{"id":"https://openalex.org/W2100540997","doi":"https://doi.org/10.1093/bioinformatics/btt434","title":"Indel and Carryforward Correction (ICC): a new analysis approach for processing 454 pyrosequencing data","display_name":"Indel and Carryforward Correction (ICC): a new analysis approach for processing 454 pyrosequencing data","publication_year":2013,"publication_date":"2013-07-29","ids":{"openalex":"https://openalex.org/W2100540997","doi":"https://doi.org/10.1093/bioinformatics/btt434","mag":"2100540997","pmid":"https://pubmed.ncbi.nlm.nih.gov/23900188"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt434","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt434","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/19/2402/48890726/bioinformatics_29_19_2402.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/29/19/2402/48890726/bioinformatics_29_19_2402.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5080050900","display_name":"Wenjie Deng","orcid":"https://orcid.org/0000-0002-7846-1101"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Wenjie Deng","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008460111","display_name":"Brandon S. Maust","orcid":"https://orcid.org/0000-0002-3174-9036"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brandon S. Maust","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027645496","display_name":"Dylan H. Westfall","orcid":"https://orcid.org/0000-0002-2434-8525"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dylan H. Westfall","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005750546","display_name":"Lennie Chen","orcid":null},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lennie Chen","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109100878","display_name":"Hong Zhao","orcid":null},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hong Zhao","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076145110","display_name":"Brendan B. Larsen","orcid":"https://orcid.org/0000-0003-3136-2218"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brendan B. Larsen","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108250613","display_name":"Shyamala Iyer","orcid":null},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shyamala Iyer","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100330475","display_name":"Yi Liu","orcid":"https://orcid.org/0000-0001-9748-0650"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yi Liu","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028336562","display_name":"James I. Mullins","orcid":"https://orcid.org/0000-0002-4461-8158"},"institutions":[{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James I. Mullins","raw_affiliation_strings":["Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA"],"affiliations":[{"raw_affiliation_string":"Department of Microbiology, University of Washington School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]},{"raw_affiliation_string":"Department of Microbiology, University of Washington, School of Medicine, Seattle, WA 98195, USA","institution_ids":["https://openalex.org/I201448701"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5080050900"],"corresponding_institution_ids":["https://openalex.org/I201448701"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.3476,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.80602274,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"29","issue":"19","first_page":"2402","last_page":"2409"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"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":0.9983000159263611,"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/T12640","display_name":"Environmental DNA in Biodiversity Studies","score":0.9912999868392944,"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/indel","display_name":"Indel","score":0.9676140546798706},{"id":"https://openalex.org/keywords/pyrosequencing","display_name":"Pyrosequencing","score":0.8078885078430176},{"id":"https://openalex.org/keywords/perl","display_name":"Perl","score":0.6181381940841675},{"id":"https://openalex.org/keywords/indel-mutation","display_name":"INDEL Mutation","score":0.5869030356407166},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5405032634735107},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5099769830703735},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.45419034361839294},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4362587034702301},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.43593859672546387},{"id":"https://openalex.org/keywords/error-detection-and-correction","display_name":"Error detection and correction","score":0.4304293096065521},{"id":"https://openalex.org/keywords/sequence-analysis","display_name":"Sequence analysis","score":0.41680824756622314},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.4156850576400757},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.41523271799087524},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4088621139526367},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.28770801424980164},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1874999701976776},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11370024085044861},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphism","display_name":"Single-nucleotide polymorphism","score":0.08974406123161316},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.07677921652793884},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.07624343037605286}],"concepts":[{"id":"https://openalex.org/C119054055","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"Indel","level":5,"score":0.9676140546798706},{"id":"https://openalex.org/C125009961","wikidata":"https://www.wikidata.org/wiki/Q2342248","display_name":"Pyrosequencing","level":3,"score":0.8078885078430176},{"id":"https://openalex.org/C2777002779","wikidata":"https://www.wikidata.org/wiki/Q42478","display_name":"Perl","level":2,"score":0.6181381940841675},{"id":"https://openalex.org/C2910714999","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"INDEL Mutation","level":5,"score":0.5869030356407166},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5405032634735107},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5099769830703735},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.45419034361839294},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4362587034702301},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.43593859672546387},{"id":"https://openalex.org/C103088060","wikidata":"https://www.wikidata.org/wiki/Q1062839","display_name":"Error detection and correction","level":2,"score":0.4304293096065521},{"id":"https://openalex.org/C61053724","wikidata":"https://www.wikidata.org/wiki/Q1154615","display_name":"Sequence analysis","level":3,"score":0.41680824756622314},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.4156850576400757},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.41523271799087524},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4088621139526367},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.28770801424980164},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1874999701976776},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11370024085044861},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.08974406123161316},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.07677921652793884},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.07624343037605286},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","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":"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":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009154","descriptor_name":"Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D015658","descriptor_name":"HIV Infections","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016000","descriptor_name":"Cluster Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016133","descriptor_name":"Polymerase Chain Reaction","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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btt434","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt434","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/19/2402/48890726/bioinformatics_29_19_2402.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:23900188","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23900188","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:3147571","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3777116","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/btt434","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt434","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/19/2402/48890726/bioinformatics_29_19_2402.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":[{"score":0.4399999976158142,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1862612800","display_name":null,"funder_award_id":"AI068618","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2764554295","display_name":null,"funder_award_id":"AI027757","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4100892359","display_name":null,"funder_award_id":"UM1AI0686","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4187660828","display_name":null,"funder_award_id":"AI068618","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G4357216464","display_name":null,"funder_award_id":"UM1AI068618","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4435713124","display_name":null,"funder_award_id":"AI027757","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G4834314734","display_name":null,"funder_award_id":"UM1AI068618","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G5757760130","display_name":null,"funder_award_id":"UM1AI06861","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6672446360","display_name":null,"funder_award_id":"P30AI027757","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G7791962275","display_name":null,"funder_award_id":"AI027757","funder_id":"https://openalex.org/F4320310094","funder_display_name":"University of Washington"},{"id":"https://openalex.org/G849236274","display_name":null,"funder_award_id":"P30AI027757","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320310094","display_name":"University of Washington","ror":"https://ror.org/00cvxb145"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2100540997.pdf","grobid_xml":"https://content.openalex.org/works/W2100540997.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W938539187","https://openalex.org/W1966063036","https://openalex.org/W1980355960","https://openalex.org/W1990061958","https://openalex.org/W1990608424","https://openalex.org/W1991486768","https://openalex.org/W2000072710","https://openalex.org/W2001328903","https://openalex.org/W2008972159","https://openalex.org/W2012069101","https://openalex.org/W2036950823","https://openalex.org/W2037612360","https://openalex.org/W2038852567","https://openalex.org/W2055043387","https://openalex.org/W2060582828","https://openalex.org/W2074231493","https://openalex.org/W2084791457","https://openalex.org/W2089289885","https://openalex.org/W2098439468","https://openalex.org/W2099797874","https://openalex.org/W2103517671","https://openalex.org/W2105012250","https://openalex.org/W2106308757","https://openalex.org/W2111283804","https://openalex.org/W2115171147","https://openalex.org/W2116614415","https://openalex.org/W2128114769","https://openalex.org/W2130077037","https://openalex.org/W2134007392","https://openalex.org/W2148686896","https://openalex.org/W2150776758","https://openalex.org/W2150914285","https://openalex.org/W2158644281","https://openalex.org/W2160665949","https://openalex.org/W2163314170","https://openalex.org/W2163326395","https://openalex.org/W2163579485","https://openalex.org/W2164762627","https://openalex.org/W2165308292","https://openalex.org/W2170765088"],"related_works":["https://openalex.org/W2135846417","https://openalex.org/W2010589665","https://openalex.org/W2048248032","https://openalex.org/W2119240954","https://openalex.org/W1998120162","https://openalex.org/W2810280786","https://openalex.org/W2100540997","https://openalex.org/W1984359833","https://openalex.org/W2090983756","https://openalex.org/W2078104861"],"abstract_inverted_index":{"Source":[0],"code":[1],"is":[2,10],"freely":[3],"available":[4],"for":[5],"download":[6],"at":[7],"http://indra.mullins.microbiol.washington.edu/ICC.":[8],"It":[9],"implemented":[11],"in":[12],"Perl":[13],"and":[14,21],"supported":[15],"on":[16],"Linux,":[17],"Mac":[18],"OS":[19],"X":[20],"MS":[22],"Windows.":[23]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":3},{"year":2013,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
