{"id":"https://openalex.org/W2904829642","doi":"https://doi.org/10.1093/bioinformatics/bty1001","title":"BaiHui: cross-species brain-specific network built with hundreds of hand-curated datasets","display_name":"BaiHui: cross-species brain-specific network built with hundreds of hand-curated datasets","publication_year":2018,"publication_date":"2018-12-04","ids":{"openalex":"https://openalex.org/W2904829642","doi":"https://doi.org/10.1093/bioinformatics/bty1001","mag":"2904829642","pmid":"https://pubmed.ncbi.nlm.nih.gov/30521009"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty1001","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty1001","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101819060","display_name":"Hong\u2010Dong Li","orcid":null},"institutions":[{"id":"https://openalex.org/I139660479","display_name":"Central South University","ror":"https://ror.org/00f1zfq44","country_code":"CN","type":"education","lineage":["https://openalex.org/I139660479"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hong-Dong Li","raw_affiliation_strings":["Center for Bioinformatics, School of Information Science and Engineering, Central South University, Changsha, People\u2019s Republic of China","Department of Computational Medicine and Bioinformatics","Center for Bioinformatics, School of Information Science and Engineering, Central South University, Changsha, People's Republic of China"],"raw_orcid":"https://orcid.org/0000-0003-3438-739X","affiliations":[{"raw_affiliation_string":"Center for Bioinformatics, School of Information Science and Engineering, Central South University, Changsha, People\u2019s Republic of China","institution_ids":["https://openalex.org/I139660479"]},{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics","institution_ids":[]},{"raw_affiliation_string":"Center for Bioinformatics, School of Information Science and Engineering, Central South University, Changsha, People's Republic of China","institution_ids":["https://openalex.org/I139660479"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072781843","display_name":"Tianjian Bai","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Tianjian Bai","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021489219","display_name":"Erin Sandford","orcid":"https://orcid.org/0000-0003-3498-8144"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Erin Sandford","raw_affiliation_strings":["Molecular and Behavioral Neuroscience Institute, University of Michigan, Ann Arbor, MI, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Molecular and Behavioral Neuroscience Institute, University of Michigan, Ann Arbor, MI, USA","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009990416","display_name":"Margit Burmeister","orcid":"https://orcid.org/0000-0002-1914-2434"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Margit Burmeister","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics","Molecular and Behavioral Neuroscience Institute, University of Michigan, Ann Arbor, MI, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics","institution_ids":[]},{"raw_affiliation_string":"Molecular and Behavioral Neuroscience Institute, University of Michigan, Ann Arbor, MI, USA","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011032655","display_name":"Yuanfang Guan","orcid":"https://orcid.org/0000-0001-8275-2852"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Yuanfang Guan","raw_affiliation_strings":["Department of Computational Medicine and Bioinformatics"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Bioinformatics","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5011032655"],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.2058,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.79548654,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"35","issue":"14","first_page":"2486","last_page":"2488"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7976999878883362,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7976999878883362,"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":0.06069999933242798,"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/T10241","display_name":"Functional Brain Connectivity Studies","score":0.04619999974966049,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7217137217521667},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.5383215546607971},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.45894092321395874},{"id":"https://openalex.org/keywords/gene-regulatory-network","display_name":"Gene regulatory network","score":0.44822177290916443},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3436088562011719},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3423030972480774},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2716379761695862},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.18777868151664734}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7217137217521667},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.5383215546607971},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.45894092321395874},{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.44822177290916443},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3436088562011719},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3423030972480774},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2716379761695862},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.18777868151664734},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"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":"D001921","descriptor_name":"Brain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001921","descriptor_name":"Brain","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty1001","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty1001","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30521009","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30521009","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1903473726","display_name":null,"funder_award_id":"202041004","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G2590548920","display_name":null,"funder_award_id":"61702556","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1964542367","https://openalex.org/W1981409633","https://openalex.org/W1995647101","https://openalex.org/W2004977000","https://openalex.org/W2013038157","https://openalex.org/W2018570668","https://openalex.org/W2075496125","https://openalex.org/W2107923541","https://openalex.org/W2123545746","https://openalex.org/W2582951843","https://openalex.org/W2600872530","https://openalex.org/W2748727716","https://openalex.org/W2765606134","https://openalex.org/W2883248903","https://openalex.org/W3000437955","https://openalex.org/W6983502410"],"related_works":["https://openalex.org/W2130939068","https://openalex.org/W3163717165","https://openalex.org/W2114466827","https://openalex.org/W2129949791","https://openalex.org/W249159571","https://openalex.org/W2791736663","https://openalex.org/W2806770614","https://openalex.org/W2131550814","https://openalex.org/W1710460698","https://openalex.org/W2029535096"],"abstract_inverted_index":{"MOTIVATION:":[0],"Functional":[1],"gene":[2,20,67,138],"networks,":[3],"representing":[4],"how":[5,126],"likely":[6],"two":[7],"genes":[8,107],"work":[9],"in":[10,22,83],"the":[11,29,34,46,55,91,111],"same":[12],"biological":[13],"process,":[14],"are":[15,156],"important":[16],"models":[17],"for":[18],"studying":[19],"interactions":[21],"complex":[23],"tissues.":[24],"However,":[25],"a":[26,64,98],"limitation":[27],"of":[28,36,48,54,93,108,140],"current":[30],"network-building":[31],"scheme":[32],"is":[33,147],"lack":[35,47],"leveraging":[37],"evidence":[38],"from":[39,116],"multiple":[40],"model":[41],"organisms":[42],"as":[43,45],"well":[44],"expert":[49],"curation":[50],"and":[51,79,86,119],"quality":[52],"control":[53],"input":[56],"genomic":[57,81],"data.":[58,122],"RESULTS:":[59],"Here,":[60],"we":[61,96],"present":[62],"BaiHui,":[63],"brain-specific":[65],"functional":[66,114],"network":[68,121,128],"built":[69],"by":[70],"probabilistically":[71],"integrating":[72],"expertly-hand-curated":[73],"(by":[74],"reading":[75],"original":[76],"publications)":[77],"heterogeneous":[78],"multi-species":[80],"data":[82,155],"human,":[84],"mouse":[85],"rat":[87],"brains.":[88],"To":[89],"facilitate":[90],"use":[92],"this":[94,127],"network,":[95,112],"deployed":[97],"web":[99],"server":[100],"through":[101],"which":[102],"users":[103],"can":[104],"query":[105],"their":[106],"interest,":[109],"visualize":[110],"gain":[113],"insight":[115],"enrichment":[117],"analysis":[118],"download":[120],"We":[123],"also":[124],"illustrated":[125],"could":[129],"be":[130],"used":[131],"to":[132],"generate":[133],"testable":[134],"hypotheses":[135],"on":[136],"disease":[137],"prioritization":[139],"brain":[141],"disorders.":[142],"AVAILABILITY":[143],"AND":[144],"IMPLEMENTATION:":[145],"BaiHui":[146],"freely":[148],"available":[149,157],"at:":[150],"http://guanlab.ccmb.med.umich.edu/BaiHui/.":[151],"SUPPLEMENTARY":[152],"INFORMATION:":[153],"Supplementary":[154],"at":[158],"Bioinformatics":[159],"online.":[160]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
