{"id":"https://openalex.org/W2014208702","doi":"https://doi.org/10.1186/1471-2105-10-328","title":"miRExpress: Analyzing high-throughput sequencing data for profiling microRNA expression","display_name":"miRExpress: Analyzing high-throughput sequencing data for profiling microRNA expression","publication_year":2009,"publication_date":"2009-10-12","ids":{"openalex":"https://openalex.org/W2014208702","doi":"https://doi.org/10.1186/1471-2105-10-328","mag":"2014208702","pmid":"https://pubmed.ncbi.nlm.nih.gov/19821977"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-10-328","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-328","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-328","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-328","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5113135636","display_name":"Wei Wang","orcid":"https://orcid.org/0000-0002-4958-7856"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Wei-Chi Wang","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China. canser.bi95g@nctu.edu.tw","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China. canser.bi95g@nctu.edu.tw","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113511264","display_name":"Feng-Mao Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Feng-Mao Lin","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030196668","display_name":"Wen\u2010Chi Chang","orcid":"https://orcid.org/0000-0002-0347-1516"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I91807558","display_name":"National Cheng Kung University","ror":"https://ror.org/01b8kcc49","country_code":"TW","type":"education","lineage":["https://openalex.org/I91807558"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Wen-Chi Chang","raw_affiliation_strings":["Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China","Institute of Tropical Plant Science, National Cheng Kung University, Tainan, 701, Taiwan, Republic of China","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China","Institute of Tropical Plant Science, National Cheng Kung University, Tainan, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Tropical Plant Science, National Cheng Kung University, Tainan, 701, Taiwan, Republic of China","institution_ids":["https://openalex.org/I91807558"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Tropical Plant Science, National Cheng Kung University, Tainan, Republic of China","institution_ids":["https://openalex.org/I91807558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111772773","display_name":"Kuan Yu Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093852","display_name":"Institute of Plant and Microbial Biology, Academia Sinica","ror":"https://ror.org/00jj3h083","country_code":"TW","type":"facility","lineage":["https://openalex.org/I4210093852","https://openalex.org/I84653119"]},{"id":"https://openalex.org/I91807558","display_name":"National Cheng Kung University","ror":"https://ror.org/01b8kcc49","country_code":"TW","type":"education","lineage":["https://openalex.org/I91807558"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Kuan-Yu Lin","raw_affiliation_strings":["Institute of Biotechnology, National Cheng Kung University, Tainan 701, Taiwan, Republic of China","Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, 11529, Taiwan, Republic of China","Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, Republic of China","Institute of Biotechnology, National Cheng Kung University, Taiwan, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology, National Cheng Kung University, Tainan 701, Taiwan, Republic of China","institution_ids":["https://openalex.org/I91807558"]},{"raw_affiliation_string":"Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, 11529, Taiwan, Republic of China","institution_ids":["https://openalex.org/I4210093852"]},{"raw_affiliation_string":"Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, Republic of China","institution_ids":[]},{"raw_affiliation_string":"Institute of Biotechnology, National Cheng Kung University, Taiwan, Republic of China","institution_ids":["https://openalex.org/I91807558"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5111820971","display_name":"Hsien-Da Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Hsien-Da Huang","raw_affiliation_strings":["Department of Biological Science and Technology, National Chiao Tung University, Hsin-Chu, 300, Taiwan, Republic of China","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China","Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Science and Technology, National Chiao Tung University, Hsin-Chu, 300, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Taiwan, Republic of China","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5110021993","display_name":"Na Sheng Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I4210093852","display_name":"Institute of Plant and Microbial Biology, Academia Sinica","ror":"https://ror.org/00jj3h083","country_code":"TW","type":"facility","lineage":["https://openalex.org/I4210093852","https://openalex.org/I84653119"]},{"id":"https://openalex.org/I91807558","display_name":"National Cheng Kung University","ror":"https://ror.org/01b8kcc49","country_code":"TW","type":"education","lineage":["https://openalex.org/I91807558"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Na-Sheng Lin","raw_affiliation_strings":["Institute of Biotechnology, National Cheng Kung University, Tainan 701, Taiwan, Republic of China","Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, 11529, Taiwan, Republic of China","Institute of Biotechnology, National Cheng Kung University, Taiwan, Republic of China","Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, Republic of China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology, National Cheng Kung University, Tainan 701, Taiwan, Republic of China","institution_ids":["https://openalex.org/I91807558"]},{"raw_affiliation_string":"Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, 11529, Taiwan, Republic of China","institution_ids":["https://openalex.org/I4210093852"]},{"raw_affiliation_string":"Institute of Biotechnology, National Cheng Kung University, Taiwan, Republic of China","institution_ids":["https://openalex.org/I91807558"]},{"raw_affiliation_string":"Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei, Republic of China","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5110021993","https://openalex.org/A5111820971"],"corresponding_institution_ids":["https://openalex.org/I148366613","https://openalex.org/I4210093852","https://openalex.org/I91807558"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":5.1004,"has_fulltext":true,"cited_by_count":188,"citation_normalized_percentile":{"value":0.95582223,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"10","issue":"1","first_page":"328","last_page":"328"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.876800000667572,"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":0.876800000667572,"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/T10184","display_name":"Plant Molecular Biology Research","score":0.05939999967813492,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11765","display_name":"Circular RNAs in diseases","score":0.005499999970197678,"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/microrna","display_name":"microRNA","score":0.6840445399284363},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.6212406754493713},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6209630966186523},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.596153974533081},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5554677248001099},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.5387102365493774},{"id":"https://openalex.org/keywords/gene-expression-profiling","display_name":"Gene expression profiling","score":0.49964022636413574},{"id":"https://openalex.org/keywords/small-rna","display_name":"Small RNA","score":0.4638993740081787},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.35429978370666504},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.31770074367523193},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.3096557557582855},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.295066237449646}],"concepts":[{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.6840445399284363},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.6212406754493713},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6209630966186523},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.596153974533081},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5554677248001099},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.5387102365493774},{"id":"https://openalex.org/C18431079","wikidata":"https://www.wikidata.org/wiki/Q1502169","display_name":"Gene expression profiling","level":4,"score":0.49964022636413574},{"id":"https://openalex.org/C2779341050","wikidata":"https://www.wikidata.org/wiki/Q24287527","display_name":"Small RNA","level":4,"score":0.4638993740081787},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.35429978370666504},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.31770074367523193},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.3096557557582855},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.295066237449646}],"mesh":[{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","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":"D015894","descriptor_name":"Genome, Human","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":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"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":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018745","descriptor_name":"Genome, Plant","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-10-328","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-328","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-328","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:19821977","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19821977","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:cb1795aa4bf3465db26273fad6bd7606","is_oa":true,"landing_page_url":"https://doaj.org/article/cb1795aa4bf3465db26273fad6bd7606","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 10, Iss 1, p 328 (2009)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2767369","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2767369","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-10-328","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-10-328","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-10-328","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2014208702.pdf","grobid_xml":"https://content.openalex.org/works/W2014208702.grobid-xml"},"referenced_works_count":35,"referenced_works":["https://openalex.org/W1551232230","https://openalex.org/W1648301895","https://openalex.org/W1963691340","https://openalex.org/W1963945323","https://openalex.org/W1964932049","https://openalex.org/W1997413633","https://openalex.org/W1998678099","https://openalex.org/W2004791359","https://openalex.org/W2011417416","https://openalex.org/W2028423947","https://openalex.org/W2050708456","https://openalex.org/W2070392475","https://openalex.org/W2070571588","https://openalex.org/W2072193858","https://openalex.org/W2083271655","https://openalex.org/W2097862362","https://openalex.org/W2099660828","https://openalex.org/W2112113834","https://openalex.org/W2116672276","https://openalex.org/W2116743779","https://openalex.org/W2117391818","https://openalex.org/W2124709953","https://openalex.org/W2127640118","https://openalex.org/W2128114769","https://openalex.org/W2136145671","https://openalex.org/W2139760555","https://openalex.org/W2141157874","https://openalex.org/W2142214917","https://openalex.org/W2143124024","https://openalex.org/W2146379626","https://openalex.org/W2147110592","https://openalex.org/W2153873185","https://openalex.org/W2158714788","https://openalex.org/W2159806560","https://openalex.org/W2916408032"],"related_works":["https://openalex.org/W2069695727","https://openalex.org/W1996185163","https://openalex.org/W2084813257","https://openalex.org/W2043690326","https://openalex.org/W2045929470","https://openalex.org/W4233500668","https://openalex.org/W2081127504","https://openalex.org/W1974145978","https://openalex.org/W1977867163","https://openalex.org/W1998678099"],"abstract_inverted_index":{"BACKGROUND:":[0],"MicroRNAs":[1],"(miRNAs),":[2],"small":[3],"non-coding":[4],"RNAs":[5],"of":[6,49,81,91,96,148,175,214,227],"19":[7],"to":[8,45,77,109,229],"25":[9],"nt,":[10],"play":[11],"important":[12],"roles":[13],"in":[14,17,84,177,238],"gene":[15],"regulation":[16],"both":[18],"animals":[19],"and":[20,33,57,71,73,163,191,204,222,234],"plants.":[21],"In":[22],"the":[23,27,41,47,79,88,151,173,189,225,236],"last":[24],"few":[25],"years,":[26],"oligonucleotide":[28,101],"microarray":[29],"is":[30,43,54,64,138,158,200],"one":[31],"high-throughput":[32,58,146],"robust":[34],"method":[35,63,105],"for":[36,121,140,153,166,188,207],"detecting":[37,46,208],"miRNA":[38,123,142,168,179,209,231],"expression.":[39],"However,":[40],"approach":[42],"restricted":[44],"expression":[48,89,124,143,180,210,232],"known":[50],"miRNAs.":[51,112,241],"Second-generation":[52],"sequencing":[53,59,97,127,132,147],"an":[55,100],"inexpensive":[56],"method.":[60],"This":[61,114],"new":[62],"a":[65,85,117,160,192,201],"promising":[66],"tool":[67,165,206],"with":[68],"high":[69],"sensitivity":[70],"specificity":[72],"can":[74,93,106],"be":[75,107],"used":[76],"measure":[78],"abundance":[80],"small-RNA":[82],"sequences":[83],"sample.":[86],"Hence,":[87],"profiling":[90],"miRNAs":[92],"involve":[94],"use":[95],"rather":[98],"than":[99],"array.":[102],"Additionally,":[103],"this":[104],"adopted":[108],"discover":[110],"novel":[111,240],"RESULTS:":[113],"work":[115],"presents":[116],"systematic":[118],"approach,":[119],"miRExpress,":[120,198],"extracting":[122,178],"profiles":[125,144,181,233],"from":[126,145,182,220],"reads":[128],"obtained":[129],"by":[130],"second-generation":[131],"technology.":[133],"A":[134],"stand-alone":[135],"software":[136,157],"package":[137],"implemented":[139],"generating":[141],"RNA":[149],"without":[150],"need":[152],"sequenced":[154],"genomes.":[155],"The":[156,212],"also":[159],"database-supported,":[161,202],"efficient":[162,203],"flexible":[164,205],"investigating":[167],"regulation.":[169],"Moreover,":[170],"we":[171],"demonstrate":[172,224],"utility":[174],"miRExpress":[176,228],"two":[183,215],"Illumina":[184,216],"data":[185,217],"sets":[186,218],"constructed":[187,219],"human":[190,221],"plant":[193,223],"species.":[194],"CONCLUSION:":[195],"We":[196],"develop":[197],"which":[199],"profile.":[211],"analysis":[213],"effectiveness":[226],"obtain":[230],"show":[235],"usability":[237],"finding":[239]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":8},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":19},{"year":2017,"cited_by_count":10},{"year":2016,"cited_by_count":18},{"year":2015,"cited_by_count":16},{"year":2014,"cited_by_count":19},{"year":2013,"cited_by_count":15},{"year":2012,"cited_by_count":17}],"updated_date":"2026-06-19T15:47:20.252518","created_date":"2025-10-10T00:00:00"}