{"id":"https://openalex.org/W2151524809","doi":"https://doi.org/10.1093/bioinformatics/btp422","title":"aGEM: an integrative system for analyzing spatial-temporal gene-expression information","display_name":"aGEM: an integrative system for analyzing spatial-temporal gene-expression information","publication_year":2009,"publication_date":"2009-07-09","ids":{"openalex":"https://openalex.org/W2151524809","doi":"https://doi.org/10.1093/bioinformatics/btp422","mag":"2151524809","pmid":"https://pubmed.ncbi.nlm.nih.gov/19592395"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp422","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp422","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/19/2566/48995175/bioinformatics_25_19_2566.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/25/19/2566/48995175/bioinformatics_25_19_2566.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081108161","display_name":"Natalia Jim\u00e9nez-Lozano","orcid":null},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Natalia Jim\u00e9nez-Lozano","raw_affiliation_strings":["GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5007270631","display_name":"Joan Segura","orcid":"https://orcid.org/0000-0001-5593-735X"},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Joan Segura","raw_affiliation_strings":["GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035948189","display_name":"Jos\u00e9 Ram\u00f3n Mac\u00edas","orcid":"https://orcid.org/0000-0003-2621-6806"},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Ram\u00f3n Mac\u00edas","raw_affiliation_strings":["GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067782609","display_name":"Juanjo Vega","orcid":null},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Juanjo Vega","raw_affiliation_strings":["GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5046960969","display_name":"J.M. Carazo","orcid":"https://orcid.org/0000-0003-0788-8447"},"institutions":[{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Mar\u00eda Carazo","raw_affiliation_strings":["GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"GN7 of the National Institute for Bioinformatics (INB) and Biocomputing Unit of the National Centre for Biotechnology (CNB-CSIC), Darwin 3, Campus de Cantoblanco, 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5081108161"],"corresponding_institution_ids":["https://openalex.org/I4210104776"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5367,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.67257743,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":"25","issue":"19","first_page":"2566","last_page":"2572"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9975000023841858,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9975000023841858,"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":0.9959999918937683,"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/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"}}],"keywords":[{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.629417896270752},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5603005886077881},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5438351035118103},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4493367075920105},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.447776734828949},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4456770420074463},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.32676321268081665},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.32546466588974},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24276232719421387},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.14206033945083618},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.08699691295623779}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.629417896270752},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5603005886077881},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5438351035118103},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4493367075920105},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.447776734828949},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4456770420074463},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.32676321268081665},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.32546466588974},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24276232719421387},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.14206033945083618},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.08699691295623779}],"mesh":[{"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":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","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":"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":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}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btp422","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp422","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/19/2566/48995175/bioinformatics_25_19_2566.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19592395","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19592395","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:2752607","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2752607","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btp422","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp422","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/19/2566/48995175/bioinformatics_25_19_2566.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4300000071525574,"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320295","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70"},{"id":"https://openalex.org/F4320321043","display_name":"Centro para el Desarrollo Tecnol\u00f3gico Industrial","ror":"https://ror.org/0124x7055"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2151524809.pdf","grobid_xml":"https://content.openalex.org/works/W2151524809.grobid-xml"},"referenced_works_count":37,"referenced_works":["https://openalex.org/W636264593","https://openalex.org/W1501079739","https://openalex.org/W1966312099","https://openalex.org/W1974717034","https://openalex.org/W1985901090","https://openalex.org/W2015615191","https://openalex.org/W2017400430","https://openalex.org/W2021333248","https://openalex.org/W2037907954","https://openalex.org/W2046943231","https://openalex.org/W2055513764","https://openalex.org/W2060364343","https://openalex.org/W2071617014","https://openalex.org/W2096525273","https://openalex.org/W2097526201","https://openalex.org/W2098906161","https://openalex.org/W2103346617","https://openalex.org/W2105644689","https://openalex.org/W2113535342","https://openalex.org/W2119412782","https://openalex.org/W2138618671","https://openalex.org/W2140020961","https://openalex.org/W2149480636","https://openalex.org/W2150252713","https://openalex.org/W2153691589","https://openalex.org/W2156710255","https://openalex.org/W2158304452","https://openalex.org/W2160697532","https://openalex.org/W2161062388","https://openalex.org/W2161500277","https://openalex.org/W2163685645","https://openalex.org/W4210241463","https://openalex.org/W4211000692","https://openalex.org/W4239678514","https://openalex.org/W4240605225","https://openalex.org/W4248234957","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W2884291362","https://openalex.org/W1603543036","https://openalex.org/W1976142521","https://openalex.org/W4200520333","https://openalex.org/W1562379515","https://openalex.org/W4309951164","https://openalex.org/W3014856251","https://openalex.org/W1917151005","https://openalex.org/W2169501356","https://openalex.org/W2014988381"],"abstract_inverted_index":{"The":[0],"Platform":[1],"is":[2,9],"optimized":[3],"for":[4],"Firefox":[5],"3.0":[6],"and":[7,14],"it":[8],"accessed":[10],"through":[11],"a":[12],"friendly":[13],"intuitive":[15],"display:":[16],"http://agem.cnb.csic.es":[17]},"counts_by_year":[{"year":2012,"cited_by_count":2}],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}
