{"id":"https://openalex.org/W52053104","doi":null,"title":"Method development and application of Next Generation Sequencing in forward genetics","display_name":"Method development and application of Next Generation Sequencing in forward genetics","publication_year":2014,"publication_date":"2014-04-01","ids":{"openalex":"https://openalex.org/W52053104","mag":"52053104"},"language":"en","primary_location":{"id":"pmh:oai:USBKOELN.ub.uni-koeln.de:5544","doi":null,"is_oa":false,"landing_page_url":"https://kups.ub.uni-koeln.de/5544/1/Final_V10_phDthesis.pdf","pdf_url":"https://kups.ub.uni-koeln.de/5544/1/Final_V10_phDthesis.pdf","source":{"id":"https://openalex.org/S4306400371","display_name":"K\u00f6lner Universit\u00e4ts PublikationsServer (Universit\u00e4t zu K\u00f6ln)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210115942","host_organization_name":"Rhenish Institute for Environmental Research","host_organization_lineage":["https://openalex.org/I4210115942"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"doc-type:doctoralThesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"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/A5031150570","display_name":"Geo Velikkakam James","orcid":null,"observed_orcids":[]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Geo Velikkakam James","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5031150570"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.7929999828338623,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11468","display_name":"Genetic Mapping and Diversity in Plants and Animals","score":0.7929999828338623,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T12828","display_name":"Plant Genetic and Mutation Studies","score":0.1615000069141388,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.024299999698996544,"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/mapping-by-sequencing","display_name":"mapping-by-sequencing","score":0.9319999814033508},{"id":"https://openalex.org/keywords/forward-genetic-screen","display_name":"forward genetic screen","score":0.8190000057220459},{"id":"https://openalex.org/keywords/mutant-identification","display_name":"mutant identification","score":0.6830000281333923},{"id":"https://openalex.org/keywords/arabidopsis","display_name":"Arabidopsis","score":0.7549999952316284},{"id":"https://openalex.org/keywords/experimental-design","display_name":"experimental design","score":0.593999981880188},{"id":"https://openalex.org/keywords/rice","display_name":"rice","score":0.9139999747276306},{"id":"https://openalex.org/keywords/barley","display_name":"barley","score":1.0},{"id":"https://openalex.org/keywords/de-novo-assembly","display_name":"de novo assembly","score":0.7310000061988831},{"id":"https://openalex.org/keywords/nik","display_name":"NIK","score":0.7379999756813049},{"id":"https://openalex.org/keywords/non-model-organisms","display_name":"non-model organisms","score":0.8109999895095825},{"id":"https://openalex.org/keywords/causal-mutation-identification","display_name":"causal mutation identification","score":0.6230000257492065}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6005690693855286},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.5897085070610046},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.5031184554100037},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.4935041666030884},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4820059835910797},{"id":"https://openalex.org/C134486438","wikidata":"https://www.wikidata.org/wiki/Q3123214","display_name":"Forward genetics","level":4,"score":0.47461143136024475},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.47404026985168457},{"id":"https://openalex.org/C16671776","wikidata":"https://www.wikidata.org/wiki/Q5420592","display_name":"Exome sequencing","level":4,"score":0.45693033933639526},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4554261267185211},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.42619356513023376},{"id":"https://openalex.org/C192953774","wikidata":"https://www.wikidata.org/wiki/Q7307127","display_name":"Reference genome","level":4,"score":0.412492960691452},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.33775925636291504},{"id":"https://openalex.org/C501734568","wikidata":"https://www.wikidata.org/wiki/Q42918","display_name":"Mutation","level":3,"score":0.2629283368587494},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16168248653411865},{"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/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:USBKOELN.ub.uni-koeln.de:5544","doi":null,"is_oa":false,"landing_page_url":"https://kups.ub.uni-koeln.de/5544/1/Final_V10_phDthesis.pdf","pdf_url":"https://kups.ub.uni-koeln.de/5544/1/Final_V10_phDthesis.pdf","source":{"id":"https://openalex.org/S4306400371","display_name":"K\u00f6lner Universit\u00e4ts PublikationsServer (Universit\u00e4t zu K\u00f6ln)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210115942","host_organization_name":"Rhenish Institute for Environmental Research","host_organization_lineage":["https://openalex.org/I4210115942"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"","raw_type":"doc-type:doctoralThesis"},{"id":"mag:52053104","doi":null,"is_oa":false,"landing_page_url":"http://kups.ub.uni-koeln.de/5544/1/Final_V10_phDthesis.pdf","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/2","score":0.6735000014305115,"display_name":"Zero hunger"}],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":170,"referenced_works":["https://openalex.org/W82223681","https://openalex.org/W1481679225","https://openalex.org/W1527392350","https://openalex.org/W1572357774","https://openalex.org/W1897974504","https://openalex.org/W1903350925","https://openalex.org/W1954777732","https://openalex.org/W1963624291","https://openalex.org/W1964436754","https://openalex.org/W1964570305","https://openalex.org/W1972171731","https://openalex.org/W1973408460","https://openalex.org/W1974824606","https://openalex.org/W1977097867","https://openalex.org/W1979590043","https://openalex.org/W1980563628","https://openalex.org/W1983258431","https://openalex.org/W1984471144","https://openalex.org/W1985471440","https://openalex.org/W1987527386","https://openalex.org/W1988447220","https://openalex.org/W1988929438","https://openalex.org/W1989568035","https://openalex.org/W1990188370","https://openalex.org/W1992550017","https://openalex.org/W1994145712","https://openalex.org/W1994576782","https://openalex.org/W1996447661","https://openalex.org/W1996547052","https://openalex.org/W1997405626","https://openalex.org/W1999102617","https://openalex.org/W2000372952","https://openalex.org/W2000450868","https://openalex.org/W2002632259","https://openalex.org/W2003865229","https://openalex.org/W2006991042","https://openalex.org/W2009791735","https://openalex.org/W2010361633","https://openalex.org/W2012331775","https://openalex.org/W2012986985","https://openalex.org/W2014055319","https://openalex.org/W2014704298","https://openalex.org/W2014994755","https://openalex.org/W2019180148","https://openalex.org/W2022316530","https://openalex.org/W2022685385","https://openalex.org/W2023267128","https://openalex.org/W2025302103","https://openalex.org/W2025836692","https://openalex.org/W2026228956","https://openalex.org/W2026299543","https://openalex.org/W2026699721","https://openalex.org/W2028101547","https://openalex.org/W2029217472","https://openalex.org/W2033810712","https://openalex.org/W2035422475","https://openalex.org/W2036056816","https://openalex.org/W2036620956","https://openalex.org/W2036648920","https://openalex.org/W2039013541","https://openalex.org/W2043520095","https://openalex.org/W2043621752","https://openalex.org/W2044109543","https://openalex.org/W2044805330","https://openalex.org/W2045071699","https://openalex.org/W2048613606","https://openalex.org/W2049759551","https://openalex.org/W2051710495","https://openalex.org/W2058198287","https://openalex.org/W2059223767","https://openalex.org/W2061616850","https://openalex.org/W2061918046","https://openalex.org/W2063985242","https://openalex.org/W2064300848","https://openalex.org/W2066431516","https://openalex.org/W2069577154","https://openalex.org/W2071347662","https://openalex.org/W2072715465","https://openalex.org/W2075436975","https://openalex.org/W2076124986","https://openalex.org/W2078393935","https://openalex.org/W2080693057","https://openalex.org/W2083759168","https://openalex.org/W2085714596","https://openalex.org/W2086372521","https://openalex.org/W2086454435","https://openalex.org/W2087464200","https://openalex.org/W2089386194","https://openalex.org/W2092390808","https://openalex.org/W2092779913","https://openalex.org/W2093141907","https://openalex.org/W2093176323","https://openalex.org/W2094292633","https://openalex.org/W2094334461","https://openalex.org/W2096128575","https://openalex.org/W2097927039","https://openalex.org/W2099211368","https://openalex.org/W2100362302","https://openalex.org/W2101021876","https://openalex.org/W2101166532","https://openalex.org/W2102843862","https://openalex.org/W2104311534","https://openalex.org/W2107494694","https://openalex.org/W2107915254","https://openalex.org/W2108146053","https://openalex.org/W2108786468","https://openalex.org/W2113280067","https://openalex.org/W2114342250","https://openalex.org/W2117335808","https://openalex.org/W2118140755","https://openalex.org/W2119264284","https://openalex.org/W2119951970","https://openalex.org/W2120048439","https://openalex.org/W2120381562","https://openalex.org/W2120658289","https://openalex.org/W2121531763","https://openalex.org/W2122390592","https://openalex.org/W2124715997","https://openalex.org/W2125111830","https://openalex.org/W2125346198","https://openalex.org/W2125575267","https://openalex.org/W2128605601","https://openalex.org/W2129264270","https://openalex.org/W2129561668","https://openalex.org/W2130001957","https://openalex.org/W2130175965","https://openalex.org/W2130656856","https://openalex.org/W2131016694","https://openalex.org/W2133956160","https://openalex.org/W2134275106","https://openalex.org/W2135664442","https://openalex.org/W2136651963","https://openalex.org/W2136826997","https://openalex.org/W2136942244","https://openalex.org/W2137797806","https://openalex.org/W2138270253","https://openalex.org/W2141088880","https://openalex.org/W2141165178","https://openalex.org/W2141550398","https://openalex.org/W2141572089","https://openalex.org/W2142976174","https://openalex.org/W2143674927","https://openalex.org/W2144000849","https://openalex.org/W2147665732","https://openalex.org/W2148764576","https://openalex.org/W2152047266","https://openalex.org/W2153488363","https://openalex.org/W2154701173","https://openalex.org/W2154858266","https://openalex.org/W2156125289","https://openalex.org/W2156296160","https://openalex.org/W2156622081","https://openalex.org/W2158386692","https://openalex.org/W2159474015","https://openalex.org/W2160164822","https://openalex.org/W2160444236","https://openalex.org/W2163614847","https://openalex.org/W2166187656","https://openalex.org/W2167034214","https://openalex.org/W2167315684","https://openalex.org/W2167737093","https://openalex.org/W2168082814","https://openalex.org/W2168133698","https://openalex.org/W2168440186","https://openalex.org/W2169085302","https://openalex.org/W2169398877","https://openalex.org/W2169773990","https://openalex.org/W2170747616","https://openalex.org/W3190371687","https://openalex.org/W7098838276"],"related_works":["https://openalex.org/W1572357774","https://openalex.org/W2765140506","https://openalex.org/W2950812596","https://openalex.org/W3093037163","https://openalex.org/W2976918870","https://openalex.org/W4383868596","https://openalex.org/W4366420399","https://openalex.org/W1484443730","https://openalex.org/W4404614578","https://openalex.org/W2785414207"],"abstract_inverted_index":{"Forward":[0],"genetic":[1,8,35,79,281],"screens":[2],"remain":[3],"one":[4],"of":[5,40,56,90,99,216,235,323,331],"the":[6,27,48,57,66,77,111,137,202,209,214,224,232,266,300,321,329],"main":[7],"tools":[9],"to":[10,68,174,227,238,294,319,328],"characterize":[11],"gene":[12,278,316],"functions":[13],"in":[14,18,33,135,190,200,204,246,265,272,339],"plants.":[15],"Recent":[16],"advances":[17],"Next":[19],"Generation":[20],"Sequencing":[21],"(NGS)":[22],"technology":[23],"have":[24,63,222,257,312],"greatly":[25],"reduced":[26],"time":[28],"required":[29],"for":[30,110,187],"mutant":[31],"identification":[32,51,55,330],"forward":[34],"screening.":[36],"The":[37],"major":[38],"advantage":[39],"NGS":[41],"enabled":[42],"mapping,":[43],"known":[44],"as":[45,84],"mapping-by-sequencing,":[46],"is":[47,125,206],"simultaneous":[49],"marker":[50],"and":[52,54,113,155,168,184,213,244,298],"genotyping":[53],"genomic":[58],"loci":[59],"causing":[60],"phenotypes.":[61],"We":[62,105,311],"been":[64,133],"among":[65],"first":[67],"show":[69],"that":[70,149,268],"mapping-by-sequencing":[71,119,124,182,188,193,338],"can":[72,150],"be":[73],"performed":[74],"even":[75],"within":[76],"same":[78,112],"background":[80],"using":[81,287],"mutagen-induced":[82],"changes":[83],"segregating":[85],"markers.":[86],"As":[87],"a":[88,95,107,197,259],"proof":[89],"this":[91],"concept,":[92],"we":[93,141,179,221,256],"mapped":[94],"previously":[96],"unknown":[97],"suppressor":[98],"like":[100],"heterochromatin":[101],"protein1":[102],"(lhp1)":[103],"mutant.":[104],"developed":[106,142,258],"computational":[108,144],"pipeline":[109,120,145],"integrated":[114],"it":[115],"into":[116],"an":[117],"existing":[118],"called":[121,146,262],"SHOREmap.":[122],"\\nThough":[123],"now":[126],"being":[127],"routinely":[128],"used,":[129],"less":[130],"effort":[131],"has":[132,194],"put":[134],"optimizing":[136],"experimental":[138,233],"set-up.":[139],"Therefore,":[140,220],"new":[143],"Pop-Seq":[147,177,225],"simulator":[148,178,226],"simulate":[151],"different":[152,181],"mapping":[153,251],"populations":[154],"sequencing":[156,271,292],"experiments.":[157],"It":[158],"simulates":[159],"recombinant":[160],"genomes":[161,286],"by":[162,208,306],"following":[163],"empirical":[164],"determined":[165],"recombination":[166],"frequency":[167],"landscape,":[169],"which":[170,247,325],"make":[171],"simulations":[172],"close":[173],"reality.":[175,254],"Using":[176],"simulated":[180],"scenarios":[183],"created":[185],"guidelines":[186],"experiments":[189],"Arabidopsis.":[191],"Although":[192],"already":[195],"become":[196],"standard":[198],"method":[199,261,335],"Arabidopsis,":[201],"application":[203],"crops":[205],"hindered":[207],"large":[210],"genome":[211,291],"sizes":[212],"lack":[215],"complete":[217],"reference":[218,276],"genomes.":[219],"used":[223,313],"extend":[228,299],"our":[229],"analysis":[230],"on":[231],"design":[234],"mapping-":[236],"by-sequencing":[237],"two":[239],"crop":[240],"model":[241],"species,":[242],"rice":[243],"barley,":[245],"next":[248],"generation":[249],"sequencing-based":[250],"becomes":[252],"tangible":[253],"Besides,":[255],"reference-free":[260],"NIKS":[263,283],"(needle":[264],"k-stack)":[267],"enables":[269],"mapping-by-":[270],"species":[273],"without":[274],"pre-assembled":[275],"sequence,":[277],"annotation,":[279],"or":[280],"map.":[282],"directly":[284],"compares":[285],"k-mers":[288],"from":[289],"whole":[290],"data":[293],"identify":[295],"homozygous":[296],"mutations":[297],"sequence":[301],"associated":[302],"with":[303],"mutation":[304],"site":[305],"local":[307],"de":[308],"novo":[309],"assembly.":[310],"ab":[314],"initio":[315],"structural":[317],"prediction":[318],"annotate":[320],"effect":[322],"mutations,":[324],"led":[326],"us":[327],"causal":[332],"mutation.":[333],"This":[334],"will":[336],"facilitate":[337],"non-model":[340],"species.":[341]},"counts_by_year":[{"year":2024,"cited_by_count":1}],"updated_date":"2026-11-08T12:12:28.789561","created_date":"2016-06-24T00:00:00"}