{"id":"https://openalex.org/W4415046109","doi":"https://doi.org/10.1093/bib/bbaf527","title":"Novel methods for temporally varying gene identification in longitudinal studies reveal bleeding and clotting pathway activation caused by blood draws","display_name":"Novel methods for temporally varying gene identification in longitudinal studies reveal bleeding and clotting pathway activation caused by blood draws","publication_year":2025,"publication_date":"2025-08-31","ids":{"openalex":"https://openalex.org/W4415046109","doi":"https://doi.org/10.1093/bib/bbaf527","pmid":"https://pubmed.ncbi.nlm.nih.gov/41071610"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf527","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf527","pdf_url":"https://academic.oup.com/bib/article-pdf/26/5/bbaf527/64613001/bbaf527.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","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/bib/article-pdf/26/5/bbaf527/64613001/bbaf527.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082416826","display_name":"Wei Chen","orcid":"https://orcid.org/0000-0002-9278-1259"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Wei Chen","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":"https://orcid.org/0000-0002-9278-1259","affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101202942","display_name":"Yi Chai","orcid":"https://orcid.org/0000-0003-0069-587X"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Yi Chai","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068270023","display_name":"Qi Jiang","orcid":"https://orcid.org/0000-0002-2187-5856"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Qi Jiang","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5119942492","display_name":"Sarah McCollum","orcid":null},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Sarah McCollum","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":"https://orcid.org/0009-0000-5633-3419","affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033132155","display_name":"Xiaoyu Weng","orcid":"https://orcid.org/0000-0002-3831-7551"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Xiaoyu Weng","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082418028","display_name":"Qiong Zhao","orcid":"https://orcid.org/0000-0002-0011-2980"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Qiong Zhao","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109657490","display_name":"Eva Yiqing Miao","orcid":null},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Eva Yiqing Miao","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071108087","display_name":"Bonnie Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Bonnie Wang","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":"https://orcid.org/0009-0001-7637-5840","affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026473361","display_name":"Ashwin Gopinath","orcid":"https://orcid.org/0000-0002-2874-9457"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Ashwin Gopinath","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016320004","display_name":"David Y. Zhang","orcid":"https://orcid.org/0000-0002-0213-7663"},"institutions":[{"id":"https://openalex.org/I4210089508","display_name":"Feminist Archive North","ror":"https://ror.org/009rcpx96","country_code":"GB","type":"archive","lineage":["https://openalex.org/I4210089508"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"David Yu Zhang","raw_affiliation_strings":["Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Biostate AI, Inc , 7505 Fannin St, Suite 610, Houston, Texas, 77054 ,","institution_ids":["https://openalex.org/I4210089508"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":10,"corresponding_author_ids":["https://openalex.org/A5082416826"],"corresponding_institution_ids":["https://openalex.org/I4210089508"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.6255,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.72674633,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"26","issue":"5","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":0.9995999932289124,"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":0.9995999932289124,"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":0.9994000196456909,"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/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.9965999722480774,"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/false-positive-paradox","display_name":"False positive paradox","score":0.6886000037193298},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.6376000046730042},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.6345000267028809},{"id":"https://openalex.org/keywords/metric","display_name":"Metric (unit)","score":0.44040000438690186},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.43689998984336853},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.39169999957084656},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.38600000739097595},{"id":"https://openalex.org/keywords/longitudinal-study","display_name":"Longitudinal study","score":0.3732999861240387}],"concepts":[{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.6886000037193298},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6376000046730042},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.6345000267028809},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5806999802589417},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5263000130653381},{"id":"https://openalex.org/C176217482","wikidata":"https://www.wikidata.org/wiki/Q860554","display_name":"Metric (unit)","level":2,"score":0.44040000438690186},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.43689998984336853},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.39169999957084656},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.38600000739097595},{"id":"https://openalex.org/C2777895361","wikidata":"https://www.wikidata.org/wiki/Q1758614","display_name":"Longitudinal study","level":2,"score":0.3732999861240387},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3718000054359436},{"id":"https://openalex.org/C2781188995","wikidata":"https://www.wikidata.org/wiki/Q6934982","display_name":"Multiplex","level":2,"score":0.31869998574256897},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.28760001063346863},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.2718000113964081},{"id":"https://openalex.org/C46111723","wikidata":"https://www.wikidata.org/wiki/Q471857","display_name":"Proteomics","level":3,"score":0.2653999924659729},{"id":"https://openalex.org/C3020672099","wikidata":"https://www.wikidata.org/wiki/Q857354","display_name":"Longitudinal data","level":2,"score":0.2639999985694885},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.2621000111103058},{"id":"https://openalex.org/C2988731192","wikidata":"https://www.wikidata.org/wiki/Q7410159","display_name":"Blood sampling","level":2,"score":0.26190000772476196},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.25459998846054077},{"id":"https://openalex.org/C9927688","wikidata":"https://www.wikidata.org/wiki/Q4915012","display_name":"Biological pathway","level":4,"score":0.25440001487731934},{"id":"https://openalex.org/C140779682","wikidata":"https://www.wikidata.org/wiki/Q210868","display_name":"Sampling (signal processing)","level":3,"score":0.25099998712539673}],"mesh":[{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","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":"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":"D001777","descriptor_name":"Blood Coagulation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001777","descriptor_name":"Blood Coagulation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001777","descriptor_name":"Blood Coagulation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D001777","descriptor_name":"Blood Coagulation","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006470","descriptor_name":"Hemorrhage","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006470","descriptor_name":"Hemorrhage","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006470","descriptor_name":"Hemorrhage","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006470","descriptor_name":"Hemorrhage","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008137","descriptor_name":"Longitudinal Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008137","descriptor_name":"Longitudinal Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008137","descriptor_name":"Longitudinal Studies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008137","descriptor_name":"Longitudinal Studies","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":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","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},{"descriptor_ui":"D051381","descriptor_name":"Rats","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf527","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf527","pdf_url":"https://academic.oup.com/bib/article-pdf/26/5/bbaf527/64613001/bbaf527.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41071610","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41071610","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:11320910","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12513168","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf527","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf527","pdf_url":"https://academic.oup.com/bib/article-pdf/26/5/bbaf527/64613001/bbaf527.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4415046109.pdf"},"referenced_works_count":14,"referenced_works":["https://openalex.org/W2060842569","https://openalex.org/W2124989632","https://openalex.org/W2179438025","https://openalex.org/W2280991339","https://openalex.org/W2774742000","https://openalex.org/W2903832937","https://openalex.org/W2996072467","https://openalex.org/W2999146435","https://openalex.org/W3010267838","https://openalex.org/W3095646911","https://openalex.org/W3112708956","https://openalex.org/W3163951899","https://openalex.org/W4221068576","https://openalex.org/W4323076271"],"related_works":[],"abstract_inverted_index":{"Recent":[0],"advances":[1],"in":[2,108,183],"sequencing":[3],"technology":[4],"enable":[5],"the":[6,17,158],"capture":[7],"of":[8,52,164],"gene":[9,37,129,177],"expression":[10,38,71,122,130],"dynamics":[11],"through":[12],"longitudinal":[13,77,112,161],"study":[14,151],"designs.":[15],"However,":[16],"field":[18],"lacks":[19],"robust":[20,154],"analytical":[21,155],"tools":[22],"for":[23],"these":[24,128],"high-dimensional":[25],"datasets.":[26],"To":[27],"address":[28],"this,":[29],"we":[30,82],"developed":[31],"bioinformatic":[32],"methods":[33],"to":[34,98],"determine":[35],"baseline":[36],"variability":[39],"and":[40,60,86,101,120,138,148,157,179,187],"identify":[41],"temporally":[42],"varying":[43],"genes":[44,55,68],"(TVGs).":[45],"Our":[46,150],"dynamic":[47,176],"cut-off":[48],"metric":[49],"enhances":[50],"detection":[51],"differentially":[53],"expressed":[54],"(DEGs),":[56],"reducing":[57],"false":[58],"positives":[59],"negatives,":[61],"while":[62],"our":[63],"TVG":[64],"scoring":[65],"system":[66],"identifies":[67],"with":[69],"fluctuating":[70],"over":[72],"time.":[73],"In":[74],"a":[75,109,143,153],"21-day":[76],"RNA-seq":[78,113,162],"dataset":[79,163],"from":[80],"rats,":[81],"identified":[83],"502":[84],"DEGs":[85],"300":[87],"high-confidence":[88],"TVGs,":[89],"revealing":[90],"that":[91,127],"repeated":[92],"blood":[93],"sampling":[94],"activates":[95],"pathways":[96],"related":[97],"bleeding,":[99],"coagulation,":[100],"inflammatory":[102],"responses.":[103],"These":[104,170],"findings":[105],"were":[106,132],"recapitulated":[107],"9-day":[110],"human":[111],"study,":[114],"which":[115],"revealed":[116],"similar":[117],"pathway":[118],"enrichments":[119],"subject-specific":[121],"dynamics.":[123],"Additional":[124],"controls":[125],"confirmed":[126],"changes":[131],"not":[133],"induced":[134],"by":[135],"handling":[136],"artifacts,":[137],"score":[139],"threshold":[140],"analysis":[141],"enabled":[142],"tunable":[144],"balance":[145],"between":[146],"sensitivity":[147],"specificity.":[149],"introduces":[152],"framework":[156],"largest":[159],"high-frequency":[160],"its":[165],"kind,":[166],"now":[167],"publicly":[168],"available.":[169],"resources":[171],"provide":[172],"valuable":[173],"insights":[174],"into":[175],"regulation":[178],"offer":[180],"new":[181],"approaches":[182],"systems":[184],"biology,":[185],"pharmacogenomics,":[186],"translational":[188],"medicine.":[189]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-11T00:00:00"}
