{"id":"https://openalex.org/W838745153","doi":null,"title":"SubtilNet2, a functional interaction model for the validation of potential therapeutic targets","display_name":"SubtilNet2, a functional interaction model for the validation of potential therapeutic targets","publication_year":2010,"publication_date":"2010-01-01","ids":{"openalex":"https://openalex.org/W838745153","mag":"838745153"},"language":"en","primary_location":{"id":"pmh:hdl:10068/974976","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10068/974976","pdf_url":null,"source":{"id":"https://openalex.org/S4377196900","display_name":"OpenGrey (Institut de l'Information Scientifique et Technique)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1295345811","host_organization_name":"Institut de l'Information Scientifique et Technique","host_organization_lineage":["https://openalex.org/I1295345811"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"U - Thesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://hdl.handle.net/10068/974976","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5087273305","display_name":"Christopher Hawes","orcid":"https://orcid.org/0009-0007-7042-8298","observed_orcids":["https://orcid.org/0009-0007-7042-8298"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Christopher Hawes","raw_affiliation_strings":[],"raw_orcid":null,"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5087273305"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.510699987411499,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.510699987411499,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.14309999346733093,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.11789999902248383,"subfield":{"id":"https://openalex.org/subfields/3002","display_name":"Drug Discovery"},"field":{"id":"https://openalex.org/fields/30","display_name":"Pharmacology, Toxicology and Pharmaceutics"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/bacillus-subtilis","display_name":"Bacillus subtilis","score":0.8809999823570251},{"id":"https://openalex.org/keywords/functional-interaction-networks","display_name":"functional interaction networks","score":0.8650000095367432},{"id":"https://openalex.org/keywords/carbamoyl-phosphate-synthetase","display_name":"carbamoyl phosphate synthetase","score":0.9259999990463257},{"id":"https://openalex.org/keywords/arginine-biosynthesis","display_name":"arginine biosynthesis","score":0.847000002861023},{"id":"https://openalex.org/keywords/uracil-biosynthesis","display_name":"uracil biosynthesis","score":0.9800000190734863},{"id":"https://openalex.org/keywords/substrate-channeling","display_name":"substrate channeling","score":0.5740000009536743},{"id":"https://openalex.org/keywords/gene-interaction-prediction","display_name":"gene interaction prediction","score":0.3330000042915344},{"id":"https://openalex.org/keywords/biofilm-formation","display_name":"biofilm formation","score":0.43299999833106995},{"id":"https://openalex.org/keywords/biofilm-dispersion","display_name":"biofilm dispersal","score":0.4749999940395355}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.36978679895401},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3379781246185303},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23877304792404175}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:hdl:10068/974976","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10068/974976","pdf_url":null,"source":{"id":"https://openalex.org/S4377196900","display_name":"OpenGrey (Institut de l'Information Scientifique et Technique)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1295345811","host_organization_name":"Institut de l'Information Scientifique et Technique","host_organization_lineage":["https://openalex.org/I1295345811"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"U - Thesis"},{"id":"mag:838745153","doi":null,"is_oa":false,"landing_page_url":"https://theses.ncl.ac.uk/jspui/bitstream/10443/932/1/Hawes10.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":{"id":"pmh:hdl:10068/974976","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10068/974976","pdf_url":null,"source":{"id":"https://openalex.org/S4377196900","display_name":"OpenGrey (Institut de l'Information Scientifique et Technique)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1295345811","host_organization_name":"Institut de l'Information Scientifique et Technique","host_organization_lineage":["https://openalex.org/I1295345811"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"U - Thesis"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":189,"referenced_works":["https://openalex.org/W831047121","https://openalex.org/W931222270","https://openalex.org/W1489496471","https://openalex.org/W1496714136","https://openalex.org/W1501173863","https://openalex.org/W1513757583","https://openalex.org/W1519532587","https://openalex.org/W1536724064","https://openalex.org/W1542447053","https://openalex.org/W1542950758","https://openalex.org/W1543120839","https://openalex.org/W1546964392","https://openalex.org/W1575242129","https://openalex.org/W1589549294","https://openalex.org/W1592673326","https://openalex.org/W1596689072","https://openalex.org/W1598136901","https://openalex.org/W1664024105","https://openalex.org/W1774455118","https://openalex.org/W1811811248","https://openalex.org/W1867594499","https://openalex.org/W1926048579","https://openalex.org/W1952598685","https://openalex.org/W1963749370","https://openalex.org/W1965867796","https://openalex.org/W1969930741","https://openalex.org/W1970836666","https://openalex.org/W1971424582","https://openalex.org/W1971425971","https://openalex.org/W1971826720","https://openalex.org/W1975922954","https://openalex.org/W1976558919","https://openalex.org/W1977209720","https://openalex.org/W1978486653","https://openalex.org/W1981463334","https://openalex.org/W1982428412","https://openalex.org/W1984584417","https://openalex.org/W1985656270","https://openalex.org/W1988422871","https://openalex.org/W1989921625","https://openalex.org/W1991630988","https://openalex.org/W1991939977","https://openalex.org/W1995213405","https://openalex.org/W1996841857","https://openalex.org/W2000565132","https://openalex.org/W2002910306","https://openalex.org/W2005193715","https://openalex.org/W2005593959","https://openalex.org/W2006315372","https://openalex.org/W2006641920","https://openalex.org/W2007858891","https://openalex.org/W2008620264","https://openalex.org/W2009291347","https://openalex.org/W2009856735","https://openalex.org/W2010577059","https://openalex.org/W2012604733","https://openalex.org/W2015485532","https://openalex.org/W2022485917","https://openalex.org/W2022586166","https://openalex.org/W2024797223","https://openalex.org/W2024987979","https://openalex.org/W2025987130","https://openalex.org/W2027170650","https://openalex.org/W2027320565","https://openalex.org/W2028979517","https://openalex.org/W2029170726","https://openalex.org/W2032619610","https://openalex.org/W2032694615","https://openalex.org/W2033832729","https://openalex.org/W2034437917","https://openalex.org/W2036061629","https://openalex.org/W2036449301","https://openalex.org/W2042306120","https://openalex.org/W2042720547","https://openalex.org/W2046618236","https://openalex.org/W2048321694","https://openalex.org/W2053304303","https://openalex.org/W2053475634","https://openalex.org/W2053617234","https://openalex.org/W2055125047","https://openalex.org/W2057802070","https://openalex.org/W2057989817","https://openalex.org/W2059895225","https://openalex.org/W2064441783","https://openalex.org/W2070207525","https://openalex.org/W2075161553","https://openalex.org/W2076345755","https://openalex.org/W2083461294","https://openalex.org/W2085408716","https://openalex.org/W2085818775","https://openalex.org/W2085827128","https://openalex.org/W2086336732","https://openalex.org/W2087525887","https://openalex.org/W2088062845","https://openalex.org/W2091926965","https://openalex.org/W2092642545","https://openalex.org/W2094397891","https://openalex.org/W2097152121","https://openalex.org/W2098718762","https://openalex.org/W2099218915","https://openalex.org/W2100837269","https://openalex.org/W2101292724","https://openalex.org/W2102024801","https://openalex.org/W2102162073","https://openalex.org/W2103838923","https://openalex.org/W2106882534","https://openalex.org/W2107424557","https://openalex.org/W2108210068","https://openalex.org/W2110310164","https://openalex.org/W2112090702","https://openalex.org/W2112751888","https://openalex.org/W2113019448","https://openalex.org/W2115540019","https://openalex.org/W2116543222","https://openalex.org/W2116978291","https://openalex.org/W2117295165","https://openalex.org/W2117889142","https://openalex.org/W2118204420","https://openalex.org/W2120526231","https://openalex.org/W2123280311","https://openalex.org/W2123665978","https://openalex.org/W2123987803","https://openalex.org/W2124637492","https://openalex.org/W2125108253","https://openalex.org/W2125525657","https://openalex.org/W2127343778","https://openalex.org/W2130394726","https://openalex.org/W2132544714","https://openalex.org/W2133401281","https://openalex.org/W2133667940","https://openalex.org/W2133884639","https://openalex.org/W2134550904","https://openalex.org/W2135819136","https://openalex.org/W2135852491","https://openalex.org/W2136525080","https://openalex.org/W2136850043","https://openalex.org/W2138081694","https://openalex.org/W2138153039","https://openalex.org/W2139939149","https://openalex.org/W2141978471","https://openalex.org/W2142328419","https://openalex.org/W2142365163","https://openalex.org/W2143030117","https://openalex.org/W2143438199","https://openalex.org/W2143670813","https://openalex.org/W2143784594","https://openalex.org/W2144337101","https://openalex.org/W2144656637","https://openalex.org/W2146910275","https://openalex.org/W2148593013","https://openalex.org/W2149265860","https://openalex.org/W2151241390","https://openalex.org/W2153658859","https://openalex.org/W2154454968","https://openalex.org/W2154899683","https://openalex.org/W2155320925","https://openalex.org/W2155811384","https://openalex.org/W2156779720","https://openalex.org/W2158009703","https://openalex.org/W2158425675","https://openalex.org/W2158752477","https://openalex.org/W2159482845","https://openalex.org/W2159675211","https://openalex.org/W2159763094","https://openalex.org/W2159890578","https://openalex.org/W2161666752","https://openalex.org/W2161682775","https://openalex.org/W2161795499","https://openalex.org/W2162189298","https://openalex.org/W2163480486","https://openalex.org/W2164727176","https://openalex.org/W2166374078","https://openalex.org/W2166647166","https://openalex.org/W2166873510","https://openalex.org/W2167682860","https://openalex.org/W2168072049","https://openalex.org/W2169756968","https://openalex.org/W2171030481","https://openalex.org/W2171058937","https://openalex.org/W2230609785","https://openalex.org/W2328508543","https://openalex.org/W2402485684","https://openalex.org/W2403105432","https://openalex.org/W2486979918","https://openalex.org/W2770983033","https://openalex.org/W2949121335","https://openalex.org/W3122498613","https://openalex.org/W3148216104","https://openalex.org/W4296765338"],"related_works":["https://openalex.org/W3831991","https://openalex.org/W2152933096","https://openalex.org/W109818830","https://openalex.org/W1973355686","https://openalex.org/W2100242220","https://openalex.org/W113967363","https://openalex.org/W2133535738","https://openalex.org/W942051648","https://openalex.org/W2065126201","https://openalex.org/W80652278"],"abstract_inverted_index":{"Systems":[0,95,231],"Biology-":[1],"the":[2,38,79,124,147,196,199,208,242,260,270,291,315,318,334,370,376,413,420,482,522],"study":[3],"of":[4,8,28,42,51,83,105,128,171,198,244,249,262,311,347,372,378,396,423,442,475,484,487,492,521],"interactions":[5,183],"between":[6,251,375],"components":[7,387,494],"biological":[9,205,529],"systems,":[10],"and":[11,18,40,45,81,126,131,165,174,202,247,272,293,299,308,322,324,327,343,358,366,444,449,461,468,495],"how":[12],"these":[13,139,493],"can":[14],"produce":[15,23,464],"new":[16,35],"functions":[17],"behaviours,":[19],"is":[20,32,287,349,514],"beginning":[21],"to":[22,77,137,185,194,221,228,235,364,385,401,426,432,446,463,517],"a":[24,49,143,154,169,225,279,434,439,453,479,528],"more":[25,43,515],"comprehensive":[26],"understanding":[27],"biology.":[29],"Its":[30],"development":[31,41,80,125],"enabling":[33],"many":[34],"opportunities,":[36],"including":[37],"discovery":[39],"effective":[44],"targeted":[46,117],"therapeutics":[47],"for":[48,159,207,369,481],"range":[50,170],"different":[52],"conditions.":[53],"It":[54],"was":[55,121,163,192,219,233,256],"in":[56,70,91,268,305,337,352],"this":[57,60,229,312,513],"context":[58],"that":[59,73,110,133,286],"investigation":[61,120],"began,":[62],"with":[63,123,146,333,354,412,438,508],"focus":[64],"placed":[65],"upon":[66],"identifying":[67],"therapeutic":[68],"targets":[69,115],"Bacillus":[71],"subtilis":[72,109,298],"could":[74,111,134,409,419],"be":[75,135,222,399,410,430],"used":[76,136,234,288,400,431],"limit":[78],"spread":[82],"infection,":[84],"so":[85],"called":[86],"anti-infective":[87,114],"targets.":[88,141],"Using":[89],"an":[90,266],"silico":[92],"data":[93],"driven":[94,239],"Biology":[96,232],"approach,":[97],"our":[98],"industrial":[99],"collaborators,":[100],"e-":[101],"Therapeutics":[102],"predicted":[103,200,214],"pairs":[104],"genes":[106,316,336,424],"from":[107,168,519],"B.":[108,160,188,297],"act":[112],"as":[113,382,384],"when":[116,472],"together.":[118],"This":[119,190,255,345],"tasked":[122],"testing":[127,491],"experimental":[129,209],"models":[130],"approaches":[132,361],"validate":[138],"potential":[140],"In":[142],"separate":[144],"collaboration":[145],"Integrative":[148],"Bioinformatics":[149],"Group":[150],"at":[151],"Newcastle":[152],"University,":[153],"functional":[155,182,497],"interaction":[156,374,397],"network":[157,191],"model":[158],"subtilis-":[161],"SubtilNet2,":[162],"generated":[164],"tested.":[166],"Compiled":[167],"experimental,":[172],"bioinformatical":[173],"literature":[175],"based":[176],"sources,":[177],"it":[178,417],"represented":[179],"all":[180],"known":[181,184],"occur":[186],"within":[187,388,452],"subtilis.":[189],"applied":[193],"investigate":[195],"selection":[197],"targets,":[201],"determine":[203,402],"any":[204,373,501],"basis":[206],"results":[210],"seen.":[211],"A":[212,456],"single":[213,280,355,440],"target":[215],"acting":[216],"by":[217,258,289,406],"itself":[218],"confirmed":[220],"successful.":[223],"As":[224],"second":[226],"component":[227],"investigation,":[230],"complement":[236],"traditional":[237],"hypothesis":[238],"research,":[240],"specifically":[241],"possibility":[243],"directed":[245],"targeting":[246],"channelling":[248],"substrates":[250,451],"two":[252],"biosynthetic":[253,274,295,454],"pathways.":[254,275,296],"explored":[257],"studying":[259],"synthesis":[261],"carbamoyl":[263,282],"phosphate":[264,283],"(CP),":[265],"intermediate":[267],"both":[269,290],"arginine":[271,292,320],"uracil":[273,325],"Typically,":[276],"prokaryotes":[277],"encode":[278,433],"heterodimeric":[281],"synthetase":[284],"(CPS)":[285],"pyrimidine":[294],"its":[300],"close":[301],"relatives":[302],"are":[303,331],"unique":[304],"encoding":[306,317],"arginine-":[307],"uracil-specific":[309],"copies":[310],"enzyme.":[313],"Moreover,":[314],"respective":[319,339],"(carA":[321],"carB)":[323],"(pyrAA":[326],"pyrAB)":[328],"specific":[329,510],"CPSs":[330],"clustered":[332],"other":[335,386,450,469,485],"their":[338,496],"pathways":[340],"(e.g.":[341],"argC,J,B,D-carA,B-argF":[342],"pyrB,C,AA,AB,K,D,F,E)":[344],"degree":[346],"clustering":[348],"not":[350],"found":[351],"bacteria":[353],"CPSs.":[356],"Experimental":[357],"SubtilNet2":[359,490],"analysis":[360],"were":[362],"developed":[363],"express":[365],"individually":[367],"test":[368],"presence":[371,393,483],"subunits":[377,467],"each":[379,428,488],"systems":[380,505],"CPS\u2019s,":[381],"well":[383],"associated":[389,523],"gene":[390],"clusters.":[391],"The":[392],"or":[394,504],"absence":[395],"would":[398],"if":[403],"CP":[404,448],"produced":[405],"one":[407,476],"system":[408,509],"shared":[411],"opposite":[414],"system.":[415],"If":[416],"couldn\u2019t,":[418],"unusual":[421],"cluster":[422],"seen":[425],"surround":[427],"CPS":[429,466],"macromolecular":[435],"complex":[436],"structure":[437],"point":[441],"entry":[443],"exit":[445],"channel":[447],"system?":[455],"failure":[457],"despite":[458],"repeated":[459],"attempts":[460],"strategies":[462],"soluble":[465],"biosynthesis":[470],"proteins,":[471],"expressed":[473],"independently":[474],"another,":[477],"suggested":[478],"need":[480],"members":[486],"pathway.":[489],"associations":[498],"didn\u2019t":[499],"identify":[500],"distinct":[502],"groups":[503],"being":[506],"supplied":[507],"CP,":[511],"however":[512],"likely":[516],"result":[518],"limitations":[520],"approaches,":[524],"rather":[525],"than":[526],"genuine":[527],"property.":[530]},"counts_by_year":[],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}
