{"id":"https://openalex.org/W2913448170","doi":"https://doi.org/10.1093/bib/bby116","title":"Comprehensive review of the identification of essential genes using computational methods: focusing on feature implementation and assessment","display_name":"Comprehensive review of the identification of essential genes using computational methods: focusing on feature implementation and assessment","publication_year":2018,"publication_date":"2018-11-03","ids":{"openalex":"https://openalex.org/W2913448170","doi":"https://doi.org/10.1093/bib/bby116","mag":"2913448170","pmid":"https://pubmed.ncbi.nlm.nih.gov/30496347"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bby116","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby116","pdf_url":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101620301","display_name":"Chuan Dong","orcid":"https://orcid.org/0000-0001-6164-1985"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chuan Dong","raw_affiliation_strings":["School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China"],"affiliations":[{"raw_affiliation_string":"School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051946493","display_name":"Yan-Ting Jin","orcid":"https://orcid.org/0000-0001-6700-8494"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yan-Ting Jin","raw_affiliation_strings":["School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China"],"affiliations":[{"raw_affiliation_string":"School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086471003","display_name":"Hong\u2010Li Hua","orcid":"https://orcid.org/0000-0003-0251-7399"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hong-Li Hua","raw_affiliation_strings":["School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China"],"affiliations":[{"raw_affiliation_string":"School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032626647","display_name":"Qing\u2010Feng Wen","orcid":"https://orcid.org/0000-0001-9867-2638"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qing-Feng Wen","raw_affiliation_strings":["School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China"],"affiliations":[{"raw_affiliation_string":"School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088026710","display_name":"Sen Luo","orcid":null},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Sen Luo","raw_affiliation_strings":["School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China"],"affiliations":[{"raw_affiliation_string":"School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101697408","display_name":"Wenxin Zheng","orcid":"https://orcid.org/0000-0002-0682-273X"},"institutions":[{"id":"https://openalex.org/I183519381","display_name":"Capital Medical University","ror":"https://ror.org/013xs5b60","country_code":"CN","type":"education","lineage":["https://openalex.org/I183519381"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wen-Xin Zheng","raw_affiliation_strings":["School of Biomedical Engineering, Capital Medical University, Beijing, China"],"affiliations":[{"raw_affiliation_string":"School of Biomedical Engineering, Capital Medical University, Beijing, China","institution_ids":["https://openalex.org/I183519381"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5079147107","display_name":"Feng\u2010Biao Guo","orcid":"https://orcid.org/0000-0002-1129-5233"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Feng-Biao Guo","raw_affiliation_strings":["School of Life Science and Technology, Center for Informational Biology, Intelligent Learning Institute for Science and Application, University of Electronic Science and Technology of China, Chengdu, China"],"affiliations":[{"raw_affiliation_string":"School of Life Science and Technology, Center for Informational Biology, Intelligent Learning Institute for Science and Application, University of Electronic Science and Technology of China, Chengdu, China","institution_ids":["https://openalex.org/I150229711"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5079147107"],"corresponding_institution_ids":["https://openalex.org/I150229711"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":1.7465,"has_fulltext":false,"cited_by_count":38,"citation_normalized_percentile":{"value":0.85485395,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"21","issue":"1","first_page":"171","last_page":"181"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9990000128746033,"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/T10521","display_name":"RNA and protein synthesis mechanisms","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/identification","display_name":"Identification (biology)","score":0.7245161533355713},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5911888480186462},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5704559087753296},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5616947412490845},{"id":"https://openalex.org/keywords/field","display_name":"Field (mathematics)","score":0.5079963803291321},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.46430662274360657},{"id":"https://openalex.org/keywords/component","display_name":"Component (thermodynamics)","score":0.45580294728279114},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.38222455978393555},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.20262879133224487},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.07595336437225342}],"concepts":[{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7245161533355713},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5911888480186462},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5704559087753296},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5616947412490845},{"id":"https://openalex.org/C9652623","wikidata":"https://www.wikidata.org/wiki/Q190109","display_name":"Field (mathematics)","level":2,"score":0.5079963803291321},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.46430662274360657},{"id":"https://openalex.org/C168167062","wikidata":"https://www.wikidata.org/wiki/Q1117970","display_name":"Component (thermodynamics)","level":2,"score":0.45580294728279114},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.38222455978393555},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.20262879133224487},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.07595336437225342},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.0},{"id":"https://openalex.org/C202444582","wikidata":"https://www.wikidata.org/wiki/Q837863","display_name":"Pure mathematics","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bby116","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby116","pdf_url":null,"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:30496347","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30496347","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}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.5600000023841858,"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G2731577396","display_name":null,"funder_award_id":"ZYGX2015Z006","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"},{"id":"https://openalex.org/G2924330416","display_name":null,"funder_award_id":"31470068","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G3850625945","display_name":null,"funder_award_id":"BJNSF 5182006","funder_id":"https://openalex.org/F4320322919","funder_display_name":"Natural Science Foundation of Beijing Municipality"},{"id":"https://openalex.org/G5389991281","display_name":null,"funder_award_id":"31871335","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G7045425752","display_name":null,"funder_award_id":"ZYGX2016J117","funder_id":"https://openalex.org/F4320335787","funder_display_name":"Fundamental Research Funds for the Central Universities"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322919","display_name":"Natural Science Foundation of Beijing Municipality","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":94,"referenced_works":["https://openalex.org/W18611912","https://openalex.org/W20352904","https://openalex.org/W25458365","https://openalex.org/W1503405070","https://openalex.org/W1608392597","https://openalex.org/W1714524773","https://openalex.org/W1934704664","https://openalex.org/W1944525636","https://openalex.org/W1975191997","https://openalex.org/W1981722151","https://openalex.org/W1996612368","https://openalex.org/W1998152384","https://openalex.org/W1999808266","https://openalex.org/W2003390994","https://openalex.org/W2005740247","https://openalex.org/W2006898727","https://openalex.org/W2007245700","https://openalex.org/W2011584557","https://openalex.org/W2021723654","https://openalex.org/W2024664836","https://openalex.org/W2025971310","https://openalex.org/W2035278976","https://openalex.org/W2035610697","https://openalex.org/W2038611618","https://openalex.org/W2040226264","https://openalex.org/W2041850015","https://openalex.org/W2043532636","https://openalex.org/W2048386825","https://openalex.org/W2053096433","https://openalex.org/W2061439657","https://openalex.org/W2062254828","https://openalex.org/W2063139657","https://openalex.org/W2064710711","https://openalex.org/W2066846721","https://openalex.org/W2077159940","https://openalex.org/W2082649645","https://openalex.org/W2085819511","https://openalex.org/W2086084754","https://openalex.org/W2088710021","https://openalex.org/W2091152006","https://openalex.org/W2091185605","https://openalex.org/W2094934530","https://openalex.org/W2099651125","https://openalex.org/W2100080032","https://openalex.org/W2105089945","https://openalex.org/W2105295234","https://openalex.org/W2106900391","https://openalex.org/W2107714719","https://openalex.org/W2110837498","https://openalex.org/W2111894054","https://openalex.org/W2113140044","https://openalex.org/W2116988150","https://openalex.org/W2118258530","https://openalex.org/W2118830783","https://openalex.org/W2119444774","https://openalex.org/W2124540200","https://openalex.org/W2128784723","https://openalex.org/W2130790725","https://openalex.org/W2136749660","https://openalex.org/W2145957695","https://openalex.org/W2146447390","https://openalex.org/W2147526198","https://openalex.org/W2149119575","https://openalex.org/W2150744251","https://openalex.org/W2152025465","https://openalex.org/W2159595936","https://openalex.org/W2162655836","https://openalex.org/W2168971412","https://openalex.org/W2174686320","https://openalex.org/W2180291937","https://openalex.org/W2184956732","https://openalex.org/W2329659234","https://openalex.org/W2334956771","https://openalex.org/W2336167279","https://openalex.org/W2393269069","https://openalex.org/W2414717776","https://openalex.org/W2508854983","https://openalex.org/W2512143001","https://openalex.org/W2515139970","https://openalex.org/W2537623931","https://openalex.org/W2543582635","https://openalex.org/W2581040748","https://openalex.org/W2587931481","https://openalex.org/W2599873893","https://openalex.org/W2731261909","https://openalex.org/W2771333313","https://openalex.org/W2790765877","https://openalex.org/W2797761902","https://openalex.org/W2949280944","https://openalex.org/W6601020228","https://openalex.org/W6629898328","https://openalex.org/W6636223765","https://openalex.org/W6702949759","https://openalex.org/W6733275781"],"related_works":["https://openalex.org/W2357256365","https://openalex.org/W2348502264","https://openalex.org/W2365486383","https://openalex.org/W2362059367","https://openalex.org/W2350084742","https://openalex.org/W2901443725","https://openalex.org/W2357988862","https://openalex.org/W1855558850","https://openalex.org/W1852677413","https://openalex.org/W3159661535"],"abstract_inverted_index":{"Essential":[0],"genes":[1,16,183],"have":[2,49,90,131],"attracted":[3],"increasing":[4],"attention":[5],"in":[6,17,56,69,139,145,166,184],"recent":[7],"years":[8],"due":[9],"to":[10,23,93,136,162],"the":[11,20,25,37,62,95,107,133,146,179],"important":[12],"functions":[13],"of":[14,39,66,75,98,109,123,181],"these":[15,70,99,124],"organisms.":[18],"Among":[19],"methods":[21,32],"used":[22,68,135,161],"identify":[24],"essential":[26,53,182],"genes,":[27],"accurate":[28],"and":[29,41,58,60,86,101,116,120,157,168,186],"efficient":[30],"computational":[31],"can":[33,158],"make":[34],"up":[35],"for":[36,155,178],"deficiencies":[38],"expensive":[40],"time-consuming":[42],"experimental":[43],"technologies.":[44],"In":[45,128],"this":[46],"review,":[47],"we":[48,130],"collected":[50],"researches":[51],"on":[52,106],"gene":[54,164],"predictions":[55],"prokaryotes":[57,167,185],"eukaryotes":[59],"summarized":[61],"five":[63,73],"predominant":[64],"types":[65,74],"features":[67,76,100,125,138],"studies.":[71],"The":[72,118],"include":[77],"evolutionary":[78],"conservation,":[79],"domain":[80],"information,":[81],"network":[82],"topology,":[83],"sequence":[84],"component":[85],"expression":[87],"level.":[88],"We":[89],"described":[91],"how":[92],"implement":[94],"useful":[96],"forms":[97],"evaluated":[102],"their":[103],"performance":[104],"based":[105],"data":[108],"Escherichia":[110],"coli":[111],"MG1655,":[112],"Bacillus":[113],"subtilis":[114],"168":[115],"human.":[117],"prerequisite":[119],"applicable":[121],"range":[122],"is":[126],"described.":[127],"addition,":[129],"investigated":[132],"techniques":[134],"weight":[137],"various":[140],"models.":[141],"To":[142],"facilitate":[143],"researchers":[144],"field,":[147],"two":[148],"available":[149],"online":[150],"tools,":[151],"which":[152],"are":[153],"accessible":[154],"free":[156],"be":[159],"directly":[160],"predict":[163],"essentiality":[165],"humans,":[169],"were":[170],"referred.":[171],"This":[172],"article":[173],"provides":[174],"a":[175],"simple":[176],"guide":[177],"identification":[180],"eukaryotes.":[187]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":2}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}