{"id":"https://openalex.org/W2129227845","doi":"https://doi.org/10.1093/bioinformatics/btu547","title":"mod_bio: Apache modules for Next-Generation sequencing data","display_name":"mod_bio: Apache modules for Next-Generation sequencing data","publication_year":2014,"publication_date":"2014-09-04","ids":{"openalex":"https://openalex.org/W2129227845","doi":"https://doi.org/10.1093/bioinformatics/btu547","mag":"2129227845","pmid":"https://pubmed.ncbi.nlm.nih.gov/25192739"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu547","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu547","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/1/112/49011531/bioinformatics_31_1_112.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/31/1/112/49011531/bioinformatics_31_1_112.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5014793652","display_name":"Pierre Lindenbaum","orcid":"https://orcid.org/0000-0003-0148-9787"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I3019204325","display_name":"Centre Hospitalier Universitaire de Nantes","ror":"https://ror.org/05c1qsg97","country_code":"FR","type":"healthcare","lineage":["https://openalex.org/I3019204325"]},{"id":"https://openalex.org/I4210144168","display_name":"Institut du Thorax","ror":"https://ror.org/049kkt456","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210096427","https://openalex.org/I4210144168","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Pierre Lindenbaum","raw_affiliation_strings":["1 Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale (INSERM) Unit\u00e9 Mixte de Recherche (UMR) 1087, L\u2019Institut du Thorax, 2 Centre National de la Recherche Scientifique (CNRS) UMR 6291, 3 Centre Hospitalier Universitaire (CHU) de Nantes, L\u2019Institut du Thorax, Service de Cardiologie, 44000 Nantes and 4 Universit\u00e9 de Nantes, 44000 Nantes, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale (INSERM) Unit\u00e9 Mixte de Recherche (UMR) 1087, L\u2019Institut du Thorax, 2 Centre National de la Recherche Scientifique (CNRS) UMR 6291, 3 Centre Hospitalier Universitaire (CHU) de Nantes, L\u2019Institut du Thorax, Service de Cardiologie, 44000 Nantes and 4 Universit\u00e9 de Nantes, 44000 Nantes, France","institution_ids":["https://openalex.org/I4210144168","https://openalex.org/I154526488","https://openalex.org/I3019204325","https://openalex.org/I97188460","https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5041253450","display_name":"Richard Redon","orcid":"https://orcid.org/0000-0001-7751-2280"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I154526488","display_name":"Inserm","ror":"https://ror.org/02vjkv261","country_code":"FR","type":"government","lineage":["https://openalex.org/I154526488"]},{"id":"https://openalex.org/I3019204325","display_name":"Centre Hospitalier Universitaire de Nantes","ror":"https://ror.org/05c1qsg97","country_code":"FR","type":"healthcare","lineage":["https://openalex.org/I3019204325"]},{"id":"https://openalex.org/I4210144168","display_name":"Institut du Thorax","ror":"https://ror.org/049kkt456","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I4210096427","https://openalex.org/I4210144168","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Richard Redon","raw_affiliation_strings":["1 Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale (INSERM) Unit\u00e9 Mixte de Recherche (UMR) 1087, L\u2019Institut du Thorax, 2 Centre National de la Recherche Scientifique (CNRS) UMR 6291, 3 Centre Hospitalier Universitaire (CHU) de Nantes, L\u2019Institut du Thorax, Service de Cardiologie, 44000 Nantes and 4 Universit\u00e9 de Nantes, 44000 Nantes, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale (INSERM) Unit\u00e9 Mixte de Recherche (UMR) 1087, L\u2019Institut du Thorax, 2 Centre National de la Recherche Scientifique (CNRS) UMR 6291, 3 Centre Hospitalier Universitaire (CHU) de Nantes, L\u2019Institut du Thorax, Service de Cardiologie, 44000 Nantes and 4 Universit\u00e9 de Nantes, 44000 Nantes, France","institution_ids":["https://openalex.org/I4210144168","https://openalex.org/I154526488","https://openalex.org/I3019204325","https://openalex.org/I97188460","https://openalex.org/I1294671590"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5014793652"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I154526488","https://openalex.org/I3019204325","https://openalex.org/I4210144168","https://openalex.org/I97188460"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.1396,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.54590055,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"31","issue":"1","first_page":"112","last_page":"113"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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":0.9997000098228455,"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":0.9833999872207642,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9674999713897705,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/json","display_name":"JSON","score":0.9944137930870056},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7531468868255615},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.7504072189331055},{"id":"https://openalex.org/keywords/javascript","display_name":"JavaScript","score":0.6759628653526306},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.451396644115448},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.4431113600730896},{"id":"https://openalex.org/keywords/web-service","display_name":"Web service","score":0.42426639795303345},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.38165247440338135}],"concepts":[{"id":"https://openalex.org/C2780416260","wikidata":"https://www.wikidata.org/wiki/Q2063","display_name":"JSON","level":2,"score":0.9944137930870056},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7531468868255615},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.7504072189331055},{"id":"https://openalex.org/C544833334","wikidata":"https://www.wikidata.org/wiki/Q2005","display_name":"JavaScript","level":2,"score":0.6759628653526306},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.451396644115448},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.4431113600730896},{"id":"https://openalex.org/C35578498","wikidata":"https://www.wikidata.org/wiki/Q193424","display_name":"Web service","level":2,"score":0.42426639795303345},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.38165247440338135}],"mesh":[{"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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","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":false},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","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":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btu547","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu547","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/1/112/49011531/bioinformatics_31_1_112.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:25192739","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25192739","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:HAL:hal-01830972v1","is_oa":false,"landing_page_url":"https://hal.science/hal-01830972","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2015, Equipe 4, 31 (1), pp.112--113. &#x27E8;10.1093/bioinformatics/btu547&#x27E9;","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu547","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu547","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/1/112/49011531/bioinformatics_31_1_112.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":[{"id":"https://openalex.org/F4320320893","display_name":"Institut National de la Sant\u00e9 et de la Recherche M\u00e9dicale","ror":"https://ror.org/02vjkv261"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2129227845.pdf","grobid_xml":"https://content.openalex.org/works/W2129227845.grobid-xml"},"referenced_works_count":8,"referenced_works":["https://openalex.org/W2021341670","https://openalex.org/W2105114815","https://openalex.org/W2108234281","https://openalex.org/W2117608012","https://openalex.org/W2129785061","https://openalex.org/W2135216100","https://openalex.org/W2142386149","https://openalex.org/W2154519319"],"related_works":["https://openalex.org/W4250821095","https://openalex.org/W4301217393","https://openalex.org/W2267058868","https://openalex.org/W2922064259","https://openalex.org/W2742949799","https://openalex.org/W2799210984","https://openalex.org/W2577820972","https://openalex.org/W2380368790","https://openalex.org/W2367643486","https://openalex.org/W1795059188"],"abstract_inverted_index":{"SUMMARY:":[0],"We":[1],"describe":[2],"mod_bio,":[3],"a":[4,28],"set":[5],"of":[6,58],"modules":[7],"for":[8],"the":[9,15,49],"Apache":[10],"HTTP":[11],"server":[12],"that":[13],"allows":[14],"users":[16],"to":[17],"access":[18],"and":[19,24,42],"query":[20],"fastq,":[21],"tabix,":[22],"fasta":[23],"bam":[25],"files":[26],"through":[27],"Web":[29,60],"browser.":[30],"Those":[31],"data":[32],"are":[33],"made":[34],"available":[35],"in":[36],"plain":[37],"text,":[38],"HTML,":[39],"XML,":[40],"JSON":[41],"JSON-P.":[43],"A":[44],"javascript-based":[45],"genome":[46],"browser":[47],"using":[48],"JSON-P":[50],"communication":[51],"technique":[52],"is":[53],"provided":[54],"as":[55],"an":[56],"example":[57],"cross-domain":[59],"service.":[61],"AVAILABILITY":[62],"AND":[63],"IMPLEMENTATION:":[64],"https://github.com/lindenb/mod_bio.":[65]},"counts_by_year":[{"year":2016,"cited_by_count":1}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
