[17],"a":[18,109,140,155],"small":[19],"fraction":[20],"of":[21,96,133,149,178],"the":[22,36,81,92,100,128,134,176,191],"real":[23],"interaction":[24,28,121,138],"network.":[25],"Computational":[26],"protein":[27,120,137,194],"prediction":[29,43],"methods":[30,44,84],"have":[31],"become":[32],"important":[33],"augment":[35],"experimental":[37],"methods;":[38],"particular":[40],"sequence":[41],"based":[42,160],"that":[45,87],"do":[46],"not":[47,62],"require":[48],"additional":[49],"data":[50],"such":[51],"as":[52,185],"homologous":[53],"sequences":[54],"or":[55],"3D":[56],"structure":[57],"information":[58],"which":[59,145],"often":[61],"available.":[63],"Our":[64],"Protein":[65],"Interaction":[66],"Prediction":[67],"Engine":[68],"(PIPE)":[69],"method":[70,89],"falls":[71],"into":[72],"this":[73],"category.":[74],"Park":[75],"has":[76],"recently":[77],"compared":[78],"PIPE":[79,113],"with":[80,162],"other":[82],"competing":[83],"and":[85,102,168,196],"concluded":[86],"our":[88],"\"significantly":[90],"outperforms":[91],"others":[93],"terms":[95],"recall-precision":[97],"across":[98],"both":[99],"yeast":[101],"human":[103,136,179],"data\".":[104],"Here,":[105],"we":[106],"present":[107],"MP-PIPE,":[108],"new":[110,193,198],"massively":[111,141],"parallel":[112,142],"implementation":[114],"for":[115,175],"large":[116],"scale,":[117],"high":[118],"throughput":[119],"prediction.":[122],"MP-PIPE":[123],"enabled":[124],"us":[125],"perform":[127],"first":[129],"ever":[130],"complete":[131],"scan":[132],"entire":[135],"network;":[139],"computational":[143],"experiment":[144],"took":[146],"three":[147],"months":[148],"full":[150],"time":[151],"24/7":[152],"computation":[153],"on":[154],"dedicated":[156],"SUN":[157],"UltraSparc":[158],"T2+":[159],"cluster":[161],"50":[163],"nodes,":[164],"800":[165],"processor":[166],"cores":[167],"6,400":[169],"hardware":[170],"supported":[171],"threads.":[172],"The":[173],"implications":[174],"understanding":[177],"cell":[180],"function":[181],"will":[182],"be":[183],"significant":[184],"biologists":[186],"starting":[188],"analyze":[190],"130,470":[192],"possible":[197],"pathways":[199],"Human":[201],"predicted":[203],"by":[204],"MP-PIPE.":[205]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2016-06-24T00:00:00"}
