{"id":"https://openalex.org/W2999765865","doi":"https://doi.org/10.1093/bioinformatics/btaa027","title":"AnnoGen: annotating genome-wide pragmatic features","display_name":"AnnoGen: annotating genome-wide pragmatic features","publication_year":2020,"publication_date":"2020-01-09","ids":{"openalex":"https://openalex.org/W2999765865","doi":"https://doi.org/10.1093/bioinformatics/btaa027","mag":"2999765865","pmid":"https://pubmed.ncbi.nlm.nih.gov/31930398"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa027","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa027","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":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7203733","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040171040","display_name":"Quanhu Sheng","orcid":"https://orcid.org/0000-0001-8951-9295"},"institutions":[{"id":"https://openalex.org/I901861585","display_name":"Vanderbilt University Medical Center","ror":"https://ror.org/05dq2gs74","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210162197","https://openalex.org/I901861585"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Quanhu Sheng","raw_affiliation_strings":["Department of Biostatistics , Vanderbilt University Medical Center, Nashville, TN 37232, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biostatistics , Vanderbilt University Medical Center, Nashville, TN 37232, USA","institution_ids":["https://openalex.org/I901861585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024895838","display_name":"Hui Yu","orcid":"https://orcid.org/0000-0002-4491-8855"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]},{"id":"https://openalex.org/I4210141130","display_name":"New Mexico Cancer Center","ror":"https://ror.org/03emyr182","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210141130"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hui Yu","raw_affiliation_strings":["Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA","institution_ids":["https://openalex.org/I4210141130","https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047816833","display_name":"Olufunmilola Oyebamiji","orcid":"https://orcid.org/0000-0003-3859-9787"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]},{"id":"https://openalex.org/I4210141130","display_name":"New Mexico Cancer Center","ror":"https://ror.org/03emyr182","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210141130"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Olufunmilola Oyebamiji","raw_affiliation_strings":["Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA","institution_ids":["https://openalex.org/I4210141130","https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100444309","display_name":"Jiandong Wang","orcid":"https://orcid.org/0000-0002-5439-1778"},"institutions":[{"id":"https://openalex.org/I155781252","display_name":"University of South Carolina","ror":"https://ror.org/02b6qw903","country_code":"US","type":"education","lineage":["https://openalex.org/I155781252"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiandong Wang","raw_affiliation_strings":["Department of Computer Science , University of South Carolina, Columbia, SC 29205, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science , University of South Carolina, Columbia, SC 29205, USA","institution_ids":["https://openalex.org/I155781252"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088303852","display_name":"Dan\u2010Qian Chen","orcid":"https://orcid.org/0000-0002-2259-7739"},"institutions":[{"id":"https://openalex.org/I37802460","display_name":"Northwest University","ror":"https://ror.org/00z3td547","country_code":"CN","type":"education","lineage":["https://openalex.org/I37802460"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Danqian Chen","raw_affiliation_strings":["Key Laboratory of Resource Biology and Biotechnology , Western China School of Life Sciences, Northwest University, Xi'an, Shaanxi, China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Resource Biology and Biotechnology , Western China School of Life Sciences, Northwest University, Xi'an, Shaanxi, China","institution_ids":["https://openalex.org/I37802460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027429714","display_name":"Scott A. Ness","orcid":"https://orcid.org/0000-0001-6965-8909"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]},{"id":"https://openalex.org/I4210141130","display_name":"New Mexico Cancer Center","ror":"https://ror.org/03emyr182","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210141130"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Scott Ness","raw_affiliation_strings":["Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA","institution_ids":["https://openalex.org/I4210141130","https://openalex.org/I169521973"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043016170","display_name":"Ying\u2010Yong Zhao","orcid":"https://orcid.org/0000-0002-0239-7342"},"institutions":[{"id":"https://openalex.org/I37802460","display_name":"Northwest University","ror":"https://ror.org/00z3td547","country_code":"CN","type":"education","lineage":["https://openalex.org/I37802460"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ying-Yong Zhao","raw_affiliation_strings":["Key Laboratory of Resource Biology and Biotechnology , Western China School of Life Sciences, Northwest University, Xi'an, Shaanxi, China"],"affiliations":[{"raw_affiliation_string":"Key Laboratory of Resource Biology and Biotechnology , Western China School of Life Sciences, Northwest University, Xi'an, Shaanxi, China","institution_ids":["https://openalex.org/I37802460"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056796466","display_name":"Yan Guo","orcid":"https://orcid.org/0000-0001-5252-3960"},"institutions":[{"id":"https://openalex.org/I169521973","display_name":"University of New Mexico","ror":"https://ror.org/05fs6jp91","country_code":"US","type":"education","lineage":["https://openalex.org/I169521973"]},{"id":"https://openalex.org/I4210141130","display_name":"New Mexico Cancer Center","ror":"https://ror.org/03emyr182","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I4210141130"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yan Guo","raw_affiliation_strings":["Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA"],"affiliations":[{"raw_affiliation_string":"Department of Internal Medicine , Comprehensive Cancer Center, University of New Mexico, Albuquerque, NM 87109, USA","institution_ids":["https://openalex.org/I4210141130","https://openalex.org/I169521973"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5056796466"],"corresponding_institution_ids":["https://openalex.org/I169521973","https://openalex.org/I4210141130"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.3338,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.558402,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"36","issue":"9","first_page":"2899","last_page":"2901"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9995999932289124,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9991999864578247,"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/annotation","display_name":"Annotation","score":0.776183545589447},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6737551689147949},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6052001118659973},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.579850971698761},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4546296298503876},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.43566587567329407},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.4146912097930908},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.41451969742774963},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27759307622909546},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23805281519889832},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14988744258880615},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1343154013156891},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11374163627624512}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.776183545589447},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6737551689147949},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6052001118659973},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.579850971698761},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4546296298503876},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.43566587567329407},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.4146912097930908},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.41451969742774963},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27759307622909546},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23805281519889832},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14988744258880615},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1343154013156891},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11374163627624512}],"mesh":[{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","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":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaa027","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa027","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:31930398","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31930398","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},{"id":"pmh:oai:pubmedcentral.nih.gov:7203733","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7203733","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:7203733","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7203733","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","score":0.46000000834465027,"display_name":"Affordable and clean energy"}],"awards":[{"id":"https://openalex.org/G5890198639","display_name":null,"funder_award_id":"P30CA118100","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":12,"referenced_works":["https://openalex.org/W1979594866","https://openalex.org/W1984068087","https://openalex.org/W2018742603","https://openalex.org/W2099747733","https://openalex.org/W2112333437","https://openalex.org/W2152605077","https://openalex.org/W2580314844","https://openalex.org/W2619541082","https://openalex.org/W2908390949","https://openalex.org/W2940844549","https://openalex.org/W2953263404","https://openalex.org/W3013371767"],"related_works":["https://openalex.org/W2162782320","https://openalex.org/W2059565715","https://openalex.org/W4232413416","https://openalex.org/W2009940763","https://openalex.org/W2114034054","https://openalex.org/W2537312848","https://openalex.org/W45826765","https://openalex.org/W3111061871","https://openalex.org/W2099626126","https://openalex.org/W1999129612"],"abstract_inverted_index":{"https://github.com/shengqh/annogen.":[0]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":2}],"updated_date":"2026-03-27T14:29:43.386196","created_date":"2025-10-10T00:00:00"}
