{"id":"https://openalex.org/W2104927669","doi":"https://doi.org/10.2390/biecoll-jib-2010-147","title":"PathJam: a new service for integrating biological pathway information","display_name":"PathJam: a new service for integrating biological pathway information","publication_year":2010,"publication_date":"2010-01-01","ids":{"openalex":"https://openalex.org/W2104927669","doi":"https://doi.org/10.2390/biecoll-jib-2010-147","mag":"2104927669","pmid":"https://pubmed.ncbi.nlm.nih.gov/20980714"},"language":"en","primary_location":{"id":"pmid:20980714","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20980714","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":"Journal of integrative bioinformatics","raw_type":null},"type":"article","indexed_in":["datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doaj.org/article/bb2d2161a564422ca3a8e16e2d07fc39","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":null,"display_name":"Glez-Pe~Na, Daniel","orcid":null},"institutions":[{"id":"https://openalex.org/I6289922","display_name":"Universidade de Vigo","ror":"https://ror.org/05rdf8595","country_code":"ES","type":"education","lineage":["https://openalex.org/I6289922"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Glez-Pe~Na, Daniel","raw_affiliation_strings":["Escuela Superior de Ingenier\u00eda Inform\u00e1tica University of Vigo, Edificio Polit\u00e9cnico, Campus Universitario As Lagoas s/n, 32004 Ourense, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Escuela Superior de Ingenier\u00eda Inform\u00e1tica University of Vigo, Edificio Polit\u00e9cnico, Campus Universitario As Lagoas s/n, 32004 Ourense, Spain","institution_ids":["https://openalex.org/I6289922"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026022133","display_name":"Miguel Reboiro\u2010Jato","orcid":"https://orcid.org/0000-0001-8749-2703"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Reboiro-Jato, Miguel","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027834375","display_name":"R. Dom\u00ednguez","orcid":"https://orcid.org/0000-0003-3405-2389"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Dominguez, Ruben","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053487646","display_name":"Gonzalo Gom\u00e9z-L\u00f3pez","orcid":"https://orcid.org/0000-0002-4146-0551"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Gomez-Lopez, Gonzalo","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079168682","display_name":"David G. Pisano","orcid":"https://orcid.org/0000-0002-4895-4124"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Pisano, David G.","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5048392452","display_name":"Florentino Fdez\u2010Riverola","orcid":"https://orcid.org/0000-0002-3943-8013"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Fdez-Riverola, Florentino","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I6289922"],"apc_list":null,"apc_paid":null,"fwci":0.6805,"has_fulltext":false,"cited_by_count":7,"citation_normalized_percentile":{"value":0.69784743,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"7","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9937999844551086,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9937999844551086,"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":0.7497138977050781},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.6053204536437988},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5929108262062073},{"id":"https://openalex.org/keywords/service","display_name":"Service (business)","score":0.4735780656337738},{"id":"https://openalex.org/keywords/web-service","display_name":"Web service","score":0.4316789507865906},{"id":"https://openalex.org/keywords/biological-pathway","display_name":"Biological pathway","score":0.4217088222503662},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3721969723701477},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10145103931427002},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.08415347337722778},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07601866126060486}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7497138977050781},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.6053204536437988},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5929108262062073},{"id":"https://openalex.org/C2780378061","wikidata":"https://www.wikidata.org/wiki/Q25351891","display_name":"Service (business)","level":2,"score":0.4735780656337738},{"id":"https://openalex.org/C35578498","wikidata":"https://www.wikidata.org/wiki/Q193424","display_name":"Web service","level":2,"score":0.4316789507865906},{"id":"https://openalex.org/C9927688","wikidata":"https://www.wikidata.org/wiki/Q4915012","display_name":"Biological pathway","level":4,"score":0.4217088222503662},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3721969723701477},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10145103931427002},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.08415347337722778},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07601866126060486},{"id":"https://openalex.org/C136264566","wikidata":"https://www.wikidata.org/wiki/Q159810","display_name":"Economy","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","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":"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":"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":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"pmid:20980714","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20980714","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:bb2d2161a564422ca3a8e16e2d07fc39","is_oa":true,"landing_page_url":"https://doaj.org/article/bb2d2161a564422ca3a8e16e2d07fc39","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Integrative Bioinformatics, Vol 7, Iss 1, Pp 97-113 (2010)","raw_type":"article"},{"id":"doi:10.2390/biecoll-jib-2010-147","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2010-147","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"pmh:oai:doaj.org/article:bb2d2161a564422ca3a8e16e2d07fc39","is_oa":true,"landing_page_url":"https://doaj.org/article/bb2d2161a564422ca3a8e16e2d07fc39","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Integrative Bioinformatics, Vol 7, Iss 1, Pp 97-113 (2010)","raw_type":"article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals","score":0.4399999976158142}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":36,"referenced_works":["https://openalex.org/W1513710812","https://openalex.org/W1668625893","https://openalex.org/W1869362176","https://openalex.org/W1970594207","https://openalex.org/W1993667925","https://openalex.org/W1995642717","https://openalex.org/W2006933206","https://openalex.org/W2008656488","https://openalex.org/W2010502047","https://openalex.org/W2021239799","https://openalex.org/W2042880070","https://openalex.org/W2050667238","https://openalex.org/W2054357150","https://openalex.org/W2057015734","https://openalex.org/W2059147903","https://openalex.org/W2094703935","https://openalex.org/W2100474154","https://openalex.org/W2106323366","https://openalex.org/W2107603310","https://openalex.org/W2110025254","https://openalex.org/W2110280725","https://openalex.org/W2116525802","https://openalex.org/W2122683221","https://openalex.org/W2123060905","https://openalex.org/W2130410032","https://openalex.org/W2132206153","https://openalex.org/W2132992030","https://openalex.org/W2133465414","https://openalex.org/W2140628921","https://openalex.org/W2142913541","https://openalex.org/W2143969914","https://openalex.org/W2150908245","https://openalex.org/W2151225518","https://openalex.org/W2154237622","https://openalex.org/W2154972152","https://openalex.org/W2165894918"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W1533177136","https://openalex.org/W4380994516","https://openalex.org/W2556260348"],"abstract_inverted_index":{"Biological":[0],"pathways":[1,82],"are":[2],"crucial":[3],"to":[4,65],"much":[5],"of":[6,14,58,68,85],"the":[7,12,66],"scientific":[8],"research":[9],"today":[10],"including":[11],"study":[13],"specific":[15],"biological":[16],"processes":[17],"related":[18],"with":[19],"human":[20,34],"diseases.":[21],"PathJam":[22],"is":[23],"a":[24,98],"new":[25,69],"comprehensive":[26],"and":[27,61,76,83,97],"freely":[28],"accessible":[29],"web-server":[30],"application":[31],"integrating":[32],"scattered":[33],"pathway":[35,59,71],"annotation":[36],"from":[37],"several":[38],"public":[39],"sources.":[40],"The":[41],"tool":[42],"has":[43],"been":[44],"designed":[45],"for":[46,51],"both":[47],"(i)":[48],"being":[49],"intuitive":[50],"wet-lab":[52],"users":[53],"providing":[54],"statistical":[55],"enrichment":[56],"analysis":[57],"annotations":[60],"(ii)":[62],"giving":[63],"support":[64],"development":[67],"integrative":[70],"applications.":[72],"PathJam&rsquo;s":[73],"unique":[74],"features":[75],"advantages":[77],"include":[78],"interactive":[79],"graphs":[80],"linking":[81],"genes":[84],"interest,":[86],"downloadable":[87],"results":[88],"in":[89],"fully":[90],"compatible":[91,94],"formats,":[92],"GSEA":[93],"output":[95],"files":[96],"standardized":[99],"RESTful":[100],"API.":[101]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":3}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
