{"id":"https://openalex.org/W2033441138","doi":"https://doi.org/10.1093/nar/gkq320","title":"PANDORA: analysis of protein and peptide sets through the hierarchical integration of annotations","display_name":"PANDORA: analysis of protein and peptide sets through the hierarchical integration of annotations","publication_year":2010,"publication_date":"2010-05-05","ids":{"openalex":"https://openalex.org/W2033441138","doi":"https://doi.org/10.1093/nar/gkq320","mag":"2033441138","pmid":"https://pubmed.ncbi.nlm.nih.gov/20444873"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkq320","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq320","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W84/3839209/gkq320.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W84/3839209/gkq320.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5080111333","display_name":"Nadav Rappoport","orcid":"https://orcid.org/0000-0002-7218-2558"},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"N. Rappoport","raw_affiliation_strings":["School of Computer Science and Engineering, The Hebrew University of Jerusalem, Israel","School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, The Hebrew University of Jerusalem, Israel","institution_ids":["https://openalex.org/I197251160"]},{"raw_affiliation_string":"School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel","institution_ids":["https://openalex.org/I197251160"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051946088","display_name":"Menachem Fromer","orcid":"https://orcid.org/0000-0003-3749-4342"},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"M. Fromer","raw_affiliation_strings":["School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel","institution_ids":["https://openalex.org/I197251160"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018580936","display_name":"Regina Schweiger","orcid":null},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"R. Schweiger","raw_affiliation_strings":["School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel","institution_ids":["https://openalex.org/I197251160"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085924022","display_name":"Michal Linial","orcid":"https://orcid.org/0000-0002-9357-4526"},"institutions":[{"id":"https://openalex.org/I197251160","display_name":"Hebrew University of Jerusalem","ror":"https://ror.org/03qxff017","country_code":"IL","type":"education","lineage":["https://openalex.org/I197251160"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"M. Linial","raw_affiliation_strings":["School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, 2Department of Biological Chemistry, Institute of Life Sciences and 3The Sudarsky Center for Computational Biology, The Hebrew University of Jerusalem, Israel","institution_ids":["https://openalex.org/I197251160"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.6807,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.68913184,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"38","issue":"Web Server","first_page":"W84","last_page":"W89"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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":0.9997000098228455,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.998199999332428,"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/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"}}],"keywords":[{"id":"https://openalex.org/keywords/uniprot","display_name":"UniProt","score":0.8423453569412231},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7979030609130859},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6340778470039368},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5949310064315796},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.5313031673431396},{"id":"https://openalex.org/keywords/proteomics","display_name":"Proteomics","score":0.5204486846923828},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"Protein function prediction","score":0.483437180519104},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.46355119347572327},{"id":"https://openalex.org/keywords/proteogenomics","display_name":"Proteogenomics","score":0.4551721215248108},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.43417567014694214},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.41234344244003296},{"id":"https://openalex.org/keywords/homology","display_name":"Homology (biology)","score":0.4109591841697693},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.3781681954860687},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.31864601373672485},{"id":"https://openalex.org/keywords/protein-function","display_name":"Protein function","score":0.12104099988937378}],"concepts":[{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.8423453569412231},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7979030609130859},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6340778470039368},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5949310064315796},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.5313031673431396},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.5204486846923828},{"id":"https://openalex.org/C207060522","wikidata":"https://www.wikidata.org/wiki/Q7251473","display_name":"Protein function prediction","level":4,"score":0.483437180519104},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.46355119347572327},{"id":"https://openalex.org/C145741570","wikidata":"https://www.wikidata.org/wiki/Q7251534","display_name":"Proteogenomics","level":5,"score":0.4551721215248108},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.43417567014694214},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.41234344244003296},{"id":"https://openalex.org/C165525559","wikidata":"https://www.wikidata.org/wiki/Q224180","display_name":"Homology (biology)","level":3,"score":0.4109591841697693},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.3781681954860687},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.31864601373672485},{"id":"https://openalex.org/C2986374874","wikidata":"https://www.wikidata.org/wiki/Q8054","display_name":"Protein function","level":3,"score":0.12104099988937378}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003627","descriptor_name":"Data Interpretation, Statistical","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":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D010455","descriptor_name":"Peptides","qualifier_ui":"Q000502","qualifier_name":"physiology","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":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","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":"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":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013058","descriptor_name":"Mass Spectrometry","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/nar/gkq320","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq320","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W84/3839209/gkq320.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:20444873","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20444873","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:open-archive.highwire.org:nar:38/suppl_2/W84","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/38/suppl_2/W84","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"},{"id":"pmh:oai:pubmedcentral.nih.gov:2896089","is_oa":true,"landing_page_url":"http://doi.org/10.1093/nar/gkq320","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gkq320","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkq320","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_2/W84/3839209/gkq320.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W1527927437","https://openalex.org/W2065643323","https://openalex.org/W2069399904","https://openalex.org/W2091789479","https://openalex.org/W2096039184","https://openalex.org/W2097795961","https://openalex.org/W2110065044","https://openalex.org/W2110115297","https://openalex.org/W2117942296","https://openalex.org/W2127938920","https://openalex.org/W2138247507","https://openalex.org/W2146585102"],"related_works":["https://openalex.org/W2039997444","https://openalex.org/W2144791567","https://openalex.org/W1872959741","https://openalex.org/W2538694025","https://openalex.org/W2061992841","https://openalex.org/W1976142521","https://openalex.org/W4383032973","https://openalex.org/W2802295160","https://openalex.org/W2977445573","https://openalex.org/W14859557"],"abstract_inverted_index":{"Derivation":[0],"of":[1,7,39,47,74,76,91,97,114,127,164],"biological":[2,72,110],"meaning":[3],"from":[4,24,118,155],"large":[5,125],"sets":[6,21,38,75],"proteins":[8,42],"or":[9,41,79,191],"genes":[10,40],"is":[11,86,174,202],"a":[12,67,89,102,124,161],"frequent":[13],"task":[14],"in":[15,112],"genomic":[16],"and":[17,32,54,140,168,194],"proteomic":[18],"studies.":[19],"Such":[20],"often":[22],"arise":[23],"experimental":[25],"methods":[26,49],"including":[27,180],"large-scale":[28],"gene":[29],"expression":[30],"experiments":[31],"mass":[33],"spectrometry":[34],"(MS)":[35],"proteomics.":[36],"Large":[37],"are":[43],"also":[44,187],"the":[45,60,70,83,98,165,198],"outcome":[46],"computational":[48],"such":[50],"as":[51,66],"BLAST":[52],"search":[53],"homology-based":[55],"classifications.":[56],"We":[57],"have":[58],"developed":[59],"PANDORA":[61,122,200],"web":[62],"server,":[63],"which":[64,105],"functions":[65],"platform":[68],"for":[69,170],"advanced":[71],"analysis":[73,96],"genes,":[77],"proteins,":[78],"proteolytic":[80],"peptides.":[81],"First,":[82],"input":[84],"set":[85,90,100],"mapped":[87],"to":[88],"corresponding":[92],"proteins.":[93,199],"Then,":[94],"an":[95],"protein":[99],"produces":[101],"graph-based":[103],"hierarchy":[104],"highlights":[106],"intrinsic":[107],"relations":[108],"amongst":[109],"subsets,":[111],"light":[113],"their":[115],"different":[116,146],"annotations":[117],"multiple":[119,171],"annotation":[120,128,147],"resources.":[121],"integrates":[123],"collection":[126],"sources":[129],"(GO,":[130],"UniProt":[131],"Keywords,":[132],"InterPro,":[133],"Enzyme,":[134],"SCOP,":[135],"CATH,":[136],"Gene-3D,":[137],"NCBI":[138],"taxonomy":[139],"more)":[141],"that":[142],"comprise":[143],"approximately":[144,151],"200,000":[145],"terms":[148],"associated":[149],"with":[150],"3.2":[152],"million":[153],"sequences":[154],"UniProtKB.":[156],"Statistical":[157],"enrichment":[158],"based":[159],"on":[160],"binomial":[162],"approximation":[163],"hypergeometric":[166],"distribution":[167],"corrected":[169],"hypothesis":[172],"tests":[173],"calculated":[175],"using":[176],"several":[177],"background":[178],"sets,":[179],"major":[181],"gene-expression":[182],"DNA-chip":[183],"platforms.":[184],"Users":[185],"can":[186],"visualize":[188],"either":[189],"standard":[190],"user-defined":[192],"binary":[193],"quantitative":[195],"properties":[196],"alongside":[197],"4.2":[201],"available":[203],"at":[204],"http://www.pandora.cs.huji.ac.il.":[205]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
