{"id":"https://openalex.org/W2131271579","doi":"https://doi.org/10.1093/bioinformatics/btu170","title":"Trimmomatic: a flexible trimmer for Illumina sequence data","display_name":"Trimmomatic: a flexible trimmer for Illumina sequence data","publication_year":2014,"publication_date":"2014-04-01","ids":{"openalex":"https://openalex.org/W2131271579","doi":"https://doi.org/10.1093/bioinformatics/btu170","mag":"2131271579","pmid":"https://pubmed.ncbi.nlm.nih.gov/24695404"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu170","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu170","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/15/2114/48924714/bioinformatics_30_15_2114.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":"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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/15/2114/48924714/bioinformatics_30_15_2114.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5027039912","display_name":"Anthony Bolger","orcid":null},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]},{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]},{"id":"https://openalex.org/I4210105972","display_name":"Max Planck Institute of Molecular Plant Physiology","ror":"https://ror.org/01fbde567","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210105972"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Anthony M. Bolger","raw_affiliation_strings":["1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"],"affiliations":[{"raw_affiliation_string":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany","institution_ids":["https://openalex.org/I4210105972","https://openalex.org/I171892758","https://openalex.org/I887968799"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068353394","display_name":"Marc Lohse","orcid":"https://orcid.org/0009-0005-7498-7279"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]},{"id":"https://openalex.org/I4210105972","display_name":"Max Planck Institute of Molecular Plant Physiology","ror":"https://ror.org/01fbde567","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210105972"]},{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Marc Lohse","raw_affiliation_strings":["1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"],"affiliations":[{"raw_affiliation_string":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany","institution_ids":["https://openalex.org/I4210105972","https://openalex.org/I171892758","https://openalex.org/I887968799"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011858960","display_name":"Bj\u00f6rn Usadel","orcid":"https://orcid.org/0000-0003-0921-8041"},"institutions":[{"id":"https://openalex.org/I887968799","display_name":"RWTH Aachen University","ror":"https://ror.org/04xfq0f34","country_code":"DE","type":"education","lineage":["https://openalex.org/I887968799"]},{"id":"https://openalex.org/I4210105972","display_name":"Max Planck Institute of Molecular Plant Physiology","ror":"https://ror.org/01fbde567","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210105972"]},{"id":"https://openalex.org/I171892758","display_name":"Forschungszentrum J\u00fclich","ror":"https://ror.org/02nv7yv05","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I171892758"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Bjoern Usadel","raw_affiliation_strings":["1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany"],"affiliations":[{"raw_affiliation_string":"1 Department Metabolic Networks, Max Planck Institute of Molecular Plant Physiology, Am M\u00fchlenberg 1, 14476 Golm, 2 Institut f\u00fcr Biologie I, RWTH Aachen, Worringer Weg 3, 52074 Aachen and 3 Institute of Bio- and Geosciences: Plant Sciences, Forschungszentrum J\u00fclich, Leo-Brandt-Stra\u00dfe, 52425 J\u00fclich, Germany","institution_ids":["https://openalex.org/I4210105972","https://openalex.org/I171892758","https://openalex.org/I887968799"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5027039912"],"corresponding_institution_ids":["https://openalex.org/I171892758","https://openalex.org/I4210105972","https://openalex.org/I887968799"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":644.7459,"has_fulltext":true,"cited_by_count":68346,"citation_normalized_percentile":{"value":0.99999521,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"30","issue":"15","first_page":"2114","last_page":"2120"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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":0.9696999788284302,"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"}},{"id":"https://openalex.org/T11970","display_name":"Molecular Biology Techniques and Applications","score":0.9562000036239624,"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/preprocessor","display_name":"Preprocessor","score":0.821911633014679},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.778835654258728},{"id":"https://openalex.org/keywords/flexibility","display_name":"Flexibility (engineering)","score":0.7083804607391357},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.5930689573287964},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5405773520469666},{"id":"https://openalex.org/keywords/data-pre-processing","display_name":"Data pre-processing","score":0.5300414562225342},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.44586268067359924},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3283514976501465},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.22207921743392944},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.05652138590812683}],"concepts":[{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.821911633014679},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.778835654258728},{"id":"https://openalex.org/C2780598303","wikidata":"https://www.wikidata.org/wiki/Q65921492","display_name":"Flexibility (engineering)","level":2,"score":0.7083804607391357},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.5930689573287964},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5405773520469666},{"id":"https://openalex.org/C10551718","wikidata":"https://www.wikidata.org/wiki/Q5227332","display_name":"Data pre-processing","level":2,"score":0.5300414562225342},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.44586268067359924},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3283514976501465},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.22207921743392944},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.05652138590812683},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0}],"mesh":[{"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":"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},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btu170","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu170","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/15/2114/48924714/bioinformatics_30_15_2114.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":"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:24695404","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24695404","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:3072527","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4103590","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu170","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu170","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/15/2114/48924714/bioinformatics_30_15_2114.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":"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":[],"funders":[{"id":"https://openalex.org/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"},{"id":"https://openalex.org/F4320331007","display_name":"Bundesministerium f\u00fcr Verbraucherschutz, Ern\u00e4hrung und Landwirtschaft","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2131271579.pdf","grobid_xml":"https://content.openalex.org/works/W2131271579.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W2036897871","https://openalex.org/W2093931624","https://openalex.org/W2094100452","https://openalex.org/W2103441770","https://openalex.org/W2103903744","https://openalex.org/W2139437267","https://openalex.org/W2157701114","https://openalex.org/W2158395749","https://openalex.org/W2160969485","https://openalex.org/W2170551349"],"related_works":["https://openalex.org/W2989490741","https://openalex.org/W138569904","https://openalex.org/W2367545121","https://openalex.org/W4248881655","https://openalex.org/W2482165163","https://openalex.org/W3092506759","https://openalex.org/W3010890513","https://openalex.org/W2390914021","https://openalex.org/W2389417819","https://openalex.org/W3195278891"],"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":2297},{"year":2025,"cited_by_count":8676},{"year":2024,"cited_by_count":10567},{"year":2023,"cited_by_count":8826},{"year":2022,"cited_by_count":8955},{"year":2021,"cited_by_count":9082},{"year":2020,"cited_by_count":6995},{"year":2019,"cited_by_count":4966},{"year":2018,"cited_by_count":3394},{"year":2017,"cited_by_count":2401},{"year":2016,"cited_by_count":1402},{"year":2015,"cited_by_count":609},{"year":2014,"cited_by_count":105},{"year":2013,"cited_by_count":4},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-18T07:56:08.524223","created_date":"2025-10-10T00:00:00"}
