{"id":"https://openalex.org/W143398348","doi":null,"title":"Computational biology approaches for studying gene regulatory network discovery and modelling","display_name":"Computational biology approaches for studying gene regulatory network discovery and modelling","publication_year":2011,"publication_date":"2011-12-01","ids":{"openalex":"https://openalex.org/W143398348","mag":"143398348"},"language":"en","primary_location":{"id":"pmh:oai:etheses.bham.ac.uk:3039","doi":null,"is_oa":true,"landing_page_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","pdf_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","source":{"id":"https://openalex.org/S4306402357","display_name":"University of Birmingham Institutional Research Archive (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5064196651","display_name":"Rafik A. Salama","orcid":"https://orcid.org/0000-0001-5549-7796","observed_orcids":["https://orcid.org/0000-0001-5549-7796"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Rafik Salama","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-5549-7796","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5064196651"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9984999895095825,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9984999895095825,"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":0.00019999999494757503,"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":0.00019999999494757503,"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/gene-regulatory-networks","display_name":"gene regulatory networks","score":0.9750000238418579},{"id":"https://openalex.org/keywords/binding-site-prediction","display_name":"binding site prediction","score":0.8230000138282776},{"id":"https://openalex.org/keywords/binding-site-specificity","display_name":"binding site specificity","score":0.9850000143051147},{"id":"https://openalex.org/keywords/modeling-languages","display_name":"modeling languages","score":0.6859999895095825},{"id":"https://openalex.org/keywords/computer-simulation","display_name":"computer simulation","score":0.7170000076293945},{"id":"https://openalex.org/keywords/next-generation-sequencing-data","display_name":"next-generation sequencing data","score":0.5849999785423279}],"concepts":[{"id":"https://openalex.org/C67339327","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Gene regulatory network","level":4,"score":0.694922924041748},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6361823081970215},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6182478070259094},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.6133184432983398},{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.5215016007423401},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5190078020095825},{"id":"https://openalex.org/C66024118","wikidata":"https://www.wikidata.org/wiki/Q1122506","display_name":"Computational model","level":2,"score":0.4987773895263672},{"id":"https://openalex.org/C137866125","wikidata":"https://www.wikidata.org/wiki/Q4299308","display_name":"Modelling biological systems","level":3,"score":0.47436055541038513},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4726532995700836},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.42360052466392517},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.38596802949905396},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.372647225856781},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2614012658596039},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.22558185458183289},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10544061660766602},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.09677127003669739},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"pmh:oai:etheses.bham.ac.uk:3039","doi":null,"is_oa":true,"landing_page_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","pdf_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","source":{"id":"https://openalex.org/S4306402357","display_name":"University of Birmingham Institutional Research Archive (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},{"id":"pmh:hdl:10068/986593","doi":null,"is_oa":true,"landing_page_url":"http://hdl.handle.net/10068/986593","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":"pmh:oai:uilis.unsyiah.ac.id:47596","doi":null,"is_oa":false,"landing_page_url":"http://uilis.unsyiah.ac.id/opentheses/items/show/47596","pdf_url":null,"source":{"id":"https://openalex.org/S4377196378","display_name":"UPT. Syiah Kuala University Library (Syiah Kuala University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I187494767","host_organization_name":"Universitas Syiah Kuala","host_organization_lineage":["https://openalex.org/I187494767"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},{"id":"mag:143398348","doi":null,"is_oa":false,"landing_page_url":"http://etheses.bham.ac.uk/3039/","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:oai:etheses.bham.ac.uk:3039","doi":null,"is_oa":true,"landing_page_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","pdf_url":"http://etheses.bham.ac.uk/3039/1/Salama11PhD.pdf","source":{"id":"https://openalex.org/S4306402357","display_name":"University of Birmingham Institutional Research Archive (University of Birmingham)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I79619799","host_organization_name":"University of Birmingham","host_organization_lineage":["https://openalex.org/I79619799"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Thesis"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W143398348.pdf","grobid_xml":"https://content.openalex.org/works/W143398348.grobid-xml"},"referenced_works_count":187,"referenced_works":["https://openalex.org/W144423133","https://openalex.org/W180636104","https://openalex.org/W226855855","https://openalex.org/W277453423","https://openalex.org/W1482360569","https://openalex.org/W1486183464","https://openalex.org/W1495660511","https://openalex.org/W1500214331","https://openalex.org/W1502932049","https://openalex.org/W1507742524","https://openalex.org/W1515226261","https://openalex.org/W1519266993","https://openalex.org/W1553325587","https://openalex.org/W1567621547","https://openalex.org/W1578941595","https://openalex.org/W1587845087","https://openalex.org/W1592870802","https://openalex.org/W1595516773","https://openalex.org/W1647671624","https://openalex.org/W1868186886","https://openalex.org/W1917921565","https://openalex.org/W1940825484","https://openalex.org/W1964491374","https://openalex.org/W1964492114","https://openalex.org/W1964918240","https://openalex.org/W1966354073","https://openalex.org/W1974852595","https://openalex.org/W1977111586","https://openalex.org/W1979925723","https://openalex.org/W1980207389","https://openalex.org/W1981689204","https://openalex.org/W1982379208","https://openalex.org/W1982496832","https://openalex.org/W1983265703","https://openalex.org/W1984053739","https://openalex.org/W1985445406","https://openalex.org/W1985878503","https://openalex.org/W1986452936","https://openalex.org/W1986902849","https://openalex.org/W1989209344","https://openalex.org/W1989296116","https://openalex.org/W1998300401","https://openalex.org/W1999478182","https://openalex.org/W2000912174","https://openalex.org/W2001770641","https://openalex.org/W2002638840","https://openalex.org/W2002698073","https://openalex.org/W2002751193","https://openalex.org/W2003967338","https://openalex.org/W2004964623","https://openalex.org/W2006193162","https://openalex.org/W2009570821","https://openalex.org/W2009818318","https://openalex.org/W2010916267","https://openalex.org/W2012016911","https://openalex.org/W2015416439","https://openalex.org/W2016995298","https://openalex.org/W2023497813","https://openalex.org/W2025663053","https://openalex.org/W2026475190","https://openalex.org/W2028275878","https://openalex.org/W2028834893","https://openalex.org/W2032619610","https://openalex.org/W2034241086","https://openalex.org/W2037764264","https://openalex.org/W2038813318","https://openalex.org/W2039751039","https://openalex.org/W2040007286","https://openalex.org/W2040544622","https://openalex.org/W2042321087","https://openalex.org/W2047274781","https://openalex.org/W2047418394","https://openalex.org/W2048869777","https://openalex.org/W2049349724","https://openalex.org/W2049725457","https://openalex.org/W2053742104","https://openalex.org/W2054084843","https://openalex.org/W2054224564","https://openalex.org/W2055043387","https://openalex.org/W2057420075","https://openalex.org/W2064029360","https://openalex.org/W2065797343","https://openalex.org/W2067524083","https://openalex.org/W2068140368","https://openalex.org/W2074231493","https://openalex.org/W2077433900","https://openalex.org/W2079659879","https://openalex.org/W2082621456","https://openalex.org/W2086366527","https://openalex.org/W2086802511","https://openalex.org/W2087064593","https://openalex.org/W2089601499","https://openalex.org/W2090217909","https://openalex.org/W2094348523","https://openalex.org/W2097311877","https://openalex.org/W2097706568","https://openalex.org/W2097732720","https://openalex.org/W2101025813","https://openalex.org/W2102502076","https://openalex.org/W2102653059","https://openalex.org/W2103903744","https://openalex.org/W2103970715","https://openalex.org/W2104855667","https://openalex.org/W2104960492","https://openalex.org/W2109607376","https://openalex.org/W2110065044","https://openalex.org/W2110291136","https://openalex.org/W2110796675","https://openalex.org/W2113071089","https://openalex.org/W2113615173","https://openalex.org/W2115024759","https://openalex.org/W2116791963","https://openalex.org/W2117344541","https://openalex.org/W2117391818","https://openalex.org/W2117822125","https://openalex.org/W2118628540","https://openalex.org/W2118767738","https://openalex.org/W2119510512","https://openalex.org/W2120037909","https://openalex.org/W2120248467","https://openalex.org/W2120772351","https://openalex.org/W2124866579","https://openalex.org/W2124919568","https://openalex.org/W2124985974","https://openalex.org/W2125045287","https://openalex.org/W2125181285","https://openalex.org/W2125882871","https://openalex.org/W2126558916","https://openalex.org/W2126771369","https://openalex.org/W2127057035","https://openalex.org/W2127593441","https://openalex.org/W2128442209","https://openalex.org/W2129795133","https://openalex.org/W2130487814","https://openalex.org/W2131000278","https://openalex.org/W2131067724","https://openalex.org/W2131171155","https://openalex.org/W2131429754","https://openalex.org/W2131706188","https://openalex.org/W2132955708","https://openalex.org/W2136570298","https://openalex.org/W2138603354","https://openalex.org/W2139378708","https://openalex.org/W2140890018","https://openalex.org/W2141408320","https://openalex.org/W2141411672","https://openalex.org/W2142631293","https://openalex.org/W2143210482","https://openalex.org/W2143658931","https://openalex.org/W2144362290","https://openalex.org/W2144866873","https://openalex.org/W2145133452","https://openalex.org/W2145310126","https://openalex.org/W2145958237","https://openalex.org/W2146393977","https://openalex.org/W2147057508","https://openalex.org/W2147285856","https://openalex.org/W2147472054","https://openalex.org/W2148014281","https://openalex.org/W2148717533","https://openalex.org/W2151922790","https://openalex.org/W2151945801","https://openalex.org/W2152331922","https://openalex.org/W2155237411","https://openalex.org/W2155516053","https://openalex.org/W2155601193","https://openalex.org/W2156389165","https://openalex.org/W2156733952","https://openalex.org/W2157989234","https://openalex.org/W2159460389","https://openalex.org/W2160446587","https://openalex.org/W2160697532","https://openalex.org/W2162111678","https://openalex.org/W2162674813","https://openalex.org/W2166429927","https://openalex.org/W2168157737","https://openalex.org/W2169164761","https://openalex.org/W2170514389","https://openalex.org/W2223309411","https://openalex.org/W2229908198","https://openalex.org/W2237013739","https://openalex.org/W2412739660","https://openalex.org/W2528271650","https://openalex.org/W2765633603","https://openalex.org/W2916830745","https://openalex.org/W4410799177","https://openalex.org/W7020396449"],"related_works":["https://openalex.org/W1573602524","https://openalex.org/W1555339511","https://openalex.org/W2601498560","https://openalex.org/W2488201196","https://openalex.org/W2263346001","https://openalex.org/W2287507844","https://openalex.org/W1982998582","https://openalex.org/W937657080","https://openalex.org/W643085831","https://openalex.org/W182720481"],"abstract_inverted_index":{"The":[0,26],"advent":[1],"of":[2,28,74,96,106,117,142],"next":[3],"generation":[4],"sequencing":[5],"has":[6,37],"increased":[7],"the":[8,17,72,100,104,114,135,140,160,180],"gap":[9,36],"between":[10],"genome":[11],"sequence":[12,87],"data":[13],"and":[14,89,170,178],"knowledge,":[15],"enhancing":[16],"need":[18],"for":[19,51],"faster":[20],"means":[21],"to":[22,33,71,102,112,138,173],"fill":[23],"this":[24,35,64,121,156,190],"gap.":[25],"development":[27],"efficient":[29,171],"computational":[30,97,131,162],"biology":[31,98,163],"methods":[32],"handle":[34],"never":[38],"been":[39,48],"so":[40],"important.":[41],"Gene":[42],"regulatory":[43,76,108,176],"networks":[44],"in":[45,54,59,110,150,189],"particular":[46],"have":[47,153,183],"studied":[49],"widely":[50],"their":[52],"role":[53],"controlling":[55],"cellular":[56],"behaviour,":[57],"resulting":[58],"manifold":[60],"phenotypic":[61],"characteristics.":[62],"In":[63,120],"thesis,":[65,122],"I":[66,123,152],"present":[67],"novel":[68,184],"techniques":[69,164,172,181],"contributing":[70],"discovery":[73],"gene":[75,107,175],"network":[77],"connections,":[78],"through":[79,155],"enhanced":[80],"binding":[81,84,90],"site":[82,85,91],"prediction,":[83],"multiple":[86],"alignment":[88],"specificity.":[92],"Another":[93],"major":[94],"advantage":[95],"is":[99],"ability":[101],"simulate":[103],"behaviour":[105],"networks,":[109],"order":[111],"study":[113,174],"governing":[115],"dynamics":[116],"such":[118],"networks.":[119],"also":[124],"introduce":[125],"a":[126,144],"new":[127],"modelling":[128,132],"language":[129],"bringing":[130],"capabilities":[133],"into":[134],"biological":[136],"domain":[137],"simplify":[139],"process":[141],"writing":[143],"model":[145],"that":[146],"can":[147,165],"be":[148],"simulated":[149],"silico.":[151],"proved":[154],"work":[157],"that:":[158],"first,":[159],"devised":[161],"provide":[166],"cheap":[167],"yet":[168],"powerful":[169],"networks;":[177],"second,":[179],"presented":[182],"superiority":[185],"over":[186],"current":[187],"research":[188],"domain.":[191]},"counts_by_year":[],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}
