{"id":"https://openalex.org/W4379981091","doi":"https://doi.org/10.1093/bioinformatics/btad378","title":"Finding motifs using DNA images derived from sparse representations","display_name":"Finding motifs using DNA images derived from sparse representations","publication_year":2023,"publication_date":"2023-06-01","ids":{"openalex":"https://openalex.org/W4379981091","doi":"https://doi.org/10.1093/bioinformatics/btad378","pmid":"https://pubmed.ncbi.nlm.nih.gov/37294804"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btad378","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad378","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad378/50698074/btad378.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"gold","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad378/50698074/btad378.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065777782","display_name":"Shane Chu","orcid":"https://orcid.org/0000-0002-8723-3215"},"institutions":[{"id":"https://openalex.org/I204465549","display_name":"Washington University in St. Louis","ror":"https://ror.org/01yc7t268","country_code":"US","type":"education","lineage":["https://openalex.org/I204465549"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Shane K Chu","raw_affiliation_strings":["Department of Computer Science and Engineering, Washington University in St. Louis , St. Louis, MO 63130, United States"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, Washington University in St. Louis , St. Louis, MO 63130, United States","institution_ids":["https://openalex.org/I204465549"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040496643","display_name":"Gary D. Stormo","orcid":"https://orcid.org/0000-0001-6896-1850"},"institutions":[{"id":"https://openalex.org/I204465549","display_name":"Washington University in St. Louis","ror":"https://ror.org/01yc7t268","country_code":"US","type":"education","lineage":["https://openalex.org/I204465549"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Gary D Stormo","raw_affiliation_strings":["Department of Genetics, Washington University School of Medicine , St. Louis, MO 63110, United States"],"affiliations":[{"raw_affiliation_string":"Department of Genetics, Washington University School of Medicine , St. Louis, MO 63110, United States","institution_ids":["https://openalex.org/I204465549"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5065777782"],"corresponding_institution_ids":["https://openalex.org/I204465549"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.4568,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.66573379,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"39","issue":"6","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9998999834060669,"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":0.9998999834060669,"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":0.998199999332428,"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":0.9970999956130981,"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/computer-science","display_name":"Computer science","score":0.7234379053115845},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.6831396222114563},{"id":"https://openalex.org/keywords/heuristics","display_name":"Heuristics","score":0.6260614395141602},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5315796136856079},{"id":"https://openalex.org/keywords/substring","display_name":"Substring","score":0.5292056798934937},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.47976478934288025},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.45864492654800415},{"id":"https://openalex.org/keywords/probabilistic-logic","display_name":"Probabilistic logic","score":0.4189901053905487},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.37530213594436646},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.32970714569091797},{"id":"https://openalex.org/keywords/data-structure","display_name":"Data structure","score":0.20040345191955566},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19695454835891724}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7234379053115845},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.6831396222114563},{"id":"https://openalex.org/C127705205","wikidata":"https://www.wikidata.org/wiki/Q5748245","display_name":"Heuristics","level":2,"score":0.6260614395141602},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5315796136856079},{"id":"https://openalex.org/C182407805","wikidata":"https://www.wikidata.org/wiki/Q2626534","display_name":"Substring","level":3,"score":0.5292056798934937},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.47976478934288025},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.45864492654800415},{"id":"https://openalex.org/C49937458","wikidata":"https://www.wikidata.org/wiki/Q2599292","display_name":"Probabilistic logic","level":2,"score":0.4189901053905487},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.37530213594436646},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.32970714569091797},{"id":"https://openalex.org/C162319229","wikidata":"https://www.wikidata.org/wiki/Q175263","display_name":"Data structure","level":2,"score":0.20040345191955566},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19695454835891724},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","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},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btad378","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad378","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad378/50698074/btad378.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37294804","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37294804","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:10290554","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10290554","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10290554/pdf/btad378.pdf","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:digitalcommons.wustl.edu:oa_4-2957","is_oa":true,"landing_page_url":"https://digitalcommons.wustl.edu/oa_4/1960","pdf_url":null,"source":{"id":"https://openalex.org/S4306400764","display_name":"Digital Commons@Becker (Washington University School of Medicine)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I204465549","host_organization_name":"Washington University in St. Louis","host_organization_lineage":["https://openalex.org/I204465549"],"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":"2020-Current year OA Pubs","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btad378","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btad378","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/6/btad378/50698074/btad378.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3611247453","display_name":null,"funder_award_id":"R01GM","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7779922162","display_name":null,"funder_award_id":"1R01GM125736","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4379981091.pdf"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1972792790","https://openalex.org/W2003967338","https://openalex.org/W2014677321","https://openalex.org/W2016384870","https://openalex.org/W2020952430","https://openalex.org/W2029829462","https://openalex.org/W2033169664","https://openalex.org/W2035806546","https://openalex.org/W2056002855","https://openalex.org/W2077013196","https://openalex.org/W2111451842","https://openalex.org/W2118215072","https://openalex.org/W2135221645","https://openalex.org/W2190662802","https://openalex.org/W2226299262","https://openalex.org/W2345512687","https://openalex.org/W2800431972","https://openalex.org/W2952071070","https://openalex.org/W2962862931","https://openalex.org/W3100197791","https://openalex.org/W3130819465","https://openalex.org/W3133902371","https://openalex.org/W3139265997","https://openalex.org/W3203588026","https://openalex.org/W3212111676","https://openalex.org/W3212334377","https://openalex.org/W3215596355","https://openalex.org/W4290672942","https://openalex.org/W4292363360","https://openalex.org/W4296777412","https://openalex.org/W4308320736","https://openalex.org/W4318071523","https://openalex.org/W4360599575","https://openalex.org/W6651231077","https://openalex.org/W6737947904","https://openalex.org/W6784591795","https://openalex.org/W6849468941"],"related_works":["https://openalex.org/W1583922594","https://openalex.org/W2998448420","https://openalex.org/W1974038726","https://openalex.org/W1953626159","https://openalex.org/W1598224733","https://openalex.org/W4304731099","https://openalex.org/W4280502676","https://openalex.org/W2000769876","https://openalex.org/W2120581723","https://openalex.org/W2157233202"],"abstract_inverted_index":{"Our":[0],"method":[1],"is":[2],"available":[3],"as":[4],"a":[5],"Julia":[6],"package":[7],"under":[8],"the":[9,15],"MIT":[10],"license":[11],"at":[12,23],"https://github.com/kchu25/MOTIFs.jl,":[13],"and":[14],"results":[16],"on":[17],"experimental":[18],"data":[19],"can":[20],"be":[21],"found":[22],"https://zenodo.org/record/7783033.":[24]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
