{"id":"https://openalex.org/W2962038738","doi":"https://doi.org/10.1093/bioinformatics/btz322","title":"GkmExplain: fast and accurate interpretation of nonlinear gapped <i>k</i> -mer SVMs","display_name":"GkmExplain: fast and accurate interpretation of nonlinear gapped <i>k</i> -mer SVMs","publication_year":2019,"publication_date":"2019-05-09","ids":{"openalex":"https://openalex.org/W2962038738","doi":"https://doi.org/10.1093/bioinformatics/btz322","mag":"2962038738","pmid":"https://pubmed.ncbi.nlm.nih.gov/31510661"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz322","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz322","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/14/i173/28913313/btz322.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/35/14/i173/28913313/btz322.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5053034507","display_name":"Avanti Shrikumar","orcid":"https://orcid.org/0000-0002-6443-4671"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Avanti Shrikumar","raw_affiliation_strings":["Department of Computer Science, Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049741753","display_name":"Eva Prakash","orcid":"https://orcid.org/0000-0001-7875-0678"},"institutions":[{"id":"https://openalex.org/I4210129168","display_name":"BASIS International (United States)","ror":"https://ror.org/03q4sef08","country_code":"US","type":"company","lineage":["https://openalex.org/I4210129168"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eva Prakash","raw_affiliation_strings":["Computer Science, BASIS Independent Silicon Valley, San Jose, CA, USA"],"affiliations":[{"raw_affiliation_string":"Computer Science, BASIS Independent Silicon Valley, San Jose, CA, USA","institution_ids":["https://openalex.org/I4210129168"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083952534","display_name":"Anshul Kundaje","orcid":"https://orcid.org/0000-0003-3084-2287"},"institutions":[{"id":"https://openalex.org/I97018004","display_name":"Stanford University","ror":"https://ror.org/00f54p054","country_code":"US","type":"education","lineage":["https://openalex.org/I97018004"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Anshul Kundaje","raw_affiliation_strings":["Department of Computer Science, Stanford University, Stanford, CA, USA","Department of Genetics, Stanford University, Stanford, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]},{"raw_affiliation_string":"Department of Genetics, Stanford University, Stanford, CA, USA","institution_ids":["https://openalex.org/I97018004"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5053034507","https://openalex.org/A5083952534"],"corresponding_institution_ids":["https://openalex.org/I97018004"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.266,"has_fulltext":true,"cited_by_count":71,"citation_normalized_percentile":{"value":0.93070273,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"35","issue":"14","first_page":"i173","last_page":"i182"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":1.0,"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":1.0,"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/T10604","display_name":"RNA Research and Splicing","score":0.9976999759674072,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9939000010490417,"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/support-vector-machine","display_name":"Support vector machine","score":0.7624262571334839},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6850466132164001},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.6562395095825195},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4795622229576111},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.4560721516609192},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.45235496759414673},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.45028313994407654},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.40486425161361694},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.39116334915161133},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.37681010365486145},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3249625563621521},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15752753615379333},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1489642858505249},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12418457865715027},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08941629528999329}],"concepts":[{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.7624262571334839},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6850466132164001},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6562395095825195},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4795622229576111},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.4560721516609192},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.45235496759414673},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.45028313994407654},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.40486425161361694},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.39116334915161133},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.37681010365486145},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3249625563621521},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15752753615379333},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1489642858505249},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12418457865715027},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08941629528999329},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","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":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D002843","descriptor_name":"Chromatin","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btz322","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz322","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/14/i173/28913313/btz322.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:31510661","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31510661","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:europepmc.org:5588669","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6612808","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz322","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz322","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/14/i173/28913313/btz322.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":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.4300000071525574}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2962038738.pdf","grobid_xml":"https://content.openalex.org/works/W2962038738.grobid-xml"},"referenced_works_count":15,"referenced_works":["https://openalex.org/W1988581590","https://openalex.org/W2014677321","https://openalex.org/W2033202128","https://openalex.org/W2112484474","https://openalex.org/W2119290215","https://openalex.org/W2121926265","https://openalex.org/W2157009395","https://openalex.org/W2198606573","https://openalex.org/W2212528563","https://openalex.org/W2259938310","https://openalex.org/W2330303612","https://openalex.org/W2618851150","https://openalex.org/W2962862931","https://openalex.org/W6677949267","https://openalex.org/W6737947904"],"related_works":["https://openalex.org/W2912862995","https://openalex.org/W3168471393","https://openalex.org/W3129816939","https://openalex.org/W2101501829","https://openalex.org/W2985427592","https://openalex.org/W2060263731","https://openalex.org/W2003194288","https://openalex.org/W391093122","https://openalex.org/W4361305867","https://openalex.org/W4295068701"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":15},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":14},{"year":2021,"cited_by_count":12},{"year":2020,"cited_by_count":12},{"year":2018,"cited_by_count":1}],"updated_date":"2026-04-02T15:55:50.835912","created_date":"2025-10-10T00:00:00"}
