{"id":"https://openalex.org/W3092835166","doi":"https://doi.org/10.1186/s12859-020-03781-2","title":"Search and comparison of (epi)genomic feature patterns in multiple genome browser tracks","display_name":"Search and comparison of (epi)genomic feature patterns in multiple genome browser tracks","publication_year":2020,"publication_date":"2020-10-19","ids":{"openalex":"https://openalex.org/W3092835166","doi":"https://doi.org/10.1186/s12859-020-03781-2","mag":"3092835166","pmid":"https://pubmed.ncbi.nlm.nih.gov/33076821"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-03781-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03781-2","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-03781-2.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-03781-2.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005880496","display_name":"Arnaud C\u00e9ol","orcid":"https://orcid.org/0000-0001-9533-4246"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I4210151238","display_name":"Center for Genomic Science","ror":"https://ror.org/04xbkmk86","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326","https://openalex.org/I4210151238"]},{"id":"https://openalex.org/I6141010","display_name":"European Institute of Oncology","ror":"https://ror.org/02vr0ne26","country_code":"IT","type":"healthcare","lineage":["https://openalex.org/I4210153126","https://openalex.org/I6141010"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Arnaud Ceol","raw_affiliation_strings":["Center for Genomic Science of IIT@SEMM, Fondazione Istituto Italiano di Tecnologia (IIT), 20139, Milan, Italy","IEO, European Institute of Oncology IRCCS, 20141, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Genomic Science of IIT@SEMM, Fondazione Istituto Italiano di Tecnologia (IIT), 20139, Milan, Italy","institution_ids":["https://openalex.org/I30771326","https://openalex.org/I4210151238"]},{"raw_affiliation_string":"IEO, European Institute of Oncology IRCCS, 20141, Milan, Italy","institution_ids":["https://openalex.org/I6141010"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006632281","display_name":"Piero Montanari","orcid":null},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Piero Montanari","raw_affiliation_strings":["DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083252662","display_name":"Ilaria Bartolini","orcid":"https://orcid.org/0000-0002-8074-1129"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Ilaria Bartolini","raw_affiliation_strings":["DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5048332811","display_name":"Stefano Ceri","orcid":"https://orcid.org/0000-0003-0671-2415"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Ceri","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, 20133, Milan, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, 20133, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010984921","display_name":"Paolo Ciaccia","orcid":"https://orcid.org/0000-0002-1794-6244"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Paolo Ciaccia","raw_affiliation_strings":["DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043889718","display_name":"Marco Patella","orcid":"https://orcid.org/0000-0003-2655-0759"},"institutions":[{"id":"https://openalex.org/I9360294","display_name":"University of Bologna","ror":"https://ror.org/01111rn36","country_code":"IT","type":"education","lineage":["https://openalex.org/I9360294"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Marco Patella","raw_affiliation_strings":["DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"DISI, Universit\u00e0 di Bologna, 40136, Bologna, Italy","institution_ids":["https://openalex.org/I9360294"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085346183","display_name":"Marco Masseroli","orcid":"https://orcid.org/0000-0003-2574-1174"},"institutions":[{"id":"https://openalex.org/I93860229","display_name":"Politecnico di Milano","ror":"https://ror.org/01nffqt88","country_code":"IT","type":"education","lineage":["https://openalex.org/I93860229"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Marco Masseroli","raw_affiliation_strings":["Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, 20133, Milan, Italy. masseroli@elet.polimi.it","Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, 20133, Milan, Italy"],"raw_orcid":"https://orcid.org/0000-0003-2574-1174","affiliations":[{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, 20133, Milan, Italy. masseroli@elet.polimi.it","institution_ids":["https://openalex.org/I93860229"]},{"raw_affiliation_string":"Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, 20133, Milan, Italy","institution_ids":["https://openalex.org/I93860229"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5085346183"],"corresponding_institution_ids":["https://openalex.org/I93860229"],"apc_list":{"value":2990,"currency":"USD","value_usd":2990},"apc_paid":{"value":2990,"currency":"USD","value_usd":2990},"fwci":0.4495,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.59307676,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"21","issue":"1","first_page":"464","last_page":"464"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.5016999840736389,"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":0.5016999840736389,"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":0.20000000298023224,"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":0.04650000110268593,"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/genome","display_name":"Genome","score":0.7024552822113037},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6171237826347351},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.6133127808570862},{"id":"https://openalex.org/keywords/plug-in","display_name":"Plug-in","score":0.5830093026161194},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.5670796632766724},{"id":"https://openalex.org/keywords/encode","display_name":"ENCODE","score":0.5649659037590027},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5517812967300415},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4939480423927307},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4795481860637665},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.42728376388549805},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.42497727274894714},{"id":"https://openalex.org/keywords/epigenomics","display_name":"Epigenomics","score":0.4234640896320343},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.32142215967178345},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.30812984704971313},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.18180319666862488},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.14716821908950806},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10306167602539062},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.08414146304130554}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7024552822113037},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6171237826347351},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.6133127808570862},{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.5830093026161194},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.5670796632766724},{"id":"https://openalex.org/C66746571","wikidata":"https://www.wikidata.org/wiki/Q1134833","display_name":"ENCODE","level":3,"score":0.5649659037590027},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5517812967300415},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4939480423927307},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4795481860637665},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.42728376388549805},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.42497727274894714},{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.4234640896320343},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.32142215967178345},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.30812984704971313},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.18180319666862488},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.14716821908950806},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10306167602539062},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.08414146304130554},{"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/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"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/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","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":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012045","descriptor_name":"Regulatory Sequences, Nucleic Acid","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D014157","descriptor_name":"Transcription Factors","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"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":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-020-03781-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03781-2","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-03781-2.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:33076821","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33076821","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":"BMC bioinformatics","raw_type":"Comparative Study"},{"id":"pmh:oai:cris.unibo.it:11585/775670","is_oa":true,"landing_page_url":"http://hdl.handle.net/11585/775670","pdf_url":"https://cris.unibo.it/bitstream/11585/775670/1/2020-BMC%20Bioinformatics.pdf","source":{"id":"https://openalex.org/S4306402579","display_name":"Archivio istituzionale della ricerca (Alma Mater Studiorum Universit\u00e0 di Bologna)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210117483","host_organization_name":"Istituto di Ematologia di Bologna","host_organization_lineage":["https://openalex.org/I4210117483"],"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":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7574191","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7574191","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:48274b9c751a49a188f1d8c441b3551f","is_oa":true,"landing_page_url":"https://doaj.org/article/48274b9c751a49a188f1d8c441b3551f","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-13 (2020)","raw_type":"article"},{"id":"pmh:oai:re.public.polimi.it:11311/1162954","is_oa":true,"landing_page_url":"http://hdl.handle.net/11311/1162954","pdf_url":null,"source":{"id":"https://openalex.org/S4306400312","display_name":"Virtual Community of Pathological Anatomy (University of Castilla La Mancha)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79189158","host_organization_name":"University of Castilla-La Mancha","host_organization_lineage":["https://openalex.org/I79189158"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-03781-2","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-03781-2","pdf_url":"https://link.springer.com/content/pdf/10.1186/s12859-020-03781-2.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1304975826","display_name":null,"funder_award_id":"5 x 1000 Funds","funder_id":"https://openalex.org/F4320321781","funder_display_name":"Ministero della Salute"},{"id":"https://openalex.org/G2636645585","display_name":null,"funder_award_id":"\"5 x\u20021000\".","funder_id":"https://openalex.org/F4320321781","funder_display_name":"Ministero della Salute"},{"id":"https://openalex.org/G3796392728","display_name":"Data-Driven Genomic Computing","funder_award_id":"693174","funder_id":"https://openalex.org/F4320338335","funder_display_name":"H2020 European Research Council"}],"funders":[{"id":"https://openalex.org/F4320321781","display_name":"Ministero della Salute","ror":"https://ror.org/00789fa95"},{"id":"https://openalex.org/F4320338335","display_name":"H2020 European Research Council","ror":"https://ror.org/0472cxd90"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3092835166.pdf","grobid_xml":"https://content.openalex.org/works/W3092835166.grobid-xml"},"referenced_works_count":29,"referenced_works":["https://openalex.org/W1759300969","https://openalex.org/W1965917470","https://openalex.org/W1973062929","https://openalex.org/W2007321142","https://openalex.org/W2018363492","https://openalex.org/W2026662234","https://openalex.org/W2044826047","https://openalex.org/W2070422708","https://openalex.org/W2075016035","https://openalex.org/W2076154138","https://openalex.org/W2084160423","https://openalex.org/W2084191969","https://openalex.org/W2113122482","https://openalex.org/W2117131162","https://openalex.org/W2117792884","https://openalex.org/W2132522861","https://openalex.org/W2139549071","https://openalex.org/W2146749911","https://openalex.org/W2152710395","https://openalex.org/W2157750191","https://openalex.org/W2167155938","https://openalex.org/W2172717694","https://openalex.org/W2259938310","https://openalex.org/W2334656801","https://openalex.org/W2396849069","https://openalex.org/W2488737112","https://openalex.org/W2951312314","https://openalex.org/W2952646324","https://openalex.org/W4230875896"],"related_works":["https://openalex.org/W2158272128","https://openalex.org/W2160379721","https://openalex.org/W2009935171","https://openalex.org/W2144311691","https://openalex.org/W2146734921","https://openalex.org/W2057568687","https://openalex.org/W2950016824","https://openalex.org/W2090127207","https://openalex.org/W2989829966","https://openalex.org/W2916929870"],"abstract_inverted_index":{"BACKGROUND:":[0],"Genome":[1,68],"browsers":[2],"are":[3,77,214],"widely":[4],"used":[5],"for":[6,65,100,124,183],"locating":[7],"interesting":[8,103],"genomic":[9,21,39,73],"regions,":[10],"but":[11],"their":[12],"interactive":[13],"use":[14,153,202],"is":[15,26,132,195],"obviously":[16],"limited":[17],"to":[18,27,71,79,155],"inspecting":[19],"short":[20],"portions.":[22],"An":[23],"ideal":[24],"interaction":[25],"provide":[28],"patterns":[29,47,115],"of":[30,113,129,160,171,200,204],"regions":[31,40],"on":[32,105],"the":[33,42,66,94,110,117,125,172],"browser,":[34],"and":[35,60,108,127,131,145,188,192,212,219],"then":[36],"extract":[37],"other":[38],"over":[41],"whole":[43],"genome":[44],"where":[45],"such":[46],"occur,":[48],"ranked":[49],"by":[50,168],"similarity.":[51],"RESULTS:":[52],"We":[53],"developed":[54],"SimSearch,":[55],"an":[56,61,102],"optimized":[57],"pattern-search":[58],"method":[59,179],"open":[62],"source":[63],"plugin":[64,95],"Integrated":[67],"Browser":[69],"(IGB),":[70],"find":[72],"region":[74,82],"sets":[75],"that":[76],"similar":[78,114],"a":[80,135,198],"given":[81],"pattern.":[83],"It":[84],"provides":[85,180],"efficient":[86],"visual":[87],"genome-wide":[88,158,185],"analytics":[89],"computation":[90],"in":[91],"large":[92],"datasets;":[93],"supports":[96],"intuitive":[97],"user":[98],"interactions":[99],"selecting":[101],"pattern":[104,186],"IGB":[106,209],"tracks":[107],"visualizing":[109],"computed":[111],"occurrences":[112],"along":[116],"entire":[118],"genome.":[119],"SimSearch":[120,178,208],"also":[121,150],"includes":[122,151],"functions":[123],"annotation":[126],"enrichment":[128],"results,":[130],"enhanced":[133],"with":[134],"Quickload":[136],"repository":[137],"including":[138],"numerous":[139],"epigenomic":[140],"feature":[141],"datasets":[142],"from":[143],"ENCODE":[144],"Roadmap":[146],"Epigenomics.":[147],"The":[148,176,207],"paper":[149],"some":[152],"cases":[154,203],"show":[156],"multiple":[157],"analyses":[159],"biological":[161,205],"interest,":[162],"which":[163],"can":[164],"be":[165],"easily":[166],"performed":[167],"taking":[169],"advantage":[170],"presented":[173],"approach.":[174],"CONCLUSIONS:":[175],"novel":[177],"innovative":[181],"support":[182],"effective":[184],"search":[187],"visualization;":[189],"its":[190],"relevance":[191],"practical":[193],"usefulness":[194],"demonstrated":[196],"through":[197],"number":[199],"significant":[201],"interest.":[206],"plugin,":[210],"documentation,":[211],"code":[213],"freely":[215],"available":[216],"at":[217],"https://deib-geco.github.io/simsearch-app/":[218],"https://github.com/DEIB-GECO/simsearch-app/":[220],".":[221]},"counts_by_year":[{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
