{"id":"https://openalex.org/W4383998869","doi":"https://doi.org/10.1093/bioinformatics/btad431","title":"Unravelling spatial gene associations with SEAGAL: a Python package for spatial transcriptomics data analysis and visualization","display_name":"Unravelling spatial gene associations with SEAGAL: a Python package for spatial transcriptomics data analysis and visualization","publication_year":2023,"publication_date":"2023-07-01","ids":{"openalex":"https://openalex.org/W4383998869","doi":"https://doi.org/10.1093/bioinformatics/btad431","pmid":"https://pubmed.ncbi.nlm.nih.gov/37436699"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad431","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad431","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad431/50860583/btad431.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"software-paper","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad431/50860583/btad431.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101835584","display_name":"Linhua Wang","orcid":"https://orcid.org/0000-0002-6717-860X"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Linhua Wang","raw_affiliation_strings":["Graduate School of Biomedical Sciences, Program in Quantitative and Computational Biosciences, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States"],"raw_orcid":"https://orcid.org/0000-0002-6717-860X","affiliations":[{"raw_affiliation_string":"Graduate School of Biomedical Sciences, Program in Quantitative and Computational Biosciences, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024518325","display_name":"Chaozhong Liu","orcid":"https://orcid.org/0000-0002-6960-1977"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chaozhong Liu","raw_affiliation_strings":["Graduate School of Biomedical Sciences, Program in Quantitative and Computational Biosciences, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Graduate School of Biomedical Sciences, Program in Quantitative and Computational Biosciences, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049438083","display_name":"Yang Gao","orcid":"https://orcid.org/0009-0004-8934-886X"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yang Gao","raw_affiliation_strings":["Lester and Sue Smith Breast Center, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lester and Sue Smith Breast Center, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077415804","display_name":"Xiang H.-F. Zhang","orcid":"https://orcid.org/0000-0002-5674-8670"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiang H -F Zhang","raw_affiliation_strings":["Department of Molecular and Cellular Biology, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","Lester and Sue Smith Breast Center, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","McNair Medical Institute, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Cellular Biology, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]},{"raw_affiliation_string":"Lester and Sue Smith Breast Center, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]},{"raw_affiliation_string":"McNair Medical Institute, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5004947640","display_name":"Zhandong Liu","orcid":"https://orcid.org/0000-0002-7608-0831"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]},{"id":"https://openalex.org/I4210117334","display_name":"Neurological Research Institute","ror":"https://ror.org/02ea83075","country_code":"US","type":"other","lineage":["https://openalex.org/I4210117334"]},{"id":"https://openalex.org/I4210147586","display_name":"Texas Children's Hospital","ror":"https://ror.org/05cz92x43","country_code":"US","type":"funder","lineage":["https://openalex.org/I4210147586"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Zhandong Liu","raw_affiliation_strings":["Department of Pediatrics, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","Jan and Dan Duncan Neurological Research Institute at Texas Children\u2019s Hospital , 1250 Moursund St , Houston, TX 77030, United States"],"raw_orcid":"https://orcid.org/0000-0002-7608-0831","affiliations":[{"raw_affiliation_string":"Department of Pediatrics, Baylor College of Medicine , 1 Baylor Plaza , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I181547552"]},{"raw_affiliation_string":"Jan and Dan Duncan Neurological Research Institute at Texas Children\u2019s Hospital , 1250 Moursund St , Houston, TX 77030, United States","institution_ids":["https://openalex.org/I4210117334","https://openalex.org/I4210147586"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5004947640"],"corresponding_institution_ids":["https://openalex.org/I181547552","https://openalex.org/I4210117334","https://openalex.org/I4210147586"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":null,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":"39","issue":"7","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9998000264167786,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9998000264167786,"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":0.9794999957084656,"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":0.9735999703407288,"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/python","display_name":"Python (programming language)","score":0.8416863083839417},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6422230005264282},{"id":"https://openalex.org/keywords/spatial-analysis","display_name":"Spatial analysis","score":0.5868923664093018},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5712177753448486},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5286325216293335},{"id":"https://openalex.org/keywords/spatial-contextual-awareness","display_name":"Spatial contextual awareness","score":0.482749879360199},{"id":"https://openalex.org/keywords/r-package","display_name":"R package","score":0.43051278591156006},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.42728865146636963},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.419232040643692},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.4152047038078308},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.38709330558776855},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.34476739168167114},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2591743469238281},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.2574876844882965},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1748264729976654},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1469956338405609},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11422178149223328},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.07049000263214111}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8416863083839417},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6422230005264282},{"id":"https://openalex.org/C159620131","wikidata":"https://www.wikidata.org/wiki/Q1938983","display_name":"Spatial analysis","level":2,"score":0.5868923664093018},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5712177753448486},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5286325216293335},{"id":"https://openalex.org/C64754055","wikidata":"https://www.wikidata.org/wiki/Q7574053","display_name":"Spatial contextual awareness","level":2,"score":0.482749879360199},{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.43051278591156006},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.42728865146636963},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.419232040643692},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.4152047038078308},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38709330558776855},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.34476739168167114},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2591743469238281},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.2574876844882965},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1748264729976654},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1469956338405609},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11422178149223328},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.07049000263214111},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","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":"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":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btad431","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad431","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad431/50860583/btad431.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37436699","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37436699","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:10363022","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10363022","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10363022/pdf/btad431.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:digitalcommons.library.tmc.edu:baylor_docs-3050","is_oa":false,"landing_page_url":"https://digitalcommons.library.tmc.edu/baylor_docs/2079","pdf_url":null,"source":{"id":"https://openalex.org/S4377196655","display_name":"Digital Commons-TMC (Texas Medical Center)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1337852284","host_organization_name":"Texas Medical Center","host_organization_lineage":["https://openalex.org/I1337852284"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty and Staff Publications","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad431","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad431","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btad431/50860583/btad431.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7300000190734863,"display_name":"Life below water","id":"https://metadata.un.org/sdg/14"}],"awards":[{"id":"https://openalex.org/G345484959","display_name":null,"funder_award_id":"P50 HD103555","funder_id":"https://openalex.org/F4320337611","funder_display_name":"Eunice Kennedy Shriver National Institute of Child Health and Human Development"},{"id":"https://openalex.org/G4803156834","display_name":null,"funder_award_id":"U54NS093793","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G664261826","display_name":null,"funder_award_id":"U54 NS093793","funder_id":"https://openalex.org/F4320337359","funder_display_name":"National Institute of Neurological Disorders and Stroke"},{"id":"https://openalex.org/G6856933357","display_name":null,"funder_award_id":"P50CA186784","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7750009409","display_name":null,"funder_award_id":"P50 CA186784","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"},{"id":"https://openalex.org/G8041011128","display_name":null,"funder_award_id":"P50HD103555","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8646847294","display_name":null,"funder_award_id":"K99 CA279899","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320317232","display_name":"Huffington Foundation","ror":null},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"},{"id":"https://openalex.org/F4320337359","display_name":"National Institute of Neurological Disorders and Stroke","ror":"https://ror.org/01s5ya894"},{"id":"https://openalex.org/F4320337611","display_name":"Eunice Kennedy Shriver National Institute of Child Health and Human Development","ror":"https://ror.org/04byxyr05"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4383998869.pdf"},"referenced_works_count":13,"referenced_works":["https://openalex.org/W1966107523","https://openalex.org/W1966327575","https://openalex.org/W2070381999","https://openalex.org/W2110065044","https://openalex.org/W2800392236","https://openalex.org/W2944727022","https://openalex.org/W2953036966","https://openalex.org/W3119379269","https://openalex.org/W3120554937","https://openalex.org/W3134482219","https://openalex.org/W4210583065","https://openalex.org/W4295750920","https://openalex.org/W4315786257"],"related_works":["https://openalex.org/W2341492732","https://openalex.org/W3187193180","https://openalex.org/W106542691","https://openalex.org/W1699080303","https://openalex.org/W4297799326","https://openalex.org/W3116064965","https://openalex.org/W4287027380","https://openalex.org/W3193760048","https://openalex.org/W4285822516","https://openalex.org/W2789551765"],"abstract_inverted_index":{"SUMMARY:":[0],"In":[1],"the":[2,13,18,70,90],"era":[3],"where":[4],"transcriptome":[5],"profiling":[6],"moves":[7],"toward":[8],"single-cell":[9],"and":[10,49,57,69,80,85,102,136],"spatial":[11,28,51,63,72,83,92,117],"resolutions,":[12],"traditional":[14],"co-expression":[15],"analysis":[16],"lacks":[17],"power":[19],"to":[20,26,47],"fully":[21],"utilize":[22],"such":[23],"rich":[24],"information":[25],"unravel":[27],"gene":[29,52,67,118],"associations.":[30,119],"Here,":[31],"we":[32],"present":[33],"a":[34,105],"Python":[35,124],"package":[36,61,125],"called":[37],"Spatial":[38],"Enrichment":[39],"Analysis":[40],"of":[41,108],"Gene":[42],"Associations":[43],"using":[44,130],"L-index":[45],"(SEAGAL)":[46],"detect":[48],"visualize":[50],"correlations":[53,84],"at":[54],"both":[55],"single-gene":[56],"gene-set":[58],"levels.":[59],"Our":[60],"takes":[62],"transcriptomics":[64],"datasets":[65],"with":[66,104],"expression":[68],"aligned":[71],"coordinates":[73],"as":[74,99],"input.":[75],"It":[76],"allows":[77],"for":[78,115],"analyzing":[79],"visualizing":[81],"genes'":[82],"cell":[86],"types'":[87],"colocalization":[88],"within":[89],"precise":[91],"context.":[93],"The":[94,123,133],"output":[95],"could":[96],"be":[97,128],"visualized":[98],"volcano":[100],"plots":[101],"heatmaps":[103],"few":[106],"lines":[107],"code,":[109],"thus":[110],"providing":[111],"an":[112],"easy-yet-comprehensive":[113],"tool":[114],"mining":[116],"AVAILABILITY":[120],"AND":[121],"IMPLEMENTATION:":[122],"SEAGAL":[126],"can":[127],"installed":[129],"pip:":[131],"https://pypi.org/project/seagal/.":[132],"source":[134],"code":[135],"step-by-step":[137],"tutorials":[138],"are":[139],"available":[140],"at:":[141],"https://github.com/linhuawang/SEAGAL.":[142]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2023-07-13T00:00:00"}
