{"id":"https://openalex.org/W2152269273","doi":"https://doi.org/10.1093/bib/bbs010","title":"Detecting miRNAs in deep-sequencing data: a software performance comparison and evaluation","display_name":"Detecting miRNAs in deep-sequencing data: a software performance comparison and evaluation","publication_year":2012,"publication_date":"2012-03-24","ids":{"openalex":"https://openalex.org/W2152269273","doi":"https://doi.org/10.1093/bib/bbs010","mag":"2152269273","pmid":"https://pubmed.ncbi.nlm.nih.gov/23334922"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbs010","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbs010","pdf_url":"https://academic.oup.com/bib/article-pdf/14/1/36/865463/bbs010.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in 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/bib/article-pdf/14/1/36/865463/bbs010.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048557173","display_name":"Victoria Williamson","orcid":"https://orcid.org/0000-0002-3110-9856"},"institutions":[{"id":"https://openalex.org/I72019824","display_name":"Virginia Commonwealth University Medical Center","ror":"https://ror.org/057xmsr27","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I72019824"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"V. Williamson","raw_affiliation_strings":["Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA. vswilliamson@vcu.edu","division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","Institute of Psychiatric and Behavioral Genetics","Integrative Life Sciences at Virginia Commonwealth University","Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA. vswilliamson@vcu.edu","institution_ids":["https://openalex.org/I72019824"]},{"raw_affiliation_string":"division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Institute of Psychiatric and Behavioral Genetics","institution_ids":[]},{"raw_affiliation_string":"Integrative Life Sciences at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069522183","display_name":"Allen Kim","orcid":"https://orcid.org/0000-0003-1458-9314"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"A. Kim","raw_affiliation_strings":["Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","Integrative Life Sciences at Virginia Commonwealth University","Institute of Psychiatric and Behavioral Genetics"],"affiliations":[{"raw_affiliation_string":"Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","institution_ids":[]},{"raw_affiliation_string":"Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Integrative Life Sciences at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Institute of Psychiatric and Behavioral Genetics","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5045836144","display_name":"Bing Xie","orcid":"https://orcid.org/0000-0003-2335-5966"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"B. Xie","raw_affiliation_strings":["Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","Institute of Psychiatric and Behavioral Genetics","Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","Integrative Life Sciences at Virginia Commonwealth University","division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA"],"affiliations":[{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","institution_ids":[]},{"raw_affiliation_string":"Institute of Psychiatric and Behavioral Genetics","institution_ids":[]},{"raw_affiliation_string":"Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Integrative Life Sciences at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011074817","display_name":"Gowon O. McMichael","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"G. O. McMichael","raw_affiliation_strings":["division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","Integrative Life Sciences at Virginia Commonwealth University","Institute of Psychiatric and Behavioral Genetics","Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA"],"affiliations":[{"raw_affiliation_string":"division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Integrative Life Sciences at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Institute of Psychiatric and Behavioral Genetics","institution_ids":[]},{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","institution_ids":[]},{"raw_affiliation_string":"Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100726293","display_name":"Yue Gao","orcid":"https://orcid.org/0000-0002-9217-5021"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Y. Gao","raw_affiliation_strings":["Integrative Life Sciences at Virginia Commonwealth University","Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","Institute of Psychiatric and Behavioral Genetics","division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA"],"affiliations":[{"raw_affiliation_string":"Integrative Life Sciences at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","institution_ids":[]},{"raw_affiliation_string":"Institute of Psychiatric and Behavioral Genetics","institution_ids":[]},{"raw_affiliation_string":"division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5018927276","display_name":"Vladimir I. Vladimirov","orcid":"https://orcid.org/0000-0002-7375-8950"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"V. Vladimirov","raw_affiliation_strings":["Institute of Psychiatric and Behavioral Genetics","Integrative Life Sciences at Virginia Commonwealth University","Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University"],"affiliations":[{"raw_affiliation_string":"Institute of Psychiatric and Behavioral Genetics","institution_ids":[]},{"raw_affiliation_string":"Integrative Life Sciences at Virginia Commonwealth University","institution_ids":[]},{"raw_affiliation_string":"Department of Psychiatry, Virginia Institute for Psychiatric and Behavioral Genetics, Medical College of Virginia of Virginia Commonwealth University, Richmond, VA, USA","institution_ids":[]},{"raw_affiliation_string":"Division of Genomics, Epigenomics, and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"division of Genomics, Epigenomics and Bioinformatics, Lieber Institute for Brain Development, Baltimore, Maryland, USA","institution_ids":[]},{"raw_affiliation_string":"Institute for Psychiatric and Behavioral Genetics and School of Pharmacy at Virginia Commonwealth University","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5048557173"],"corresponding_institution_ids":["https://openalex.org/I72019824"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":2.0429,"has_fulltext":true,"cited_by_count":42,"citation_normalized_percentile":{"value":0.86718063,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"14","issue":"1","first_page":"36","last_page":"45"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9991000294685364,"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":0.998199999332428,"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/computer-science","display_name":"Computer science","score":0.686371922492981},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.623261570930481},{"id":"https://openalex.org/keywords/intersection","display_name":"Intersection (aeronautics)","score":0.5765720009803772},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5616949796676636},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5158397555351257},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5064009428024292},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.4995462894439697},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4223170876502991},{"id":"https://openalex.org/keywords/popularity","display_name":"Popularity","score":0.4125160574913025},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.38284942507743835},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3772207200527191},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3748132884502411},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20500275492668152},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.190145343542099},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12295025587081909},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08907130360603333},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.08900946378707886},{"id":"https://openalex.org/keywords/cartography","display_name":"Cartography","score":0.07760852575302124}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.686371922492981},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.623261570930481},{"id":"https://openalex.org/C64543145","wikidata":"https://www.wikidata.org/wiki/Q162942","display_name":"Intersection (aeronautics)","level":2,"score":0.5765720009803772},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5616949796676636},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5158397555351257},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5064009428024292},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.4995462894439697},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4223170876502991},{"id":"https://openalex.org/C2780586970","wikidata":"https://www.wikidata.org/wiki/Q1357284","display_name":"Popularity","level":2,"score":0.4125160574913025},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38284942507743835},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3772207200527191},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3748132884502411},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20500275492668152},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.190145343542099},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12295025587081909},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08907130360603333},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.08900946378707886},{"id":"https://openalex.org/C58640448","wikidata":"https://www.wikidata.org/wiki/Q42515","display_name":"Cartography","level":1,"score":0.07760852575302124},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"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/C77805123","wikidata":"https://www.wikidata.org/wiki/Q161272","display_name":"Social psychology","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","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":"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":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":false},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":"Q000706","qualifier_name":"statistics & numerical data","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D045744","descriptor_name":"Cell Line, Tumor","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbs010","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbs010","pdf_url":"https://academic.oup.com/bib/article-pdf/14/1/36/865463/bbs010.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23334922","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23334922","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:2977040","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3999373","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbs010","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbs010","pdf_url":"https://academic.oup.com/bib/article-pdf/14/1/36/865463/bbs010.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2152269273.pdf","grobid_xml":"https://content.openalex.org/works/W2152269273.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1566143144","https://openalex.org/W1966077133","https://openalex.org/W1983406336","https://openalex.org/W1996423252","https://openalex.org/W1997939863","https://openalex.org/W2021137575","https://openalex.org/W2021724278","https://openalex.org/W2039808236","https://openalex.org/W2047526957","https://openalex.org/W2070571588","https://openalex.org/W2078899492","https://openalex.org/W2089404958","https://openalex.org/W2090798677","https://openalex.org/W2091798624","https://openalex.org/W2099333915","https://openalex.org/W2100555999","https://openalex.org/W2111858824","https://openalex.org/W2112810020","https://openalex.org/W2114973325","https://openalex.org/W2116147330","https://openalex.org/W2124268899","https://openalex.org/W2124709953","https://openalex.org/W2124985265","https://openalex.org/W2128674168","https://openalex.org/W2130305733","https://openalex.org/W2147495091","https://openalex.org/W2147835141","https://openalex.org/W2149137286","https://openalex.org/W2151911276","https://openalex.org/W2152327613","https://openalex.org/W2153898988","https://openalex.org/W2157770058","https://openalex.org/W2158148192","https://openalex.org/W2159752245","https://openalex.org/W2161149887","https://openalex.org/W2166938936"],"related_works":["https://openalex.org/W2133515697","https://openalex.org/W2074464258","https://openalex.org/W3043668926","https://openalex.org/W2430868443","https://openalex.org/W1501281512","https://openalex.org/W2472004504","https://openalex.org/W4200427936","https://openalex.org/W3209231359","https://openalex.org/W4285018218","https://openalex.org/W4210588921"],"abstract_inverted_index":{"Deep":[0],"sequencing":[1],"has":[2],"become":[3],"a":[4,50,91,122],"popular":[5],"tool":[6],"for":[7,148,181],"novel":[8,72,97,146,175,195],"miRNA":[9],"detection":[10,70],"but":[11],"its":[12],"data":[13,41,200],"must":[14],"be":[15,121,170,179],"viewed":[16],"carefully":[17],"as":[18],"the":[19,22,54,69,101,110,125,130,133,142],"state":[20],"of":[21,53,71,94,106,113,115,124,144,193,205],"field":[23],"is":[24],"still":[25],"undeveloped.":[26],"Using":[27,184],"three":[28],"different":[29],"programs,":[30],"miRDeep":[31,107],"(v1,":[32],"2),":[33],"miRanalyzer":[34],"and":[35,45,65,73,96,103,156,189],"DSAP,":[36],"we":[37,162,187],"have":[38,207],"analyzed":[39],"seven":[40],"sets":[42],"(six":[43],"biological":[44],"one":[46],"simulated)":[47],"to":[48,128,132,140],"provide":[49],"critical":[51],"evaluation":[52],"programs":[55,117,169],"performance.":[56],"We":[57],"selected":[58],"these":[59,116],"software":[60],"based":[61],"on":[62,154],"their":[63],"popularity":[64],"overall":[66],"approach":[67],"toward":[68],"known":[74,95],"miRNAs":[75],"using":[76],"deep-sequencing":[77],"data.":[78],"The":[79],"program":[80],"comparisons":[81],"suggest":[82,108],"that,":[83],"despite":[84],"differing":[85],"stringency":[86,111,136],"levels":[87,137],"they":[88],"all":[89],"identify":[90,188],"similar":[92],"set":[93],"predictions.":[98],"Comparisons":[99],"between":[100],"first":[102],"second":[104],"version":[105],"that":[109,159,164,177],"level":[112],"each":[114],"may,":[118],"in":[119,160,197],"fact,":[120],"result":[123],"algorithm":[126],"used":[127],"map":[129],"reads":[131],"target.":[134],"Different":[135],"are":[138],"likely":[139],"affect":[141],"number":[143],"possible":[145],"candidates":[147,176],"functional":[149],"verification,":[150],"causing":[151],"undue":[152],"strain":[153],"resources":[155],"time.":[157],"With":[158],"mind,":[161],"propose":[163],"an":[165],"intersection":[166],"across":[167],"multiple":[168],"taken,":[171],"especially":[172],"if":[173],"considering":[174],"will":[178],"targeted":[180],"additional":[182],"analysis.":[183],"this":[185],"approach,":[186],"performed":[190],"initial":[191],"validation":[192],"12":[194],"predictions":[196],"our":[198],"in-house":[199],"with":[201],"real-time":[202],"PCR,":[203],"six":[204],"which":[206],"been":[208],"previously":[209],"unreported.":[210]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":4},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":3}],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}