{"id":"https://openalex.org/W2003015662","doi":"https://doi.org/10.1109/bibm.2012.6392678","title":"An advanced method for identifying protein-protein interaction by analyzing TAP/MS data","display_name":"An advanced method for identifying protein-protein interaction by analyzing TAP/MS data","publication_year":2012,"publication_date":"2012-10-01","ids":{"openalex":"https://openalex.org/W2003015662","doi":"https://doi.org/10.1109/bibm.2012.6392678","mag":"2003015662"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2012.6392678","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2012.6392678","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE International Conference on Bioinformatics and Biomedicine","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/A5091053991","display_name":"Xiaoyun Sun","orcid":"https://orcid.org/0000-0002-1622-5840"},"institutions":[{"id":"https://openalex.org/I6902469","display_name":"Brandeis University","ror":"https://ror.org/05abbep66","country_code":"US","type":"education","lineage":["https://openalex.org/I6902469"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiaoyun Sun","raw_affiliation_strings":["Department of Computer Science, Brandeis University, Waltham, MA, USA","Dept. of Comput. Sci., Brandeis Univ., Waltham, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Brandeis University, Waltham, MA, USA","institution_ids":["https://openalex.org/I6902469"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Brandeis Univ., Waltham, MA, USA","institution_ids":["https://openalex.org/I6902469"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033168441","display_name":"Pengyu Hong","orcid":"https://orcid.org/0000-0002-3177-2754"},"institutions":[{"id":"https://openalex.org/I6902469","display_name":"Brandeis University","ror":"https://ror.org/05abbep66","country_code":"US","type":"education","lineage":["https://openalex.org/I6902469"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Pengyu Hong","raw_affiliation_strings":["Department of Computer Science, Brandeis University, Waltham, MA, USA","Dept. of Comput. Sci., Brandeis Univ., Waltham, MA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Brandeis University, Waltham, MA, USA","institution_ids":["https://openalex.org/I6902469"]},{"raw_affiliation_string":"Dept. of Comput. Sci., Brandeis Univ., Waltham, MA, USA","institution_ids":["https://openalex.org/I6902469"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111953458","display_name":"Meghana Kulkarni","orcid":null},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Meghana Kulkarni","raw_affiliation_strings":["Department of Genetics, Harvard Medical School, Boston, MA, USA","Department of Genetics, Harvard Medical School Boston MA USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Harvard Medical School, Boston, MA, USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Genetics, Harvard Medical School Boston MA USA","institution_ids":["https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031473691","display_name":"Young V. Kwon","orcid":"https://orcid.org/0000-0002-8937-3182"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Young Kwon","raw_affiliation_strings":["Department of Genetics, Harvard Medical School, Boston, MA, USA","Department of Genetics, Harvard Medical School Boston MA USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Harvard Medical School, Boston, MA, USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Genetics, Harvard Medical School Boston MA USA","institution_ids":["https://openalex.org/I136199984"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5071083794","display_name":"Norbert Perrimon","orcid":"https://orcid.org/0000-0001-7542-472X"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Norbert Perrimon","raw_affiliation_strings":["Department of Genetics, Harvard Medical School, Boston, MA, USA","Department of Genetics, Harvard Medical School Boston MA USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, Harvard Medical School, Boston, MA, USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Department of Genetics, Harvard Medical School Boston MA USA","institution_ids":["https://openalex.org/I136199984"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"404","issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9955999851226807,"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":0.9955999851226807,"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":0.9951000213623047,"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":0.9905999898910522,"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":0.6881449222564697},{"id":"https://openalex.org/keywords/tandem-affinity-purification","display_name":"Tandem affinity purification","score":0.6755593419075012},{"id":"https://openalex.org/keywords/tandem-mass-spectrometry","display_name":"Tandem mass spectrometry","score":0.5167950391769409},{"id":"https://openalex.org/keywords/throughput","display_name":"Throughput","score":0.431713342666626},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.41933396458625793},{"id":"https://openalex.org/keywords/mass-spectrometry","display_name":"Mass spectrometry","score":0.3775283694267273},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33209970593452454},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.21736866235733032},{"id":"https://openalex.org/keywords/chromatography","display_name":"Chromatography","score":0.19613495469093323},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.0869361162185669}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6881449222564697},{"id":"https://openalex.org/C71095615","wikidata":"https://www.wikidata.org/wiki/Q893051","display_name":"Tandem affinity purification","level":4,"score":0.6755593419075012},{"id":"https://openalex.org/C31827203","wikidata":"https://www.wikidata.org/wiki/Q874296","display_name":"Tandem mass spectrometry","level":3,"score":0.5167950391769409},{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.431713342666626},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.41933396458625793},{"id":"https://openalex.org/C162356407","wikidata":"https://www.wikidata.org/wiki/Q180809","display_name":"Mass spectrometry","level":2,"score":0.3775283694267273},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33209970593452454},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.21736866235733032},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.19613495469093323},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0869361162185669},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0},{"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/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/bibm.2012.6392678","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2012.6392678","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE International Conference on Bioinformatics and Biomedicine","raw_type":"proceedings-article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.466.8592","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.466.8592","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://combio.cs.brandeis.edu/hong/Research/e_paper/APPIC.BIBM2012.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W1499561015","https://openalex.org/W1544276658","https://openalex.org/W1561443084","https://openalex.org/W1579879095","https://openalex.org/W1992842030","https://openalex.org/W1999330819","https://openalex.org/W2000225283","https://openalex.org/W2000832682","https://openalex.org/W2002772642","https://openalex.org/W2006778392","https://openalex.org/W2014887370","https://openalex.org/W2019966198","https://openalex.org/W2023098599","https://openalex.org/W2025447674","https://openalex.org/W2038368473","https://openalex.org/W2047077861","https://openalex.org/W2048839385","https://openalex.org/W2050721857","https://openalex.org/W2063650222","https://openalex.org/W2084619201","https://openalex.org/W2104162921","https://openalex.org/W2105488539","https://openalex.org/W2105667821","https://openalex.org/W2106969933","https://openalex.org/W2116117181","https://openalex.org/W2127108219","https://openalex.org/W2129149076","https://openalex.org/W2139939149","https://openalex.org/W2141176980","https://openalex.org/W2168854535","https://openalex.org/W2169113998","https://openalex.org/W2171662214"],"related_works":["https://openalex.org/W2117757462","https://openalex.org/W2046839434","https://openalex.org/W2412269329","https://openalex.org/W2354918492","https://openalex.org/W2806830923","https://openalex.org/W2012322086","https://openalex.org/W2320007444","https://openalex.org/W2058530152","https://openalex.org/W2103021125","https://openalex.org/W2051901836"],"abstract_inverted_index":{"Tandem":[0],"affinity":[1],"purification":[2],"coupled":[3],"with":[4],"mass-spectrometry":[5],"(TAP/MS)":[6],"analysis":[7,24],"has":[8],"been":[9],"increasingly":[10],"used":[11],"to":[12],"identify":[13],"novel":[14],"endogenous":[15],"protein-protein":[16],"interactions":[17],"(PPIs)":[18],"in":[19],"a":[20],"high-throughput":[21],"manner.":[22],"Computational":[23],"of":[25,35,39],"TAP/MS":[26,51],"data":[27],"is":[28,69],"critical,":[29],"however,":[30],"and":[31,68],"remains":[32],"challenging":[33],"because":[34],"the":[36,40],"noisy":[37],"nature":[38],"data.":[41,52],"We":[42],"developed":[43],"an":[44,64],"advanced":[45],"method":[46,67],"for":[47,58],"identifying":[48],"PPIs":[49],"from":[50],"Our":[53],"approach":[54],"APPIC,":[55],"which":[56],"stands":[57],"Advanced":[59],"Protein-Protein":[60],"Interactions":[61],"Capturing,":[62],"incorporates":[63],"improved":[65],"statistical":[66],"more":[70],"powerful":[71],"than":[72],"existing":[73],"tools.":[74]},"counts_by_year":[{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2025-10-10T00:00:00"}
