{"id":"https://openalex.org/W2157118627","doi":"https://doi.org/10.1093/bioinformatics/btn417","title":"<i>Arabidopsis thaliana</i>regulatory element analyzer","display_name":"<i>Arabidopsis thaliana</i>regulatory element analyzer","publication_year":2008,"publication_date":"2008-08-11","ids":{"openalex":"https://openalex.org/W2157118627","doi":"https://doi.org/10.1093/bioinformatics/btn417","mag":"2157118627","pmid":"https://pubmed.ncbi.nlm.nih.gov/18694893"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn417","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn417","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/19/2263/49052164/bioinformatics_24_19_2263.pdf","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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/24/19/2263/49052164/bioinformatics_24_19_2263.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5018674357","display_name":"Ananyo Choudhury","orcid":"https://orcid.org/0000-0001-8225-9531"},"institutions":[{"id":"https://openalex.org/I106542073","display_name":"University of Calcutta","ror":"https://ror.org/01e7v7w47","country_code":"IN","type":"education","lineage":["https://openalex.org/I106542073"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Ananyo Choudhury","raw_affiliation_strings":["Department of Biophysics Molecular Biology and Genetics, University of Calcutta, 92 APC Road, Kolkata 700009, India"],"affiliations":[{"raw_affiliation_string":"Department of Biophysics Molecular Biology and Genetics, University of Calcutta, 92 APC Road, Kolkata 700009, India","institution_ids":["https://openalex.org/I106542073"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052850159","display_name":"Ansuman Lahiri","orcid":"https://orcid.org/0000-0002-7398-4114"},"institutions":[{"id":"https://openalex.org/I106542073","display_name":"University of Calcutta","ror":"https://ror.org/01e7v7w47","country_code":"IN","type":"education","lineage":["https://openalex.org/I106542073"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Ansuman Lahiri","raw_affiliation_strings":["Department of Biophysics Molecular Biology and Genetics, University of Calcutta, 92 APC Road, Kolkata 700009, India"],"affiliations":[{"raw_affiliation_string":"Department of Biophysics Molecular Biology and Genetics, University of Calcutta, 92 APC Road, Kolkata 700009, India","institution_ids":["https://openalex.org/I106542073"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5018674357"],"corresponding_institution_ids":["https://openalex.org/I106542073"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4254,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.7611943,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"24","issue":"19","first_page":"2263","last_page":"2264"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10184","display_name":"Plant Molecular Biology Research","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10184","display_name":"Plant Molecular Biology Research","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11247","display_name":"Plant nutrient uptake and metabolism","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9968000054359436,"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/arabidopsis-thaliana","display_name":"Arabidopsis thaliana","score":0.7487027049064636},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6900161504745483},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5884129405021667},{"id":"https://openalex.org/keywords/arabidopsis","display_name":"Arabidopsis","score":0.5678476691246033},{"id":"https://openalex.org/keywords/regulatory-sequence","display_name":"Regulatory sequence","score":0.5033947825431824},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4543026387691498},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.44671061635017395},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.42242830991744995},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3569495677947998},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.35260769724845886},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.324022114276886},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2855141758918762}],"concepts":[{"id":"https://openalex.org/C2775988993","wikidata":"https://www.wikidata.org/wiki/Q158695","display_name":"Arabidopsis thaliana","level":4,"score":0.7487027049064636},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6900161504745483},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5884129405021667},{"id":"https://openalex.org/C2779491563","wikidata":"https://www.wikidata.org/wiki/Q157892","display_name":"Arabidopsis","level":4,"score":0.5678476691246033},{"id":"https://openalex.org/C21592294","wikidata":"https://www.wikidata.org/wiki/Q3238407","display_name":"Regulatory sequence","level":4,"score":0.5033947825431824},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4543026387691498},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.44671061635017395},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.42242830991744995},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3569495677947998},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.35260769724845886},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.324022114276886},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2855141758918762},{"id":"https://openalex.org/C143065580","wikidata":"https://www.wikidata.org/wiki/Q3285695","display_name":"Mutant","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018506","descriptor_name":"Gene Expression Regulation, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btn417","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn417","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/19/2263/49052164/bioinformatics_24_19_2263.pdf","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:18694893","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18694893","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":{"id":"doi:10.1093/bioinformatics/btn417","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn417","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/19/2263/49052164/bioinformatics_24_19_2263.pdf","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"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2157118627.pdf","grobid_xml":"https://content.openalex.org/works/W2157118627.grobid-xml"},"referenced_works_count":16,"referenced_works":["https://openalex.org/W1534349108","https://openalex.org/W1593132348","https://openalex.org/W2026353653","https://openalex.org/W2053709894","https://openalex.org/W2065716803","https://openalex.org/W2072517037","https://openalex.org/W2103017472","https://openalex.org/W2117281351","https://openalex.org/W2125776280","https://openalex.org/W2135878133","https://openalex.org/W2137188615","https://openalex.org/W2137917513","https://openalex.org/W2139556683","https://openalex.org/W2141519063","https://openalex.org/W2157236929","https://openalex.org/W2167865654"],"related_works":["https://openalex.org/W1594012662","https://openalex.org/W2106134872","https://openalex.org/W2269421989","https://openalex.org/W3147624048","https://openalex.org/W2006745274","https://openalex.org/W2355042192","https://openalex.org/W2391996571","https://openalex.org/W2372627703","https://openalex.org/W1987749596","https://openalex.org/W4313509691"],"abstract_inverted_index":{"AtREA":[0],"is":[1],"freely":[2],"available":[3],"at":[4],"http://www.bioinformatics.org/grn/atrea.html.":[5]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2017,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2016-06-24T00:00:00"}