{"id":"https://openalex.org/W2013990566","doi":"https://doi.org/10.1371/journal.pone.0066883","title":"Evaluating the Impact of Sequencing Depth on Transcriptome Profiling in Human Adipose","display_name":"Evaluating the Impact of Sequencing Depth on Transcriptome Profiling in Human Adipose","publication_year":2013,"publication_date":"2013-06-24","ids":{"openalex":"https://openalex.org/W2013990566","doi":"https://doi.org/10.1371/journal.pone.0066883","mag":"2013990566","pmid":"https://pubmed.ncbi.nlm.nih.gov/23826166","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/3691247"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pone.0066883","doi":"https://doi.org/10.1371/journal.pone.0066883","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0066883","pdf_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0066883&type=printable","source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},"volume":null,"type":"article","is_traditional":true,"indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0066883&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5016041307","display_name":"Yichuan Liu","orcid":"https://orcid.org/0000-0003-2023-072X","observed_orcids":["https://orcid.org/0000-0003-2023-072X","https://orcid.org/0000-0002-1899-2082"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yichuan Liu","raw_affiliation_strings":["Department of Biostatistics and Epidemiology, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics and Epidemiology, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078392652","display_name":"Jane F. Ferguson","orcid":"https://orcid.org/0000-0001-6896-1025","observed_orcids":["https://orcid.org/0000-0001-6896-1025"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jane F. Ferguson","raw_affiliation_strings":["Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022420096","display_name":"Chenyi Xue","orcid":"https://orcid.org/0000-0002-8829-7659","observed_orcids":["https://orcid.org/0000-0002-8829-7659"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chenyi Xue","raw_affiliation_strings":["Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5028356265","display_name":"Ian M. Silverman","orcid":"https://orcid.org/0000-0003-3819-6726","observed_orcids":["https://orcid.org/0000-0003-3819-6726"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ian M. Silverman","raw_affiliation_strings":["Department of Biology, Perelman School of Medicine and School of Arts and Science at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Perelman School of Medicine and School of Arts and Science at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027736631","display_name":"Brian D. Gregory","orcid":"https://orcid.org/0000-0001-7532-0138","observed_orcids":["https://orcid.org/0000-0001-7532-0138"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brian Gregory","raw_affiliation_strings":["Department of Biology, Perelman School of Medicine and School of Arts and Science at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biology, Perelman School of Medicine and School of Arts and Science at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026776682","display_name":"Muredach P. Reilly","orcid":"https://orcid.org/0000-0002-3035-9386","observed_orcids":["https://orcid.org/0000-0002-3035-9386"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Muredach P. Reilly","raw_affiliation_strings":["Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Cardiovascular Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5001685590","display_name":"Mingyao Li","orcid":"https://orcid.org/0000-0003-2422-9494","observed_orcids":["https://orcid.org/0000-0003-2422-9494","https://orcid.org/0000-0001-8180-0621"]},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mingyao Li","raw_affiliation_strings":["Department of Biostatistics and Epidemiology, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics and Epidemiology, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I79576946"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5001685590","https://openalex.org/A5026776682"],"corresponding_institution_ids":["https://openalex.org/I79576946"],"apc_list":{"value":2382,"currency":"USD","value_usd":2382},"apc_paid":{"value":2382,"currency":"USD","value_usd":2382},"fwci":2.3094,"has_fulltext":true,"cited_by_count":75,"citation_normalized_percentile":{"value":0.89251152,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":93,"max":99},"biblio":{"volume":"8","issue":"6","first_page":"e66883","last_page":"e66883"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8720999956130981,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8720999956130981,"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/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.04010000079870224,"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/T10604","display_name":"RNA Research and Splicing","score":0.03680000081658363,"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/sequencing-depth","display_name":"sequencing depth","score":0.9760000109672546},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"gene expression profiling","score":0.8140000104904175},{"id":"https://openalex.org/keywords/human-adipose-tissue","display_name":"human adipose tissue","score":0.9290000200271606},{"id":"https://openalex.org/keywords/differential-splicing","display_name":"differential splicing","score":0.7070000171661377},{"id":"https://openalex.org/keywords/differential-gene-expression","display_name":"differential gene expression","score":0.9779999852180481},{"id":"https://openalex.org/keywords/endotoxin","display_name":"endotoxin","score":0.8569999933242798},{"id":"https://openalex.org/keywords/lipopolysaccharide","display_name":"lipopolysaccharide","score":0.9660000205039978},{"id":"https://openalex.org/keywords/exon-inclusion","display_name":"exon inclusion","score":0.5680000185966492},{"id":"https://openalex.org/keywords/cardiometabolic-disease","display_name":"cardiometabolic disease","score":0.7889999747276306}],"concepts":[{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.8198091983795166},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.7258927226066589},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6988306641578674},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.6282474994659424},{"id":"https://openalex.org/C194583182","wikidata":"https://www.wikidata.org/wiki/Q21114084","display_name":"Alternative splicing","level":4,"score":0.607414186000824},{"id":"https://openalex.org/C106337198","wikidata":"https://www.wikidata.org/wiki/Q13564012","display_name":"Illumina dye sequencing","level":4,"score":0.5435168743133545},{"id":"https://openalex.org/C94671646","wikidata":"https://www.wikidata.org/wiki/Q207551","display_name":"Intron","level":3,"score":0.5215104222297668},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5040684938430786},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.4967373013496399},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.49166709184646606},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.48879215121269226},{"id":"https://openalex.org/C36823959","wikidata":"https://www.wikidata.org/wiki/Q373027","display_name":"Exon","level":3,"score":0.4812871813774109},{"id":"https://openalex.org/C174749747","wikidata":"https://www.wikidata.org/wiki/Q15917269","display_name":"Single cell sequencing","level":5,"score":0.43588489294052124},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.4195970892906189},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.3980613648891449},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.3966726064682007},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.37903961539268494},{"id":"https://openalex.org/C16671776","wikidata":"https://www.wikidata.org/wiki/Q5420592","display_name":"Exome sequencing","level":4,"score":0.2712896168231964},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.20238733291625977},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.16375023126602173}],"mesh":[{"descriptor_ui":"D000273","descriptor_name":"Adipose Tissue","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D005260","descriptor_name":"Female","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017398","descriptor_name":"Alternative Splicing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018709","descriptor_name":"Statistics, Nonparametric","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":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":9,"locations":[{"id":"doi:10.1371/journal.pone.0066883","doi":"https://doi.org/10.1371/journal.pone.0066883","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0066883","pdf_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0066883&type=printable","source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},{"id":"pmh:oai:europepmc.org:2696365","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3691247","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,"listed_in":[],"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3691247","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3691247","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,"listed_in":[],"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS One","raw_type":"Text"},{"id":"pmid:23826166","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23826166","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,"listed_in":[],"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":"PloS one","raw_type":"Journal Article"},{"id":"pmh:oai:repository.upenn.edu:biology_papers-1036","doi":null,"is_oa":true,"landing_page_url":"https://repository.upenn.edu/biology_papers/33","pdf_url":"https://repository.upenn.edu/biology_papers/33","source":{"id":"https://openalex.org/S4306402083","display_name":"ScholarlyCommons (University of Pennsylvania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I79576946","host_organization_name":"University of Pennsylvania","host_organization_lineage":["https://openalex.org/I79576946"],"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":"Departmental Papers (Biology)","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.813.8687","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.813.8687","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/f6/5a/pone.0066883.PMC3691247.pdf","raw_type":"text"},{"id":"pmh:oai:repository.upenn.edu:20.500.14332/5514","doi":null,"is_oa":true,"landing_page_url":"https://repository.upenn.edu/handle/20.500.14332/5514","pdf_url":null,"source":{"id":"https://openalex.org/S4306402083","display_name":"ScholarlyCommons (University of Pennsylvania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I79576946","host_organization_name":"University of Pennsylvania","host_organization_lineage":["https://openalex.org/I79576946"],"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":"8","raw_type":"Report"},{"id":"pmh:oai:doaj.org/article:c457a83470c743ebbe85503fd7e6e51e","doi":null,"is_oa":true,"landing_page_url":"https://doaj.org/article/c457a83470c743ebbe85503fd7e6e51e","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS ONE, Vol 8, Iss 6, p e66883 (2013)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/730475","doi":null,"is_oa":true,"landing_page_url":"https://figshare.com/articles/_Evaluating_the_Impact_of_Sequencing_Depth_on_Transcriptome_Profiling_in_Human_Adipose_/730475","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pone.0066883","doi":"https://doi.org/10.1371/journal.pone.0066883","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pone.0066883","pdf_url":"https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0066883&type=printable","source":{"id":"https://openalex.org/S202381698","display_name":"PLoS ONE","issn_l":"1932-6203","issn":["1932-6203"],"is_oa":true,"is_in_doaj":true,"is_core":true,"listed_in":["anvur-class-a","anvur-scientific","cwts-core","doaj","dongbi-c","doyens","erih-plus","jufo-1","ki-jl-1","medline","norway-1","poland-100","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS ONE","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5683000087738037,"id":"https://metadata.un.org/sdg/3","display_name":"Good health and well-being"}],"study_designs":[],"awards":[{"id":"https://openalex.org/G152020664","display_name":"Mentored Patient Oriented Research in Cardiometabolic Disease","funder_award_id":"K24HL107643","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G2815439263","display_name":"Translational Studies of ADAMTS7 a Novel GWAS Locus for Coronary Atherosclerosis","funder_award_id":"R01HL111694","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G2857256010","display_name":"Glycomics of Heart and Lung Disease in the Genomic Era","funder_award_id":"U01HL108636","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G3340927746","display_name":null,"funder_award_id":"UL1-TR-000003","funder_id":"https://openalex.org/F4320309370","funder_display_name":"University of Pennsylvania"},{"id":"https://openalex.org/G4257857766","display_name":"Predoctoral Training Program in Genetics","funder_award_id":"T32GM008216","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G453267231","display_name":null,"funder_award_id":"and K24","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4625334180","display_name":"Elucidation of Tissue-Specific Transcriptomic Profiles in Cardio-metabolic Disease","funder_award_id":"R01HL113147","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G5450403976","display_name":"Fractalkine in Adipose Inflammation and Insulin Resistance","funder_award_id":"R01DK090505","funder_id":"https://openalex.org/F4320337357","funder_display_name":"National Institute of Diabetes and Digestive and Kidney Diseases"},{"id":"https://openalex.org/G6412643361","display_name":null,"funder_award_id":"R01DK","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6945581575","display_name":"Statistical Methods for Gene Mapping Studies in Admixed Populations","funder_award_id":"R01HG005854","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G7298176736","display_name":"Developing Statistical Methods for Disease Gene Discovery","funder_award_id":"R01HG004517","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G742336583","display_name":"Lipids as Modulators of the Response to Vascular Injury","funder_award_id":"P50HL083799","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G7683699529","display_name":"Institutional Clinical and Translational Science Award","funder_award_id":"UL1TR000003","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320309370","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337357","display_name":"National Institute of Diabetes and Digestive and Kidney Diseases","ror":"https://ror.org/00adh9b73"},{"id":"https://openalex.org/F4320337375","display_name":"National Center for Research Resources","ror":"https://ror.org/04pw6fb54"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2013990566.pdf","grobid_xml":"https://content.openalex.org/works/W2013990566.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1575879600","https://openalex.org/W1968302884","https://openalex.org/W1970156673","https://openalex.org/W1972698844","https://openalex.org/W1973996769","https://openalex.org/W1997981911","https://openalex.org/W2023117694","https://openalex.org/W2046583421","https://openalex.org/W2060454917","https://openalex.org/W2072016877","https://openalex.org/W2082534286","https://openalex.org/W2083255582","https://openalex.org/W2090808827","https://openalex.org/W2093323215","https://openalex.org/W2097065948","https://openalex.org/W2103823493","https://openalex.org/W2121211805","https://openalex.org/W2133821155","https://openalex.org/W2141458291","https://openalex.org/W2142108845","https://openalex.org/W2145343991","https://openalex.org/W2154431984","https://openalex.org/W2155804510","https://openalex.org/W2159001939","https://openalex.org/W2160333540","https://openalex.org/W2162187760","https://openalex.org/W2163871842","https://openalex.org/W2171523916","https://openalex.org/W2171951970","https://openalex.org/W2319070317"],"related_works":["https://openalex.org/W7018892003","https://openalex.org/W7098584610","https://openalex.org/W4403377468","https://openalex.org/W4417118081","https://openalex.org/W6950493274","https://openalex.org/W3086675205","https://openalex.org/W2111108278","https://openalex.org/W2944001687","https://openalex.org/W2161106528","https://openalex.org/W7155216001"],"abstract_inverted_index":{"Recent":[0],"advances":[1],"in":[2,31,37,238],"RNA":[3],"sequencing":[4,56,104,141,200,248],"(RNA-Seq)":[5],"have":[6],"enabled":[7],"the":[8,53,103,138,144,187,206,220,225,231],"discovery":[9],"of":[10,42,60,73,89,98,109,146,163,189],"novel":[11],"transcriptomic":[12,61],"variations":[13],"that":[14,127,223,244],"are":[15,41],"not":[16],"possible":[17],"with":[18,198],"traditional":[19],"microarray-based":[20],"methods.":[21],"Tissue":[22],"and":[23,36,58,69,94,112,122,152,192,211,230,236],"cell":[24],"specific":[25],"transcriptome":[26],"changes":[27],"during":[28],"pathophysiological":[29],"stress":[30],"disease":[32],"cases":[33],"versus":[34],"controls":[35],"response":[38],"to":[39,45,118,129,233,252],"therapies":[40],"particular":[43],"interest":[44],"investigators":[46],"studying":[47],"cardiometabolic":[48],"diseases.":[49],"Thus,":[50],"knowledge":[51],"on":[52,140],"relationships":[54],"between":[55,227],"depth":[57,142,229,249],"detection":[59,145],"variation":[62],"is":[63,250],"needed":[64,106,170,251],"for":[65,70,107,143,171,183,258],"designing":[66],"RNA-Seq":[67,84,228],"experiments":[68],"interpreting":[71],"results":[72,242],"analyses.":[74],"Using":[75],"deeply":[76],"sequenced":[77],"Illumina":[78],"HiSeq":[79],"2000":[80],"101":[81],"bp":[82],"paired-end":[83],"data":[85],"derived":[86],"from":[87],"adipose":[88],"a":[90,245],"healthy":[91],"individual":[92],"before":[93],"after":[95],"systemic":[96],"administration":[97],"endotoxin":[99],"(LPS),":[100],"we":[101,125],"investigated":[102],"depths":[105,201],"studies":[108],"gene":[110,208],"expression":[111,150,209],"alternative":[113,154],"splicing":[114,155],"(AS).":[115],"In":[116],"order":[117],"detect":[119,161,234],"expressed":[120,190],"genes":[121,191],"AS":[123,193],"events,":[124,164],"found":[126],"\u223c100":[128],"150":[130],"million":[131],"(M)":[132],"filtered":[133,167,179,204],"reads":[134,168,180],"were":[135,169,181,215],"needed.":[136],"However,":[137],"requirement":[139],"LPS":[147],"modulated":[148],"differential":[149,153],"(DE)":[151],"(DAS)":[156],"was":[157],"much":[158,246],"higher.":[159],"To":[160],"80%":[162],"\u223c300":[165],"M":[166,178,203],"DE":[172,235,259],"analysis":[173],"whereas":[174],"at":[175],"least":[176],"400":[177],"necessary":[182],"detecting":[184],"DAS.":[185],"Although":[186],"majority":[188],"events":[194,256],"can":[195],"be":[196],"detected":[197],"modest":[199],"(\u223c100":[202],"reads),":[205],"estimated":[207],"levels":[210,214],"exon/intron":[212],"inclusion":[213],"less":[216],"accurate.":[217],"We":[218],"report":[219],"first":[221],"study":[222],"evaluates":[224],"relationship":[226],"ability":[232],"DAS":[237,255],"human":[239],"adipose.":[240],"Our":[241],"suggest":[243],"higher":[247],"reliably":[253],"identify":[254],"than":[257],"genes.":[260]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":7},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":2}],"updated_date":"2026-11-07T11:25:07.637180","created_date":"2016-06-24T00:00:00"}