{"id":"https://openalex.org/W2056429168","doi":"https://doi.org/10.1109/iccabs.2012.6182620","title":"Invited: Identifying mutations from TILLING experiments","display_name":"Invited: Identifying mutations from TILLING experiments","publication_year":2012,"publication_date":"2012-02-01","ids":{"openalex":"https://openalex.org/W2056429168","doi":"https://doi.org/10.1109/iccabs.2012.6182620","mag":"2056429168"},"language":"en","primary_location":{"id":"doi:10.1109/iccabs.2012.6182620","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2012.6182620","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5064626129","display_name":"Vladimir Filkov","orcid":"https://orcid.org/0000-0003-0492-4393"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Vladimir Filkov","raw_affiliation_strings":["Department of Computer Science, University of California, Davis, Davis, CA, USA","Dept. of Comput. Sci., UC Davis, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of California, Davis, Davis, CA, USA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Dept. of Comput. Sci., UC Davis, CA, USA","institution_ids":["https://openalex.org/I84218800"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5064626129"],"corresponding_institution_ids":["https://openalex.org/I84218800"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.1126708,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"12","issue":null,"first_page":"1","last_page":"1"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12828","display_name":"Plant Genetic and Mutation Studies","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T12828","display_name":"Plant Genetic and Mutation Studies","score":0.9998999834060669,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9954000115394592,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9909999966621399,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/tilling","display_name":"TILLING","score":0.9913793802261353},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7113488912582397},{"id":"https://openalex.org/keywords/reverse-genetics","display_name":"Reverse genetics","score":0.6634179353713989},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.6175811290740967},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.611903190612793},{"id":"https://openalex.org/keywords/deep-sequencing","display_name":"Deep sequencing","score":0.5351067185401917},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.527862012386322},{"id":"https://openalex.org/keywords/mutation","display_name":"Mutation","score":0.48936623334884644},{"id":"https://openalex.org/keywords/whole-genome-sequencing","display_name":"Whole genome sequencing","score":0.4616142511367798},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.45788538455963135},{"id":"https://openalex.org/keywords/mutagenesis","display_name":"Mutagenesis","score":0.4452482759952545},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.43517541885375977},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.42571738362312317}],"concepts":[{"id":"https://openalex.org/C4979033","wikidata":"https://www.wikidata.org/wiki/Q949536","display_name":"TILLING","level":2,"score":0.9913793802261353},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7113488912582397},{"id":"https://openalex.org/C25365240","wikidata":"https://www.wikidata.org/wiki/Q1897151","display_name":"Reverse genetics","level":4,"score":0.6634179353713989},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.6175811290740967},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.611903190612793},{"id":"https://openalex.org/C132917006","wikidata":"https://www.wikidata.org/wiki/Q5250436","display_name":"Deep sequencing","level":4,"score":0.5351067185401917},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.527862012386322},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.48936623334884644},{"id":"https://openalex.org/C24432333","wikidata":"https://www.wikidata.org/wiki/Q2068526","display_name":"Whole genome sequencing","level":4,"score":0.4616142511367798},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.45788538455963135},{"id":"https://openalex.org/C16318435","wikidata":"https://www.wikidata.org/wiki/Q149299","display_name":"Mutagenesis","level":4,"score":0.4452482759952545},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.43517541885375977},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.42571738362312317},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/iccabs.2012.6182620","is_oa":false,"landing_page_url":"https://doi.org/10.1109/iccabs.2012.6182620","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2012 IEEE 2nd International Conference on Computational Advances in Bio and medical Sciences (ICCABS)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Life in Land","score":0.550000011920929,"id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":2,"referenced_works":["https://openalex.org/W2071341695","https://openalex.org/W2143799706"],"related_works":["https://openalex.org/W2110220925","https://openalex.org/W2356964603","https://openalex.org/W2138381647","https://openalex.org/W2116707768","https://openalex.org/W2104783787","https://openalex.org/W2161831540","https://openalex.org/W2110364996","https://openalex.org/W2539685506","https://openalex.org/W19816169","https://openalex.org/W59031661"],"abstract_inverted_index":{"TILLING":[0,53,71,101,187],"(Targeting":[1],"Induced":[2],"Local":[3],"Lesions":[4],"IN":[5],"Genomes)":[6],"is":[7,43,146],"a":[8,20],"reverse":[9],"genetics":[10],"approach":[11],"to":[12,61,70,140],"detect":[13],"effects":[14],"of":[15,31,39,48,121,123,127,130,134,221,244,248],"globally":[16],"induced":[17],"mutations":[18,28,55,238],"in":[19,29,56,207,227,239],"population":[21],"and":[22,45,84,86,99,107,142,173,180,195,198,210,224,246],"identify":[23],"the":[24,36,40,46,116,131,165,170,199],"individuals":[25,124],"that":[26,212,233],"have":[27],"genes":[30],"interest.":[32,128],"As":[33],"long":[34],"as":[35,78,92],"DNA":[37],"sequence":[38,219],"target":[41],"gene":[42],"known":[44],"organism":[47],"interest":[49],"can":[50],"be":[51],"mutagenized,":[52],"provides":[54],"species":[57,76,87],"where":[58],"tools":[59],"applicable":[60],"other":[62,200,216],"model":[63],"systems":[64],"are":[65],"unavailable.":[66],"Importantly,":[67],"organisms":[68],"amenable":[69],"include":[72],"both":[73],"commercially":[74],"valuable":[75],"such":[77,91],"rice,":[79],"wheat,":[80],"soybean,":[81],"brassica,":[82],"oat,":[83],"melon,":[85],"important":[88],"for":[89],"research":[90],"medaka,":[93],"zebra":[94],"fish,":[95],"fruit":[96],"flies,":[97],"arabidopsis":[98],"nematodes.":[100],"-by":[102],"-Sequencing":[103],"leverages":[104],"next-generation":[105],"sequencing":[106,120,136,139,174,192],"an":[108],"overlapping":[109],"pooled":[110,171],"experimental":[111],"design.":[112],"It":[113],"follows":[114],"up":[115],"mutagenesis":[117],"with":[118,190,201,242],"deep":[119,138],"pools":[122],"or":[125],"populations":[126,241],"Because":[129],"high":[132],"throughput":[133],"current":[135],"technologies,":[137],"hundred":[141],"thousand":[143],"fold":[144],"coverage":[145,175,193,228],"possible":[147],"[1].":[148],"Here":[149],"I":[150],"present":[151],"on":[152,218],"our":[153,234],"method,":[154],"Coverage":[155],"Aware":[156],"Mutation":[157],"calling":[158],"using":[159],"Bayesian":[160],"analysis,":[161],"CAMBa,":[162],"(read":[163],"like":[164],"dance),":[166],"which":[167],"directly":[168],"considers":[169],"setup":[172],"levels":[176],"when":[177],"calculating":[178],"mutation":[179],"noise":[181],"probabilities.":[182],"Using":[183],"data":[184,196,220],"from":[185],"two":[186],"experiments,":[188],"one":[189],"lower":[191,222],"variablility":[194],"quality":[197,223],"higher,":[202],"we":[203],"validate":[204],"CAMBa's":[205],"efficacy":[206],"identifying":[208],"mutations,":[209],"demonstrate":[211],"it":[213],"outperforms":[214],"significantly":[215],"methods":[217],"higher":[225],"variance":[226],"across":[229],"pools.":[230],"We":[231],"show":[232],"method":[235],"effectively":[236],"discovers":[237],"large":[240],"sensitivity":[243],"92.5%":[245],"specificity":[247],"99.8%":[249],"[2].":[250]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
