{"id":"https://openalex.org/W4310079732","doi":"https://doi.org/10.1007/978-1-0716-2847-8_15","title":"Mapping Transcription Regulation with Run-on and Sequencing Data Using the Web-Based tfTarget Gateway","display_name":"Mapping Transcription Regulation with Run-on and Sequencing Data Using the Web-Based tfTarget Gateway","publication_year":2022,"publication_date":"2022-11-25","ids":{"openalex":"https://openalex.org/W4310079732","doi":"https://doi.org/10.1007/978-1-0716-2847-8_15","pmid":"https://pubmed.ncbi.nlm.nih.gov/36427152"},"language":"en","primary_location":{"id":"doi:10.1007/978-1-0716-2847-8_15","doi":"https://doi.org/10.1007/978-1-0716-2847-8_15","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-0716-2847-8_15","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-3","vabb-shw"],"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods in Molecular Biology","raw_type":"book-chapter"},"volume":{"id":"https://openalex.org/W2229349665","display_name":"DNA-Protein Interactions"},"type":"book-chapter","indexed_in":["crossref","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/A5016486120","display_name":"Nating Wang","orcid":"https://orcid.org/0009-0007-1664-8791","observed_orcids":["https://orcid.org/0009-0007-1664-8791"]},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Nating Wang","raw_affiliation_strings":["School of Software Technology, Dalian University of Technology, Dalian, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Software Technology, Dalian University of Technology, Dalian, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100435261","display_name":"Zhong Wang","orcid":"https://orcid.org/0000-0001-8399-2575","observed_orcids":["https://orcid.org/0000-0001-8399-2575"]},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhong Wang","raw_affiliation_strings":["School of Software Technology, Dalian University of Technology, Dalian, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Software Technology, Dalian University of Technology, Dalian, China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024923108","display_name":"Charles G. Danko","orcid":"https://orcid.org/0000-0002-1999-7125","observed_orcids":["https://orcid.org/0000-0002-1999-7125"]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Charles G. Danko","raw_affiliation_strings":["Baker Institute for Animal Health, Cornell University, Ithaca, NY, USA","Baker Institute for Animal Health, Cornell University, Ithaca, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baker Institute for Animal Health, Cornell University, Ithaca, NY, USA","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Baker Institute for Animal Health, Cornell University, Ithaca, USA","institution_ids":["https://openalex.org/I205783295"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080074043","display_name":"Tinyi Chu","orcid":"https://orcid.org/0000-0003-3369-6692","observed_orcids":["https://orcid.org/0000-0003-3369-6692"]},"institutions":[{"id":"https://openalex.org/I205783295","display_name":"Cornell University","ror":"https://ror.org/05bnh6r87","country_code":"US","type":"education","lineage":["https://openalex.org/I205783295"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Tinyi Chu","raw_affiliation_strings":["Baker Institute for Animal Health, Cornell University, Ithaca, NY, USA. tc532@cornell.edu","Baker Institute for Animal Health, Cornell University, Ithaca, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Baker Institute for Animal Health, Cornell University, Ithaca, NY, USA. tc532@cornell.edu","institution_ids":["https://openalex.org/I205783295"]},{"raw_affiliation_string":"Baker Institute for Animal Health, Cornell University, Ithaca, USA","institution_ids":["https://openalex.org/I205783295"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5080074043"],"corresponding_institution_ids":["https://openalex.org/I205783295"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.31244008,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"2599","issue":null,"first_page":"215","last_page":"226"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9951000213623047,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9951000213623047,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.000699999975040555,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0005000000237487257,"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/transcriptional-regulation","display_name":"transcriptional regulation","score":0.8539999723434448},{"id":"https://openalex.org/keywords/transcriptional-targets","display_name":"transcription factor target genes","score":0.7599999904632568},{"id":"https://openalex.org/keywords/transcriptional-regulatory-elements","display_name":"transcriptional regulatory elements","score":0.9100000262260437},{"id":"https://openalex.org/keywords/gro-seq","display_name":"GRO-seq","score":0.9300000071525574},{"id":"https://openalex.org/keywords/pro-seq","display_name":"PRO-seq","score":0.9800000190734863},{"id":"https://openalex.org/keywords/transcription-factor-activity","display_name":"transcription factor activity","score":0.5360000133514404},{"id":"https://openalex.org/keywords/promoter-activity","display_name":"promoter activity","score":0.5830000042915344},{"id":"https://openalex.org/keywords/active-enhancers","display_name":"active enhancers","score":0.8429999947547913}],"concepts":[{"id":"https://openalex.org/C111936080","wikidata":"https://www.wikidata.org/wiki/Q913367","display_name":"Enhancer","level":4,"score":0.7685186862945557},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6166204810142517},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5843737721443176},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.5825139880180359},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5408018827438354},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.5252149701118469},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.49175265431404114},{"id":"https://openalex.org/C190796033","wikidata":"https://www.wikidata.org/wiki/Q1093165","display_name":"Cis-regulatory module","level":5,"score":0.43381422758102417},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4318242371082306},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.15211671590805054},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D050436","descriptor_name":"Regulatory Elements, Transcriptional","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1007/978-1-0716-2847-8_15","doi":"https://doi.org/10.1007/978-1-0716-2847-8_15","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-0716-2847-8_15","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","jufo-1","ki-jl-1","medline","norway-1","poland-70","russia-white-list-3","vabb-shw"],"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods in Molecular Biology","raw_type":"book-chapter"},{"id":"pmid:36427152","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36427152","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":"Methods in molecular biology (Clifton, N.J.)","raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G1173569537","display_name":"Mapping RNA polymerase in tissue samples with ChRO-seq.","funder_award_id":"5r01hg009309-05","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G984684530","display_name":null,"funder_award_id":"R01-HG009309","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":9,"referenced_works":["https://openalex.org/W1985567287","https://openalex.org/W1997590968","https://openalex.org/W2007844697","https://openalex.org/W2026690931","https://openalex.org/W2070021921","https://openalex.org/W2105924780","https://openalex.org/W2896399042","https://openalex.org/W2908497471","https://openalex.org/W2950354537"],"related_works":["https://openalex.org/W2908497471","https://openalex.org/W2769127707","https://openalex.org/W4409285773","https://openalex.org/W3080500495","https://openalex.org/W1997590968","https://openalex.org/W4394869496","https://openalex.org/W4392894281","https://openalex.org/W2964315448","https://openalex.org/W7213263039","https://openalex.org/W2135661553"],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2022-11-30T00:00:00"}
