{"id":"https://openalex.org/W2161701113","doi":"https://doi.org/10.1186/1471-2105-7-365","title":"PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs","display_name":"PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs","publication_year":2006,"publication_date":"2006-07-27","ids":{"openalex":"https://openalex.org/W2161701113","doi":"https://doi.org/10.1186/1471-2105-7-365","mag":"2161701113","pmid":"https://pubmed.ncbi.nlm.nih.gov/16872538"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-7-365","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-7-365","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-365","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-365","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","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":["School of Computer Science, Carleton University, Ottawa, Canada. sylverbullit@hotmail.com","School of Computer Science, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, Carleton University, Ottawa, Canada. sylverbullit@hotmail.com","institution_ids":["https://openalex.org/I67031392"]},{"raw_affiliation_string":"School of Computer Science, 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":["School of Computer Science, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034030643","display_name":"Albert Chan","orcid":null},"institutions":[{"id":"https://openalex.org/I184654094","display_name":"Fayetteville State University","ror":"https://ror.org/03rj92e31","country_code":"US","type":"education","lineage":["https://openalex.org/I184654094"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Albert Chan","raw_affiliation_strings":["Department of Mathematics and Computer Science, Fayetteville State University, Fayetteville, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computer Science, Fayetteville State University, Fayetteville, USA","institution_ids":["https://openalex.org/I184654094"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108501517","display_name":"Jim Cheetham","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":"Jim Cheetham","raw_affiliation_strings":["Department of Biology, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019083176","display_name":"Alex Duong","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":"Alex Duong","raw_affiliation_strings":["Department of Biology, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076978787","display_name":"Andrew Emili","orcid":"https://orcid.org/0000-0001-8995-246X"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Andrew Emili","raw_affiliation_strings":["Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091821428","display_name":"Marinella Gebbia","orcid":"https://orcid.org/0000-0002-2550-2141"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Marinella Gebbia","raw_affiliation_strings":["Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102837838","display_name":"Jack Greenblatt","orcid":"https://orcid.org/0000-0003-1762-2861"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Jack Greenblatt","raw_affiliation_strings":["Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109247962","display_name":"Mathew Jessulat","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":"Mathew Jessulat","raw_affiliation_strings":["Department of Biology, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026080576","display_name":"Nevan J. Krogan","orcid":"https://orcid.org/0000-0003-4902-337X"},"institutions":[{"id":"https://openalex.org/I185261750","display_name":"University of Toronto","ror":"https://ror.org/03dbr7087","country_code":"CA","type":"education","lineage":["https://openalex.org/I185261750"]}],"countries":["CA"],"is_corresponding":false,"raw_author_name":"Nevan Krogan","raw_affiliation_strings":["Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Banting and Best Institute of Medical Research, Department of Medical Genetics and Microbiology, University of Toronto, Toronto, Canada","institution_ids":["https://openalex.org/I185261750"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100647878","display_name":"Xuemei Luo","orcid":"https://orcid.org/0000-0002-8292-6733"},"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":"Xuemei Luo","raw_affiliation_strings":["School of Computer Science, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science, Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]}]},{"author_position":"last","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":true,"raw_author_name":"Ashkan Golshani","raw_affiliation_strings":["Department of Biology, Carleton University, Ottawa, Canada"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Carleton University, Ottawa, Canada","institution_ids":["https://openalex.org/I67031392"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5005719112"],"corresponding_institution_ids":["https://openalex.org/I67031392"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":3.7816,"has_fulltext":true,"cited_by_count":219,"citation_normalized_percentile":{"value":0.93829919,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":95,"max":100},"biblio":{"volume":"7","issue":"1","first_page":"365","last_page":"365"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9760000109672546,"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":0.9760000109672546,"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":0.00430000014603138,"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/T10497","display_name":"Fungal and yeast genetics research","score":0.003599999938160181,"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/tandem-affinity-purification","display_name":"Tandem affinity purification","score":0.8042137622833252},{"id":"https://openalex.org/keywords/saccharomyces-cerevisiae","display_name":"Saccharomyces cerevisiae","score":0.7464777231216431},{"id":"https://openalex.org/keywords/protein\u2013protein-interaction","display_name":"Protein\u2013protein interaction","score":0.7284612655639648},{"id":"https://openalex.org/keywords/yeast","display_name":"Yeast","score":0.6543446779251099},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6215896010398865},{"id":"https://openalex.org/keywords/interaction-network","display_name":"Interaction network","score":0.5776296257972717},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.47215867042541504},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.41319942474365234},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3593483567237854},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3346196115016937},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.23685428500175476}],"concepts":[{"id":"https://openalex.org/C71095615","wikidata":"https://www.wikidata.org/wiki/Q893051","display_name":"Tandem affinity purification","level":4,"score":0.8042137622833252},{"id":"https://openalex.org/C2777576037","wikidata":"https://www.wikidata.org/wiki/Q719725","display_name":"Saccharomyces cerevisiae","level":3,"score":0.7464777231216431},{"id":"https://openalex.org/C11804247","wikidata":"https://www.wikidata.org/wiki/Q896177","display_name":"Protein\u2013protein interaction","level":2,"score":0.7284612655639648},{"id":"https://openalex.org/C2779222958","wikidata":"https://www.wikidata.org/wiki/Q45422","display_name":"Yeast","level":2,"score":0.6543446779251099},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6215896010398865},{"id":"https://openalex.org/C55105296","wikidata":"https://www.wikidata.org/wiki/Q841382","display_name":"Interaction network","level":3,"score":0.5776296257972717},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.47215867042541504},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.41319942474365234},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3593483567237854},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3346196115016937},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.23685428500175476},{"id":"https://openalex.org/C179247698","wikidata":"https://www.wikidata.org/wiki/Q382799","display_name":"Affinity chromatography","level":3,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012441","descriptor_name":"Saccharomyces cerevisiae","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012680","descriptor_name":"Sensitivity and Specificity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020798","descriptor_name":"Two-Hybrid System Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020798","descriptor_name":"Two-Hybrid System Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020798","descriptor_name":"Two-Hybrid System Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D029701","descriptor_name":"Saccharomyces cerevisiae Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":8,"locations":[{"id":"doi:10.1186/1471-2105-7-365","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-7-365","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-365","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:16872538","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/16872538","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:utoronto.scholaris.ca:1807/83051","is_oa":true,"landing_page_url":"http://hdl.handle.net/1807/83051","pdf_url":"https://utoronto.scholaris.ca/bitstreams/65c7b7a4-b898-4be3-aaad-f88ebc31f7a2/download","source":{"id":"https://openalex.org/S4306400261","display_name":"TSpace (University of Toronto)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I185261750","host_organization_name":"University of Toronto","host_organization_lineage":["https://openalex.org/I185261750"],"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":"Article"},{"id":"pmh:oai:carleton.ca:2902","is_oa":true,"landing_page_url":"https://ir.library.carleton.ca/pub/2902","pdf_url":null,"source":{"id":"https://openalex.org/S4306402514","display_name":"Carleton University's Institutional Repository (MacOdrum Library, Carleton University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics vol. 7","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:digitalcommons.uncfsu.edu:college_health_science_technology-2078","is_oa":false,"landing_page_url":"https://digitalcommons.uncfsu.edu/college_health_science_technology/1079","pdf_url":null,"source":{"id":"https://openalex.org/S4306400276","display_name":"DigitalCommons@Fayetteville State University (Fayetteville State University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I184654094","host_organization_name":"Fayetteville State University","host_organization_lineage":["https://openalex.org/I184654094"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"College of Health, Science, and Technology","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:312cbfe5019c4b3c934b20422c98925f","is_oa":false,"landing_page_url":"https://doaj.org/article/312cbfe5019c4b3c934b20422c98925f","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 7, Iss 1, p 365 (2006)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:351035","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/1557541","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:localhost:1807/83051","is_oa":false,"landing_page_url":"http://doi.org/10.1186/1471-2105-7-365","pdf_url":null,"source":{"id":"https://openalex.org/S4306400261","display_name":"TSpace (University of Toronto)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I185261750","host_organization_name":"University of Toronto","host_organization_lineage":["https://openalex.org/I185261750"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-7-365","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-7-365","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-7-365","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/8","display_name":"Decent work and economic growth","score":0.5899999737739563}],"awards":[],"funders":[{"id":"https://openalex.org/F4320334593","display_name":"Natural Sciences and Engineering Research Council of Canada","ror":"https://ror.org/01h531d29"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2161701113.pdf","grobid_xml":"https://content.openalex.org/works/W2161701113.grobid-xml"},"referenced_works_count":122,"referenced_works":["https://openalex.org/W113156574","https://openalex.org/W1486817521","https://openalex.org/W1496012458","https://openalex.org/W1533936090","https://openalex.org/W1536757970","https://openalex.org/W1575542444","https://openalex.org/W1588911128","https://openalex.org/W1714107821","https://openalex.org/W1876870399","https://openalex.org/W1884509322","https://openalex.org/W1933949953","https://openalex.org/W1969679124","https://openalex.org/W1975620486","https://openalex.org/W1976408638","https://openalex.org/W1977186059","https://openalex.org/W1979330259","https://openalex.org/W1979440251","https://openalex.org/W1982267716","https://openalex.org/W1985028809","https://openalex.org/W1987705964","https://openalex.org/W1990144966","https://openalex.org/W1994191814","https://openalex.org/W2000912535","https://openalex.org/W2001375348","https://openalex.org/W2001457899","https://openalex.org/W2011760949","https://openalex.org/W2013947447","https://openalex.org/W2013970469","https://openalex.org/W2019662299","https://openalex.org/W2022196194","https://openalex.org/W2027857314","https://openalex.org/W2036686552","https://openalex.org/W2037036397","https://openalex.org/W2037442572","https://openalex.org/W2040411864","https://openalex.org/W2041184037","https://openalex.org/W2042688172","https://openalex.org/W2045131140","https://openalex.org/W2047148652","https://openalex.org/W2047228180","https://openalex.org/W2050721857","https://openalex.org/W2052033556","https://openalex.org/W2056507768","https://openalex.org/W2057885377","https://openalex.org/W2060875411","https://openalex.org/W2065304353","https://openalex.org/W2065933707","https://openalex.org/W2068781400","https://openalex.org/W2069200751","https://openalex.org/W2069309708","https://openalex.org/W2080922074","https://openalex.org/W2082367094","https://openalex.org/W2083002999","https://openalex.org/W2083978969","https://openalex.org/W2084619201","https://openalex.org/W2095347614","https://openalex.org/W2096330480","https://openalex.org/W2097463865","https://openalex.org/W2099862356","https://openalex.org/W2099982459","https://openalex.org/W2101803429","https://openalex.org/W2102110363","https://openalex.org/W2102585686","https://openalex.org/W2103729016","https://openalex.org/W2107340752","https://openalex.org/W2107424557","https://openalex.org/W2109715166","https://openalex.org/W2109872885","https://openalex.org/W2116117181","https://openalex.org/W2116447934","https://openalex.org/W2116887390","https://openalex.org/W2117720828","https://openalex.org/W2118980512","https://openalex.org/W2120973253","https://openalex.org/W2121507105","https://openalex.org/W2123280311","https://openalex.org/W2127230663","https://openalex.org/W2128888818","https://openalex.org/W2129448726","https://openalex.org/W2130687290","https://openalex.org/W2130790725","https://openalex.org/W2132582966","https://openalex.org/W2133654213","https://openalex.org/W2134541695","https://openalex.org/W2134962976","https://openalex.org/W2135793835","https://openalex.org/W2136957665","https://openalex.org/W2137786672","https://openalex.org/W2141144953","https://openalex.org/W2141652419","https://openalex.org/W2144014661","https://openalex.org/W2145340217","https://openalex.org/W2146312020","https://openalex.org/W2146422967","https://openalex.org/W2147736120","https://openalex.org/W2149676146","https://openalex.org/W2149739727","https://openalex.org/W2150452800","https://openalex.org/W2150926065","https://openalex.org/W2151464048","https://openalex.org/W2152444476","https://openalex.org/W2152568394","https://openalex.org/W2153283265","https://openalex.org/W2155281512","https://openalex.org/W2155436344","https://openalex.org/W2156997922","https://openalex.org/W2158455641","https://openalex.org/W2160223331","https://openalex.org/W2160690759","https://openalex.org/W2163485494","https://openalex.org/W2164021883","https://openalex.org/W2164080421","https://openalex.org/W2164328371","https://openalex.org/W2166647018","https://openalex.org/W2167869241","https://openalex.org/W2168549338","https://openalex.org/W2168708357","https://openalex.org/W2168909179","https://openalex.org/W2169382386","https://openalex.org/W2172179890","https://openalex.org/W2413619980","https://openalex.org/W4236956086"],"related_works":["https://openalex.org/W2028107853","https://openalex.org/W1982584572","https://openalex.org/W4232406862","https://openalex.org/W4210617669","https://openalex.org/W2397070560","https://openalex.org/W4229728790","https://openalex.org/W2800059693","https://openalex.org/W3048595523","https://openalex.org/W2161701113","https://openalex.org/W2100434392"],"abstract_inverted_index":{"BACKGROUND:":[0],"Identification":[1],"of":[2,39,45,58,71,79,106,121,125,160,186,203,214,222,236,239,247,251,254,266,318,330,341],"protein":[3,112,287,320],"interaction":[4,113,145,174],"networks":[5],"has":[6],"received":[7],"considerable":[8],"attention":[9],"in":[10,293],"the":[11,37,54,80,91,100,133,158,184,200,234,240,245,255,264,315,339,342],"post-genomic":[12],"era.":[13],"The":[14,172,322],"currently":[15],"available":[16],"biochemical":[17,137],"approaches":[18],"used":[19,136,195,272,312],"to":[20,129,157,188,198,273,285,313,335],"detect":[21],"protein-protein":[22,73,191,305,344],"interactions":[23,74,288],"are":[24,43,290],"all":[25],"time":[26],"and":[27,56,89,117,149,217],"labour":[28],"intensive.":[29],"Consequently":[30],"there":[31],"is":[32,69,127],"a":[33,59,104,143,161,215,218,237,252,327],"growing":[34],"need":[35,92],"for":[36,75,93,108,277,338],"development":[38,55],"computational":[40],"tools":[41],"that":[42,165,210,233,289,326],"capable":[44,70],"effectively":[46],"identifying":[47],"such":[48],"interactions.":[49,192,306,345],"RESULTS:":[50],"Here":[51],"we":[52,141,167],"explain":[53],"implementation":[57],"novel":[60,144,162,190],"Protein-Protein":[61],"Interaction":[62],"Prediction":[63],"Engine":[64],"termed":[65],"PIPE.":[66],"This":[67,123,154],"tool":[68],"predicting":[72],"any":[76,94,110],"target":[77],"pair":[78],"yeast":[81,111,152,163,223,275,295,304,319,343],"Saccharomyces":[82],"cerevisiae":[83],"proteins":[84,276],"from":[85,207],"their":[86],"primary":[87],"structure":[88],"without":[90],"additional":[95],"information":[96],"or":[97],"predictions":[98],"about":[99],"proteins.":[101,153],"PIPE":[102,187,196,208,269,300,308],"showed":[103],"sensitivity":[105],"61%":[107],"detecting":[109],"with":[114,132,228,244],"89%":[115],"specificity":[116],"an":[118],"overall":[119],"accuracy":[120],"75%.":[122],"rate":[124],"success":[126],"comparable":[128],"those":[130],"associated":[131],"most":[134],"commonly":[135],"techniques.":[138],"Using":[139],"PIPE,":[140],"identified":[142],"between":[146],"YGL227W":[147],"(vid30)":[148],"YMR135C":[150],"(gid8)":[151],"lead":[155],"us":[156,284],"identification":[159],"complex":[164,170],"here":[166],"term":[168],"vid30":[169],"(vid30c).":[171],"observed":[173],"was":[175],"confirmed":[176],"by":[177],"tandem":[178],"affinity":[179],"purification":[180],"(TAP":[181],"tag),":[182],"verifying":[183],"ability":[185],"predict":[189,286,303],"We":[193],"then":[194],"analysis":[197,209,231,301,309],"investigate":[199],"internal":[201,316],"architecture":[202,317],"vid30c.":[204,267],"It":[205],"appeared":[206],"vid30c":[211],"may":[212],"consist":[213],"core":[216,241],"secondary":[219,256],"component.":[220],"Generation":[221],"gene":[224],"deletion":[225,235,250],"strains":[226],"combined":[227],"TAP":[229,279,296],"tagging":[230,280,297],"indicated":[232],"member":[238,253],"component":[242,257],"interfered":[243],"formation":[246,265],"vid30c,":[248],"however,":[249],"had":[258],"little":[259],"effect":[260],"(if":[261],"any)":[262],"on":[263],"Also,":[268,307],"can":[270,302,310],"be":[271,311,336],"analyse":[274],"which":[278],"fails,":[281],"thereby":[282],"allowing":[283],"not":[291],"included":[292],"genome-wide":[294],"projects.":[298],"CONCLUSION:":[299],"study":[314],"complexes.":[321],"data":[323],"also":[324],"suggests":[325],"finite":[328],"set":[329],"short":[331],"polypeptide":[332],"signals":[333],"seem":[334],"responsible":[337],"majority":[340]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":13},{"year":2022,"cited_by_count":11},{"year":2021,"cited_by_count":14},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":13},{"year":2018,"cited_by_count":12},{"year":2017,"cited_by_count":19},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":20},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":12},{"year":2012,"cited_by_count":10}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}