{"id":"https://openalex.org/W2163547642","doi":"https://doi.org/10.1136/amiajnl-2012-000867","title":"Transcriptional network predicts viral set point during acute HIV-1 infection","display_name":"Transcriptional network predicts viral set point during acute HIV-1 infection","publication_year":2012,"publication_date":"2012-06-15","ids":{"openalex":"https://openalex.org/W2163547642","doi":"https://doi.org/10.1136/amiajnl-2012-000867","mag":"2163547642","pmid":"https://pubmed.ncbi.nlm.nih.gov/22700869"},"language":"en","primary_location":{"id":"doi:10.1136/amiajnl-2012-000867","is_oa":true,"landing_page_url":"https://doi.org/10.1136/amiajnl-2012-000867","pdf_url":"https://academic.oup.com/jamia/article-pdf/19/6/1103/6061285/19-6-1103.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/jamia/article-pdf/19/6/1103/6061285/19-6-1103.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101126181","display_name":"Hsun\u2010Hsien Chang","orcid":null},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I1288882113","display_name":"Boston Children's Hospital","ror":"https://ror.org/00dvg7y05","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1288882113"]},{"id":"https://openalex.org/I4210092658","display_name":"Harvard\u2013MIT Division of Health Sciences and Technology","ror":"https://ror.org/00jjeh629","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092658"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Hsun-Hsien Chang","raw_affiliation_strings":["Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts, USA. hsun-hsien.chang@childrens.harvard.edu","Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts, USA. hsun-hsien.chang@childrens.harvard.edu","institution_ids":["https://openalex.org/I1288882113"]},{"raw_affiliation_string":"Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts, USA","institution_ids":["https://openalex.org/I136199984","https://openalex.org/I4210092658"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088753038","display_name":"Kelly A. Soderberg","orcid":null},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kelly Soderberg","raw_affiliation_strings":["Duke Human Vaccine Institute, Duke University, Durham, North Carolina, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Duke Human Vaccine Institute, Duke University, Durham, North Carolina, USA","institution_ids":["https://openalex.org/I170897317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020162272","display_name":"Jason A. Skinner","orcid":"https://orcid.org/0000-0002-2408-7695"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jason A Skinner","raw_affiliation_strings":["Baylor Institute for Immunology Research, Dallas, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baylor Institute for Immunology Research, Dallas, Texas, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002962815","display_name":"Jacques Banchereau","orcid":"https://orcid.org/0000-0003-3535-7221"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jacques Banchereau","raw_affiliation_strings":["Baylor Institute for Immunology Research, Dallas, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baylor Institute for Immunology Research, Dallas, Texas, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022563979","display_name":"Damien Chaussabel","orcid":"https://orcid.org/0000-0002-6131-7242"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Damien Chaussabel","raw_affiliation_strings":["Baylor Institute for Immunology Research, Dallas, Texas, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baylor Institute for Immunology Research, Dallas, Texas, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051827275","display_name":"Barton F. Haynes","orcid":"https://orcid.org/0000-0002-7643-9023"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Barton F Haynes","raw_affiliation_strings":["Duke Human Vaccine Institute, Duke University, Durham, North Carolina, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Duke Human Vaccine Institute, Duke University, Durham, North Carolina, USA","institution_ids":["https://openalex.org/I170897317"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054056109","display_name":"Marco Ramoni","orcid":null},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I4210092658","display_name":"Harvard\u2013MIT Division of Health Sciences and Technology","ror":"https://ror.org/00jjeh629","country_code":"US","type":"education","lineage":["https://openalex.org/I4210092658"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marco Ramoni","raw_affiliation_strings":["Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Children's Hospital Informatics Program, Harvard-MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, Massachusetts, USA","institution_ids":["https://openalex.org/I136199984","https://openalex.org/I4210092658"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108363333","display_name":"Norman L. Letvin","orcid":null},"institutions":[{"id":"https://openalex.org/I1316535847","display_name":"Beth Israel Deaconess Medical Center","ror":"https://ror.org/04drvxt59","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1316535847"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Norman L Letvin","raw_affiliation_strings":["Department of Medicine, Harvard Medical School, Boston, Massachusetts, USA","Division of Viral Pathogenesis, Beth Israel Deaconess Medical Center, Boston, Massachusetts, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medicine, Harvard Medical School, Boston, Massachusetts, USA","institution_ids":["https://openalex.org/I136199984"]},{"raw_affiliation_string":"Division of Viral Pathogenesis, Beth Israel Deaconess Medical Center, Boston, Massachusetts, USA","institution_ids":["https://openalex.org/I1316535847"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5101126181"],"corresponding_institution_ids":["https://openalex.org/I1288882113","https://openalex.org/I136199984","https://openalex.org/I4210092658"],"apc_list":{"value":3967,"currency":"USD","value_usd":3967},"apc_paid":null,"fwci":0.131,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.50716589,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"19","issue":"6","first_page":"1103","last_page":"1109"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9571999907493591,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10112","display_name":"HIV Research and Treatment","score":0.9571999907493591,"subfield":{"id":"https://openalex.org/subfields/2406","display_name":"Virology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11655","display_name":"HIV-related health complications and treatments","score":0.030899999663233757,"subfield":{"id":"https://openalex.org/subfields/2711","display_name":"Emergency Medicine"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10526","display_name":"HIV/AIDS drug development and treatment","score":0.004800000227987766,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/set-point","display_name":"Set point","score":0.8951007127761841},{"id":"https://openalex.org/keywords/human-immunodeficiency-virus","display_name":"Human immunodeficiency virus (HIV)","score":0.6657941341400146},{"id":"https://openalex.org/keywords/replication","display_name":"Replication (statistics)","score":0.6483362913131714},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.6461107730865479},{"id":"https://openalex.org/keywords/viral-replication","display_name":"Viral replication","score":0.6282985210418701},{"id":"https://openalex.org/keywords/viral-infection","display_name":"Viral infection","score":0.5088351368904114},{"id":"https://openalex.org/keywords/virology","display_name":"Virology","score":0.5085712671279907},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.4648197293281555},{"id":"https://openalex.org/keywords/viral-load","display_name":"Viral load","score":0.43245893716812134},{"id":"https://openalex.org/keywords/immunology","display_name":"Immunology","score":0.4269481897354126},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2588033676147461},{"id":"https://openalex.org/keywords/virus","display_name":"Virus","score":0.15692263841629028}],"concepts":[{"id":"https://openalex.org/C2993627981","wikidata":"https://www.wikidata.org/wiki/Q7456295","display_name":"Set point","level":2,"score":0.8951007127761841},{"id":"https://openalex.org/C3013748606","wikidata":"https://www.wikidata.org/wiki/Q15787","display_name":"Human immunodeficiency virus (HIV)","level":2,"score":0.6657941341400146},{"id":"https://openalex.org/C12590798","wikidata":"https://www.wikidata.org/wiki/Q3933199","display_name":"Replication (statistics)","level":2,"score":0.6483362913131714},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.6461107730865479},{"id":"https://openalex.org/C140704245","wikidata":"https://www.wikidata.org/wiki/Q3933202","display_name":"Viral replication","level":3,"score":0.6282985210418701},{"id":"https://openalex.org/C2994541485","wikidata":"https://www.wikidata.org/wiki/Q1928978","display_name":"Viral infection","level":3,"score":0.5088351368904114},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.5085712671279907},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.4648197293281555},{"id":"https://openalex.org/C142462285","wikidata":"https://www.wikidata.org/wiki/Q2528140","display_name":"Viral load","level":3,"score":0.43245893716812134},{"id":"https://openalex.org/C203014093","wikidata":"https://www.wikidata.org/wiki/Q101929","display_name":"Immunology","level":1,"score":0.4269481897354126},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2588033676147461},{"id":"https://openalex.org/C2522874641","wikidata":"https://www.wikidata.org/wiki/Q808","display_name":"Virus","level":2,"score":0.15692263841629028},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C133731056","wikidata":"https://www.wikidata.org/wiki/Q4917288","display_name":"Control engineering","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D007963","descriptor_name":"Leukocytes, Mononuclear","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007963","descriptor_name":"Leukocytes, Mononuclear","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007963","descriptor_name":"Leukocytes, Mononuclear","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":"D008295","descriptor_name":"Malawi","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008295","descriptor_name":"Malawi","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008295","descriptor_name":"Malawi","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011237","descriptor_name":"Predictive Value of Tests","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011379","descriptor_name":"Prognosis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012044","descriptor_name":"Regression Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012367","descriptor_name":"RNA, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012367","descriptor_name":"RNA, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012367","descriptor_name":"RNA, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014481","descriptor_name":"United States","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000175","qualifier_name":"diagnosis","is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018450","descriptor_name":"Disease Progression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019562","descriptor_name":"Viral Load","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","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":true},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","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":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055786","descriptor_name":"Gene Knockout Techniques","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1136/amiajnl-2012-000867","is_oa":true,"landing_page_url":"https://doi.org/10.1136/amiajnl-2012-000867","pdf_url":"https://academic.oup.com/jamia/article-pdf/19/6/1103/6061285/19-6-1103.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},{"id":"pmid:22700869","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22700869","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 the American Medical Informatics Association : JAMIA","raw_type":null},{"id":"pmh:oai:europepmc.org:2809476","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3534464","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3534464","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3534464","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Am Med Inform Assoc","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1136/amiajnl-2012-000867","is_oa":true,"landing_page_url":"https://doi.org/10.1136/amiajnl-2012-000867","pdf_url":"https://academic.oup.com/jamia/article-pdf/19/6/1103/6061285/19-6-1103.pdf","source":{"id":"https://openalex.org/S129839026","display_name":"Journal of the American Medical Informatics Association","issn_l":"1067-5027","issn":["1067-5027","1527-974X"],"is_oa":false,"is_in_doaj":false,"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":"Journal of the American Medical Informatics Association","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.8299999833106995}],"awards":[{"id":"https://openalex.org/G2835375047","display_name":null,"funder_award_id":"5U19A1067854-05","funder_id":"https://openalex.org/F4320332505","funder_display_name":"U.S. Public Health Service"},{"id":"https://openalex.org/G3648469909","display_name":null,"funder_award_id":"U19 AI067854","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332505","display_name":"U.S. Public Health Service","ror":"https://ror.org/05xf94514"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2163547642.pdf","grobid_xml":"https://content.openalex.org/works/W2163547642.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1571842523","https://openalex.org/W1655510925","https://openalex.org/W1963911960","https://openalex.org/W1969352987","https://openalex.org/W1980638168","https://openalex.org/W1990056189","https://openalex.org/W1995453338","https://openalex.org/W2012139740","https://openalex.org/W2018484627","https://openalex.org/W2036957658","https://openalex.org/W2045551237","https://openalex.org/W2053793074","https://openalex.org/W2055280854","https://openalex.org/W2064502505","https://openalex.org/W2072372077","https://openalex.org/W2078891878","https://openalex.org/W2091095196","https://openalex.org/W2098381125","https://openalex.org/W2105856616","https://openalex.org/W2109130469","https://openalex.org/W2109363337","https://openalex.org/W2114040365","https://openalex.org/W2123584222","https://openalex.org/W2125631472","https://openalex.org/W2126141460","https://openalex.org/W2136912778","https://openalex.org/W2139257243","https://openalex.org/W2142284430","https://openalex.org/W2144882745","https://openalex.org/W2146585970","https://openalex.org/W2149310258","https://openalex.org/W2158217645"],"related_works":["https://openalex.org/W4288713694","https://openalex.org/W2102326449","https://openalex.org/W2032099305","https://openalex.org/W2738322136","https://openalex.org/W2154336350","https://openalex.org/W2060401253","https://openalex.org/W3029188323","https://openalex.org/W2904492572","https://openalex.org/W2128528264","https://openalex.org/W2986905278"],"abstract_inverted_index":{"BACKGROUND:":[0],"HIV-1-infected":[1,58,118],"individuals":[2],"with":[3,15,143,234,252],"higher":[4],"viral":[5,20,75,94,108,132,189,249],"set":[6,17,21,76,95,109,133,190,250],"points":[7,160],"progress":[8],"to":[9,28,37,43,70,218,241,246],"AIDS":[10],"more":[11],"rapidly":[12],"than":[13],"those":[14],"lower":[16],"points.":[18,180],"Predicting":[19],"point":[22,77,110,134,191,251],"early":[23,32,247],"following":[24],"infection":[25,237],"can":[26,238],"contribute":[27,217],"our":[29],"understanding":[30],"of":[31,34,46,55,65,102,115,129,146,153,171,188,195,227,256],"control":[33],"HIV-1":[35,220,236],"replication,":[36],"predicting":[38,107],"long-term":[39],"clinical":[40],"outcomes,":[41],"and":[42,203,214],"the":[44,87,100,139,150,154,172,193],"choice":[45],"optimal":[47,88],"therapeutic":[48],"regimens.":[49],"METHODS:":[50],"In":[51],"a":[52,83,253],"longitudinal":[53],"study":[54,210],"10":[56,116],"untreated":[57,117],"patients,":[59],"we":[60],"used":[61,240],"gene":[62,124,224],"expression":[63,225],"profiling":[64,226],"peripheral":[66,228],"blood":[67,229],"mononuclear":[68,230],"cells":[69,231],"identify":[71],"transcriptional":[72,89,104,243],"networks":[73,155,174],"for":[74],"prediction.":[78],"At":[79],"each":[80],"sampling":[81],"time,":[82],"statistical":[84],"analysis":[85],"inferred":[86,126,156,173],"network":[90,125,244],"that":[91,212],"best":[92],"predicted":[93,131],"point.":[96],"We":[97],"then":[98],"assessed":[99],"accuracy":[101,145,152],"this":[103,185],"model":[105],"by":[106],"in":[111,138],"an":[112,144],"independent":[113,140],"cohort":[114,142],"patients":[119,233],"from":[120,232],"Malawi.":[121],"RESULTS:":[122],"The":[123,169,181],"at":[127,157],"time":[128,159,179],"enrollment":[130],"24":[135],"weeks":[136],"later":[137,158],"Malawian":[141],"87.5%.":[147],"As":[148],"expected,":[149],"predictive":[151],"was":[161,175],"even":[162],"greater,":[163],"exceeding":[164],"90%":[165],"after":[166],"week":[167],"4.":[168],"composition":[170],"largely":[176],"conserved":[177],"between":[178],"12":[182],"genes":[183],"comprising":[184],"dynamic":[186],"signature":[187],"implicated":[192],"involvement":[194],"two":[196],"major":[197],"canonical":[198],"pathways:":[199],"interferon":[200],"signaling":[201],"(p<0.0003)":[202],"membrane":[204],"fraction":[205],"(p<0.02).":[206],"A":[207],"silico":[208],"knockout":[209],"showed":[211],"HLA-DRB1":[213],"C4BPA":[215],"may":[216],"restricting":[219],"replication.":[221],"CONCLUSIONS:":[222],"Longitudinal":[223],"acute":[235],"be":[239],"create":[242],"models":[245],"predict":[248],"high":[254],"degree":[255],"accuracy.":[257]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2018,"cited_by_count":10},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-06-24T13:16:06.693445","created_date":"2025-10-10T00:00:00"}
