{"id":"https://openalex.org/W2767247284","doi":"https://doi.org/10.1093/bib/bbx148","title":"A survey of software tools for microRNA discovery and characterization using RNA-seq","display_name":"A survey of software tools for microRNA discovery and characterization using RNA-seq","publication_year":2017,"publication_date":"2017-10-20","ids":{"openalex":"https://openalex.org/W2767247284","doi":"https://doi.org/10.1093/bib/bbx148","mag":"2767247284","pmid":"https://pubmed.ncbi.nlm.nih.gov/29126230"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbx148","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbx148","pdf_url":"https://academic.oup.com/bib/article-pdf/20/3/918/28847136/bbx148.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/20/3/918/28847136/bbx148.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5050582956","display_name":"Michele Bortolomeazzi","orcid":"https://orcid.org/0000-0001-5805-5774"},"institutions":[{"id":"https://openalex.org/I138689650","display_name":"University of Padua","ror":"https://ror.org/00240q980","country_code":"IT","type":"education","lineage":["https://openalex.org/I138689650"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Michele Bortolomeazzi","raw_affiliation_strings":["Department of Molecular Medicine, University of Padova, Padova, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Medicine, University of Padova, Padova, Italy","institution_ids":["https://openalex.org/I138689650"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088374805","display_name":"Enrico Gaffo","orcid":"https://orcid.org/0000-0001-6338-7677"},"institutions":[{"id":"https://openalex.org/I138689650","display_name":"University of Padua","ror":"https://ror.org/00240q980","country_code":"IT","type":"education","lineage":["https://openalex.org/I138689650"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Enrico Gaffo","raw_affiliation_strings":["Department of Molecular Medicine, University of Padova, Padova, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Medicine, University of Padova, Padova, Italy","institution_ids":["https://openalex.org/I138689650"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054227897","display_name":"Stefania Bortoluzzi","orcid":"https://orcid.org/0000-0001-8240-3070"},"institutions":[{"id":"https://openalex.org/I138689650","display_name":"University of Padua","ror":"https://ror.org/00240q980","country_code":"IT","type":"education","lineage":["https://openalex.org/I138689650"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Stefania Bortoluzzi","raw_affiliation_strings":["Department of Molecular Medicine, University of Padova, Padova, Italy"],"raw_orcid":"https://orcid.org/0000-0001-8240-3070","affiliations":[{"raw_affiliation_string":"Department of Molecular Medicine, University of Padova, Padova, Italy","institution_ids":["https://openalex.org/I138689650"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5054227897","https://openalex.org/A5088374805"],"corresponding_institution_ids":["https://openalex.org/I138689650"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.0937,"has_fulltext":true,"cited_by_count":26,"citation_normalized_percentile":{"value":0.74756005,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":98},"biblio":{"volume":"20","issue":"3","first_page":"918","last_page":"930"},"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/T11482","display_name":"RNA modifications and cancer","score":0.9994000196456909,"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9990000128746033,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6057584881782532},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5893046259880066},{"id":"https://openalex.org/keywords/small-rna","display_name":"Small RNA","score":0.5473660230636597},{"id":"https://openalex.org/keywords/pooling","display_name":"Pooling","score":0.525727391242981},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.49581488966941833},{"id":"https://openalex.org/keywords/biomedicine","display_name":"Biomedicine","score":0.4930388629436493},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4410625696182251},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4094167947769165},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.3946572244167328},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3285418748855591},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2614402770996094},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.25557804107666016},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.162407785654068},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.11316141486167908},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09905999898910522}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6057584881782532},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5893046259880066},{"id":"https://openalex.org/C2779341050","wikidata":"https://www.wikidata.org/wiki/Q24287527","display_name":"Small RNA","level":4,"score":0.5473660230636597},{"id":"https://openalex.org/C70437156","wikidata":"https://www.wikidata.org/wiki/Q7228652","display_name":"Pooling","level":2,"score":0.525727391242981},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.49581488966941833},{"id":"https://openalex.org/C66782513","wikidata":"https://www.wikidata.org/wiki/Q864601","display_name":"Biomedicine","level":2,"score":0.4930388629436493},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4410625696182251},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4094167947769165},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.3946572244167328},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3285418748855591},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2614402770996094},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.25557804107666016},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.162407785654068},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.11316141486167908},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09905999898910522},{"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/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"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":"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":3,"locations":[{"id":"doi:10.1093/bib/bbx148","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbx148","pdf_url":"https://academic.oup.com/bib/article-pdf/20/3/918/28847136/bbx148.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:29126230","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29126230","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:www.research.unipd.it:11577/3243815","is_oa":true,"landing_page_url":"http://hdl.handle.net/11577/3243815","pdf_url":null,"source":{"id":"https://openalex.org/S4377196283","display_name":"Research Padua  Archive (University of Padua)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I138689650","host_organization_name":"University of Padua","host_organization_lineage":["https://openalex.org/I138689650"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bib/bbx148","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbx148","pdf_url":"https://academic.oup.com/bib/article-pdf/20/3/918/28847136/bbx148.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":[{"id":"https://openalex.org/G1073374634","display_name":null,"funder_award_id":"Pediatric research projects 2016-2018","funder_id":"https://openalex.org/F4320309832","funder_display_name":"Fondazione Cassa di Risparmio di Padova e Rovigo"}],"funders":[{"id":"https://openalex.org/F4320309832","display_name":"Fondazione Cassa di Risparmio di Padova e Rovigo","ror":"https://ror.org/02jecj653"},{"id":"https://openalex.org/F4320321966","display_name":"Universit\u00e0 degli Studi di Padova","ror":"https://ror.org/00240q980"},{"id":"https://openalex.org/F4320323054","display_name":"Associazione Italiana per la Ricerca sul Cancro","ror":"https://ror.org/02g2x7380"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":149,"referenced_works":["https://openalex.org/W650538922","https://openalex.org/W1513515886","https://openalex.org/W1552778933","https://openalex.org/W1568018271","https://openalex.org/W1600420628","https://openalex.org/W1744683414","https://openalex.org/W1822176298","https://openalex.org/W1839322214","https://openalex.org/W1892182006","https://openalex.org/W1935200285","https://openalex.org/W1954530082","https://openalex.org/W1970757825","https://openalex.org/W1974254202","https://openalex.org/W1975673380","https://openalex.org/W1980129409","https://openalex.org/W1985831638","https://openalex.org/W1989353561","https://openalex.org/W1991244466","https://openalex.org/W1993165035","https://openalex.org/W1993786760","https://openalex.org/W1994414793","https://openalex.org/W1996078192","https://openalex.org/W2004791359","https://openalex.org/W2006247279","https://openalex.org/W2013868665","https://openalex.org/W2016038592","https://openalex.org/W2017426710","https://openalex.org/W2019867706","https://openalex.org/W2021137575","https://openalex.org/W2022326327","https://openalex.org/W2022488654","https://openalex.org/W2031143568","https://openalex.org/W2034040854","https://openalex.org/W2037468758","https://openalex.org/W2039291948","https://openalex.org/W2040191060","https://openalex.org/W2045058009","https://openalex.org/W2051618230","https://openalex.org/W2052785172","https://openalex.org/W2055981636","https://openalex.org/W2059476054","https://openalex.org/W2061912939","https://openalex.org/W2061989469","https://openalex.org/W2062154191","https://openalex.org/W2069799979","https://openalex.org/W2071656143","https://openalex.org/W2071966633","https://openalex.org/W2075676541","https://openalex.org/W2075863097","https://openalex.org/W2077280260","https://openalex.org/W2077327925","https://openalex.org/W2085898074","https://openalex.org/W2086561953","https://openalex.org/W2089055162","https://openalex.org/W2094253263","https://openalex.org/W2094290293","https://openalex.org/W2095968788","https://openalex.org/W2106423003","https://openalex.org/W2107602656","https://openalex.org/W2112810020","https://openalex.org/W2114058102","https://openalex.org/W2114104545","https://openalex.org/W2115981800","https://openalex.org/W2116580198","https://openalex.org/W2122708255","https://openalex.org/W2123265753","https://openalex.org/W2125352919","https://openalex.org/W2126214547","https://openalex.org/W2126732736","https://openalex.org/W2127274965","https://openalex.org/W2128831586","https://openalex.org/W2130305733","https://openalex.org/W2130386995","https://openalex.org/W2131136499","https://openalex.org/W2131271579","https://openalex.org/W2133707799","https://openalex.org/W2133782353","https://openalex.org/W2134484537","https://openalex.org/W2134541285","https://openalex.org/W2134975289","https://openalex.org/W2139791626","https://openalex.org/W2140446903","https://openalex.org/W2141729997","https://openalex.org/W2142584500","https://openalex.org/W2146331115","https://openalex.org/W2146495977","https://openalex.org/W2146580193","https://openalex.org/W2146994504","https://openalex.org/W2147495091","https://openalex.org/W2149039397","https://openalex.org/W2149785901","https://openalex.org/W2150333864","https://openalex.org/W2150770935","https://openalex.org/W2152239989","https://openalex.org/W2152269273","https://openalex.org/W2154537006","https://openalex.org/W2156154309","https://openalex.org/W2157370528","https://openalex.org/W2160155716","https://openalex.org/W2163025807","https://openalex.org/W2163199119","https://openalex.org/W2164822798","https://openalex.org/W2167299839","https://openalex.org/W2167557255","https://openalex.org/W2168352935","https://openalex.org/W2170428122","https://openalex.org/W2177627974","https://openalex.org/W2179438025","https://openalex.org/W2180078914","https://openalex.org/W2215639959","https://openalex.org/W2233207922","https://openalex.org/W2264436887","https://openalex.org/W2265035095","https://openalex.org/W2274518015","https://openalex.org/W2291312906","https://openalex.org/W2298276101","https://openalex.org/W2303912045","https://openalex.org/W2316713425","https://openalex.org/W2335715691","https://openalex.org/W2342093821","https://openalex.org/W2344707076","https://openalex.org/W2345356016","https://openalex.org/W2346143774","https://openalex.org/W2350123421","https://openalex.org/W2398060177","https://openalex.org/W2417123930","https://openalex.org/W2470357604","https://openalex.org/W2474096934","https://openalex.org/W2507286762","https://openalex.org/W2523422689","https://openalex.org/W2529001871","https://openalex.org/W2530597079","https://openalex.org/W2539282033","https://openalex.org/W2560678530","https://openalex.org/W2567737075","https://openalex.org/W2589984951","https://openalex.org/W2596647177","https://openalex.org/W2597544746","https://openalex.org/W2601400803","https://openalex.org/W2602423701","https://openalex.org/W2603893583","https://openalex.org/W2604135852","https://openalex.org/W3144850073","https://openalex.org/W6647808099","https://openalex.org/W6678907343","https://openalex.org/W6682874003","https://openalex.org/W6731781087","https://openalex.org/W6733772098","https://openalex.org/W6735316621"],"related_works":["https://openalex.org/W2064485169","https://openalex.org/W2584651428","https://openalex.org/W1977904234","https://openalex.org/W140181874","https://openalex.org/W3150643380","https://openalex.org/W4243624632","https://openalex.org/W2396105383","https://openalex.org/W2074821116","https://openalex.org/W1972726243","https://openalex.org/W2077977711"],"abstract_inverted_index":{"Since":[0],"the":[1,10,46,92,114,119,123,141,164,175,198,224,233],"small":[2,28],"RNA-sequencing":[3],"(sRNA-seq)":[4],"technology":[5],"became":[6],"available,":[7],"it":[8],"allowed":[9],"discovery":[11,38,75,128],"of":[12,31,126,167,204,246],"thousands":[13],"new":[14,24],"microRNAs":[15],"(miRNAs)":[16],"in":[17,45,57,62,67,140],"humans":[18],"and":[19,34,51,66,76,99,109,137,152,170,183,193,201,217,230,240],"many":[20,52],"other":[21,244],"species,":[22],"providing":[23,84],"data":[25,160,206,211,237],"on":[26,105],"these":[27],"RNAs":[29],"(sRNAs)":[30],"high":[32],"biological":[33,115],"translational":[35],"relevance.":[36],"MiRNA":[37],"has":[39],"not":[40],"yet":[41],"reached":[42],"saturation,":[43],"even":[44],"most":[47],"studied":[48],"model":[49],"organisms,":[50],"researchers":[53,89],"are":[54],"using":[55],"sRNA-seq":[56,159,205],"studies":[58],"with":[59,243],"different":[60,82,132],"aims":[61],"biomedicine,":[63],"fundamental":[64],"research":[65],"applied":[68],"animal":[69],"sciences.":[70],"We":[71,162],"review":[72],"several":[73],"miRNA":[74,106,127,134,150,171,191,214],"characterization":[77],"software":[78,136,156],"tools":[79],"that":[80],"implement":[81],"strategies,":[83],"a":[85,102,189],"useful":[86,111],"guide":[87],"for":[88,149,158],"to":[90,112,180,213],"select":[91],"programs":[93],"best":[94],"suiting":[95],"their":[96],"study":[97],"objectives":[98],"data.":[100,249],"After":[101],"brief":[103],"introduction":[104],"biogenesis,":[107],"function":[108],"characteristics,":[110],"understand":[113],"background":[116],"considered":[117,173],"by":[118,174,196,236,241],"algorithms,":[120],"we":[121,187,222,231],"survey":[122],"current":[124],"state":[125],"bioinformatics":[129],"discussing":[130],"26":[131],"sRNA-seq-based":[133,227],"prediction":[135,151,181,192,228],"toolkits":[138],"released":[139],"past":[142],"6":[143],"years,":[144],"including":[145],"15":[146],"methods":[147,176],"specific":[148],"11":[153],"more":[154],"general-purpose":[155],"suites":[157],"analysis.":[161],"highlight":[163],"main":[165,202],"features":[166],"mature":[168],"miRNAs":[169],"precursors":[172],"categorizing":[177],"them":[178],"according":[179],"strategy":[182],"implementation.":[184],"In":[185],"addition,":[186],"describe":[188],"typical":[190],"analysis":[194,207],"workflow":[195],"delineating":[197],"objectives,":[199],"potentialities":[200],"steps":[203],"projects,":[208],"from":[209],"preparatory":[210],"processing":[212],"prediction,":[215],"quantification":[216],"diverse":[218],"downstream":[219],"analyses.":[220],"Finally,":[221],"outline":[223],"caveats":[225],"affecting":[226],"tools,":[229],"indicate":[232],"possibilities":[234],"offered":[235],"set":[238],"pooling":[239],"integration":[242],"types":[245],"high-throughput":[247],"sequencing":[248]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":2}],"updated_date":"2026-05-19T21:40:30.786675","created_date":"2025-10-10T00:00:00"}
