{"id":"https://openalex.org/W2883814060","doi":"https://doi.org/10.1093/bib/bby059","title":"dbCID: a manually curated resource for exploring the driver indels in human cancer","display_name":"dbCID: a manually curated resource for exploring the driver indels in human cancer","publication_year":2018,"publication_date":"2018-06-12","ids":{"openalex":"https://openalex.org/W2883814060","doi":"https://doi.org/10.1093/bib/bby059","mag":"2883814060","pmid":"https://pubmed.ncbi.nlm.nih.gov/30016397"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bby059","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby059","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/A5044447237","display_name":"Zhenyu Yue","orcid":"https://orcid.org/0000-0002-9370-2540"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhenyu Yue","raw_affiliation_strings":["Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China"],"affiliations":[{"raw_affiliation_string":"Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089791620","display_name":"Le Zhao","orcid":"https://orcid.org/0000-0002-1213-1126"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Le Zhao","raw_affiliation_strings":["Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China"],"affiliations":[{"raw_affiliation_string":"Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5108059952","display_name":"Na Cheng","orcid":"https://orcid.org/0000-0002-5446-0489"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Na Cheng","raw_affiliation_strings":["Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China"],"affiliations":[{"raw_affiliation_string":"Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101689304","display_name":"Yan Hua","orcid":"https://orcid.org/0000-0003-2055-3553"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hua Yan","raw_affiliation_strings":["School of Life Sciences, Anhui University, Hefei, Anhui, China"],"affiliations":[{"raw_affiliation_string":"School of Life Sciences, Anhui University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I143868143"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065943710","display_name":"Junfeng Xia","orcid":"https://orcid.org/0000-0003-3024-1705"},"institutions":[{"id":"https://openalex.org/I143868143","display_name":"Anhui University","ror":"https://ror.org/05th6yx34","country_code":"CN","type":"education","lineage":["https://openalex.org/I143868143"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Junfeng Xia","raw_affiliation_strings":["Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China"],"affiliations":[{"raw_affiliation_string":"Institute of Physical Science and Information Technology, School of Computer Science and Technology, Anhui University, Hefei, Anhui, China","institution_ids":["https://openalex.org/I143868143"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5065943710"],"corresponding_institution_ids":["https://openalex.org/I143868143"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":2.0223,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.8740034,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"20","issue":"5","first_page":"1925","last_page":"1933"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","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/T11482","display_name":"RNA modifications and cancer","score":0.9988999962806702,"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/indel","display_name":"Indel","score":0.9297047853469849},{"id":"https://openalex.org/keywords/frameshift-mutation","display_name":"Frameshift mutation","score":0.8550856709480286},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5762614011764526},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5385758280754089},{"id":"https://openalex.org/keywords/indel-mutation","display_name":"INDEL Mutation","score":0.525519847869873},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4540690779685974},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4114505648612976},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4026363790035248},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.35084521770477295},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.2246253490447998}],"concepts":[{"id":"https://openalex.org/C119054055","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"Indel","level":5,"score":0.9297047853469849},{"id":"https://openalex.org/C29906990","wikidata":"https://www.wikidata.org/wiki/Q1440688","display_name":"Frameshift mutation","level":4,"score":0.8550856709480286},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5762614011764526},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5385758280754089},{"id":"https://openalex.org/C2910714999","wikidata":"https://www.wikidata.org/wiki/Q1576681","display_name":"INDEL Mutation","level":5,"score":0.525519847869873},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4540690779685974},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4114505648612976},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4026363790035248},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.35084521770477295},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.2246253490447998},{"id":"https://openalex.org/C135763542","wikidata":"https://www.wikidata.org/wiki/Q106016","display_name":"Genotype","level":3,"score":0.0},{"id":"https://openalex.org/C153209595","wikidata":"https://www.wikidata.org/wiki/Q501128","display_name":"Single-nucleotide polymorphism","level":4,"score":0.0}],"mesh":[{"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":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054643","descriptor_name":"INDEL Mutation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bby059","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby059","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:30016397","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30016397","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":[{"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities","score":0.6299999952316284}],"awards":[{"id":"https://openalex.org/G5573161910","display_name":null,"funder_award_id":"61672037","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":51,"referenced_works":["https://openalex.org/W1128147987","https://openalex.org/W1517847213","https://openalex.org/W1900984040","https://openalex.org/W2010872048","https://openalex.org/W2017818880","https://openalex.org/W2029151927","https://openalex.org/W2035403293","https://openalex.org/W2059300459","https://openalex.org/W2071596420","https://openalex.org/W2082110197","https://openalex.org/W2087025655","https://openalex.org/W2091524014","https://openalex.org/W2096777589","https://openalex.org/W2098650870","https://openalex.org/W2102140136","https://openalex.org/W2103931879","https://openalex.org/W2106578986","https://openalex.org/W2118621341","https://openalex.org/W2122683221","https://openalex.org/W2122732537","https://openalex.org/W2132312350","https://openalex.org/W2133990480","https://openalex.org/W2136961040","https://openalex.org/W2139969213","https://openalex.org/W2145191876","https://openalex.org/W2146973661","https://openalex.org/W2158217645","https://openalex.org/W2159092541","https://openalex.org/W2160995259","https://openalex.org/W2163324183","https://openalex.org/W2166867866","https://openalex.org/W2168412461","https://openalex.org/W2171620774","https://openalex.org/W2171777347","https://openalex.org/W2174602966","https://openalex.org/W2224056471","https://openalex.org/W2261193987","https://openalex.org/W2309021002","https://openalex.org/W2309935793","https://openalex.org/W2526413677","https://openalex.org/W2541932182","https://openalex.org/W2583911935","https://openalex.org/W2604078450","https://openalex.org/W2614443510","https://openalex.org/W2749499006","https://openalex.org/W2781525129","https://openalex.org/W2789006266","https://openalex.org/W2885727518","https://openalex.org/W2949492942","https://openalex.org/W4249273120","https://openalex.org/W4250359879"],"related_works":["https://openalex.org/W1971376828","https://openalex.org/W2135846417","https://openalex.org/W2167094946","https://openalex.org/W4206406917","https://openalex.org/W2080028493","https://openalex.org/W2046457574","https://openalex.org/W3103976079","https://openalex.org/W4387460329","https://openalex.org/W2996849075","https://openalex.org/W2940885779"],"abstract_inverted_index":{"While":[0],"recent":[1],"advances":[2],"in":[3,16,60,91,99,123,132,167,192,216],"next-generation":[4],"sequencing":[5],"technologies":[6],"have":[7,38],"enabled":[8],"the":[9,27,40,88,118,136,138,155,189,210,213,232,240],"creation":[10],"of":[11,14,29,42,51,78,96,117,212,242],"a":[12,49,130,176,223],"multitude":[13],"databases":[15],"cancer":[17,61,127,181],"genomic":[18],"research,":[19],"there":[20],"is":[21,48,81],"no":[22],"comprehensive":[23],"database":[24,41],"focusing":[25],"on":[26,188,203],"annotation":[28],"driver":[30,44,72,97,121,142,159,182],"indels":[31,54,73,98,122,144,160,186],"(insertions":[32],"and":[33,70,80,105,157,170,227,231],"deletions)":[34],"yet.":[35],"Therefore,":[36],"we":[37,93,174],"developed":[39,175],"Cancer":[43],"InDels":[45],"(dbCID),":[46],"which":[47,208],"collection":[50],"known":[52,126],"coding":[53],"that":[55,115],"likely":[56],"to":[57,135,162],"be":[58,222],"engaged":[59],"development,":[62],"progression":[63],"or":[64],"therapy.":[65],"dbCID":[66,124,220],"contains":[67],"experimentally":[68],"supported":[69],"putative":[71,110],"derived":[74],"from":[75,183],"manual":[76],"curation":[77],"literature":[79],"freely":[82],"available":[83],"online":[84],"at":[85],"http://bioinfo.ahu.edu.cn:8080/dbCID.":[86],"Using":[87],"data":[89,191,214],"deposited":[90,190,215],"dbCID,":[92],"summarized":[94,234],"features":[95],"four":[100],"levels":[101],"(gene,":[102],"DNA,":[103],"transcript":[104],"protein)":[106],"through":[107],"comparing":[108],"with":[109,238],"neutral":[111,151,184],"indels.":[112],"We":[113,218],"found":[114],"most":[116],"genes":[119,128],"containing":[120],"are":[125,145],"playing":[129],"role":[131],"tumorigenesis.":[133],"Contrary":[134],"expectation,":[137],"sequences":[139,169],"affected":[140],"by":[141,150],"frameshift":[143,156,185],"not":[146],"larger":[147],"than":[148],"those":[149],"ones.":[152],"In":[153],"addition,":[154],"inframe":[158],"prefer":[161],"disrupt":[163],"high-conservative":[164],"regions":[165],"both":[166],"DNA":[168],"protein":[171],"domains.":[172],"Finally,":[173],"computational":[177],"method":[178,196],"for":[179,225],"discriminating":[180],"based":[187],"dbCID.":[193,217],"The":[194],"proposed":[195],"outperformed":[197],"other":[198],"widely":[199],"used":[200],"non-cancer-specific":[201],"predictors":[202],"an":[204],"external":[205],"test":[206],"set,":[207],"demonstrated":[209],"usefulness":[211],"hope":[219],"will":[221],"benchmark":[224],"improving":[226],"evaluating":[228],"prediction":[229],"algorithms,":[230],"characteristics":[233],"here":[235],"may":[236],"assist":[237],"investigating":[239],"mechanism":[241],"indel-cancer":[243],"association.":[244]},"counts_by_year":[{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
