{"id":"https://openalex.org/W2162848674","doi":null,"title":"Predicting Function of Genes and Proteins from Sequence, Structure and Expression Data","display_name":"Predicting Function of Genes and Proteins from Sequence, Structure and Expression Data","publication_year":2004,"publication_date":"2004-01-01","ids":{"openalex":"https://openalex.org/W2162848674","mag":"2162848674"},"language":"en","primary_location":{"id":"pmh:oai:DiVA.org:uu-4490","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-4490","pdf_url":null,"source":{"id":"https://openalex.org/S4306402042","display_name":"Uppsala University Publications (Uppsala University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I123387679","host_organization_name":"Uppsala University","host_organization_lineage":["https://openalex.org/I123387679"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/doctoralThesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-4490","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5022568938","display_name":"Torgeir Rhoden Hvidsten","orcid":"https://orcid.org/0000-0001-6097-2539","observed_orcids":["https://orcid.org/0000-0001-6097-2539"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Torgeir R. Hvidsten","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-6097-2539","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5022568938"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":3,"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":0.8163999915122986,"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":0.8163999915122986,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.05490000173449516,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.03420000150799751,"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-function-prediction","display_name":"gene function prediction","score":0.828000009059906},{"id":"https://openalex.org/keywords/protein-function-prediction","display_name":"protein function prediction","score":0.9890000224113464},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene Ontology","score":0.8569999933242798},{"id":"https://openalex.org/keywords/if-then-rules","display_name":"if-then rules","score":0.8339999914169312},{"id":"https://openalex.org/keywords/gene-expression-regulation","display_name":"gene expression regulation","score":0.8389999866485596},{"id":"https://openalex.org/keywords/sequence-motifs","display_name":"sequence motifs","score":0.9509999752044678},{"id":"https://openalex.org/keywords/protein-fold-prediction","display_name":"protein fold prediction","score":0.8960000276565552},{"id":"https://openalex.org/keywords/molecular-function-prediction","display_name":"molecular function prediction","score":0.7289999723434448},{"id":"https://openalex.org/keywords/functional-genomics","display_name":"functional genomics","score":0.7319999933242798}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6915187239646912},{"id":"https://openalex.org/C161078062","wikidata":"https://www.wikidata.org/wiki/Q1068690","display_name":"Functional genomics","level":5,"score":0.6627519130706787},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.6237325668334961},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.622806191444397},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.530555248260498},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.492692768573761},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.4677550792694092},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.44150933623313904},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.42669761180877686},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.37310218811035156}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:DiVA.org:uu-4490","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-4490","pdf_url":null,"source":{"id":"https://openalex.org/S4306402042","display_name":"Uppsala University Publications (Uppsala University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I123387679","host_organization_name":"Uppsala University","host_organization_lineage":["https://openalex.org/I123387679"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/doctoralThesis"},{"id":"mag:2162848674","doi":null,"is_oa":false,"landing_page_url":"https://trhvidsten.com/docs/hvidsten_phd_thesis.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:oai:DiVA.org:uu-4490","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-4490","pdf_url":null,"source":{"id":"https://openalex.org/S4306402042","display_name":"Uppsala University Publications (Uppsala University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I123387679","host_organization_name":"Uppsala University","host_organization_lineage":["https://openalex.org/I123387679"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/doctoralThesis"},"sustainable_development_goals":[],"study_designs":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":112,"referenced_works":["https://openalex.org/W8010423","https://openalex.org/W109800668","https://openalex.org/W340465096","https://openalex.org/W567168298","https://openalex.org/W972074244","https://openalex.org/W1480376833","https://openalex.org/W1483505747","https://openalex.org/W1497619082","https://openalex.org/W1499231756","https://openalex.org/W1511153630","https://openalex.org/W1527722080","https://openalex.org/W1544923801","https://openalex.org/W1553701556","https://openalex.org/W1556472699","https://openalex.org/W1557923305","https://openalex.org/W1562282953","https://openalex.org/W1586476557","https://openalex.org/W1622441801","https://openalex.org/W1891724360","https://openalex.org/W1967053372","https://openalex.org/W1970156673","https://openalex.org/W1970472404","https://openalex.org/W1971403296","https://openalex.org/W1984539096","https://openalex.org/W1987678450","https://openalex.org/W1995945562","https://openalex.org/W1998261914","https://openalex.org/W2000231698","https://openalex.org/W2004975621","https://openalex.org/W2007490029","https://openalex.org/W2010222073","https://openalex.org/W2015642465","https://openalex.org/W2016339621","https://openalex.org/W2020541351","https://openalex.org/W2021639324","https://openalex.org/W2040924621","https://openalex.org/W2041711253","https://openalex.org/W2041956242","https://openalex.org/W2043329626","https://openalex.org/W2045119694","https://openalex.org/W2051895548","https://openalex.org/W2053818267","https://openalex.org/W2058879468","https://openalex.org/W2061327015","https://openalex.org/W2062649377","https://openalex.org/W2073727170","https://openalex.org/W2083339788","https://openalex.org/W2085277871","https://openalex.org/W2093717447","https://openalex.org/W2094613397","https://openalex.org/W2096525273","https://openalex.org/W2097064804","https://openalex.org/W2098487344","https://openalex.org/W2100471807","https://openalex.org/W2101842792","https://openalex.org/W2102794349","https://openalex.org/W2103017472","https://openalex.org/W2105801262","https://openalex.org/W2106066024","https://openalex.org/W2107538253","https://openalex.org/W2108067237","https://openalex.org/W2108420379","https://openalex.org/W2109001995","https://openalex.org/W2109619915","https://openalex.org/W2109970232","https://openalex.org/W2110041134","https://openalex.org/W2112440119","https://openalex.org/W2115159360","https://openalex.org/W2117549173","https://openalex.org/W2118567506","https://openalex.org/W2122665495","https://openalex.org/W2123485441","https://openalex.org/W2125508747","https://openalex.org/W2126602684","https://openalex.org/W2126975650","https://openalex.org/W2129748900","https://openalex.org/W2130280638","https://openalex.org/W2130479394","https://openalex.org/W2132094529","https://openalex.org/W2132166479","https://openalex.org/W2133111499","https://openalex.org/W2133657429","https://openalex.org/W2135338271","https://openalex.org/W2135951244","https://openalex.org/W2137683543","https://openalex.org/W2137786672","https://openalex.org/W2137810087","https://openalex.org/W2142460132","https://openalex.org/W2143011057","https://openalex.org/W2143885206","https://openalex.org/W2147556320","https://openalex.org/W2148474327","https://openalex.org/W2150627302","https://openalex.org/W2150926065","https://openalex.org/W2151709497","https://openalex.org/W2153187042","https://openalex.org/W2154106236","https://openalex.org/W2154139219","https://openalex.org/W2157825442","https://openalex.org/W2158714788","https://openalex.org/W2159511216","https://openalex.org/W2162142896","https://openalex.org/W2165011536","https://openalex.org/W2165054897","https://openalex.org/W2166022874","https://openalex.org/W2167190345","https://openalex.org/W2168157737","https://openalex.org/W2168909179","https://openalex.org/W2340020088","https://openalex.org/W2782267736","https://openalex.org/W2912934387","https://openalex.org/W4239620712"],"related_works":["https://openalex.org/W2168118433","https://openalex.org/W2496335338","https://openalex.org/W2170821091","https://openalex.org/W2128936012","https://openalex.org/W7097828314","https://openalex.org/W136778342","https://openalex.org/W7096309880","https://openalex.org/W2231238316","https://openalex.org/W172606426","https://openalex.org/W2134788911"],"abstract_inverted_index":{"Functional":[0],"genomics":[1,82],"refers":[2],"to":[3,42,80,136,176,208,218,222,253,265,283],"the":[4,65,68,84,111,142,191,228,231,267,277],"task":[5],"of":[6,19,22,67,86,93,114,120,140,144,152,161,170,194,204,233,247,250,271],"determining":[7],"gene":[8,33,132,195,234],"and":[9,15,27,32,53,59,90,116,124,184,224,264,287],"protein":[10,28,30,251,258,272,285],"function":[11,294],"for":[12,109,181],"whole":[13],"genomes,":[14],"requires":[16],"computational":[17],"analysis":[18,85],"large":[20],"amounts":[21],"biological":[23,88,94,126,147,156,179,238],"data":[24,52,89],"including":[25],"DNA":[26],"sequences,":[29],"structures":[31],"expressions.":[34],"Machine":[35],"learning":[36],"methods":[37],"provide":[38],"a":[39,106,244,261],"powerful":[40],"tool":[41],"this":[43,103],"end":[44],"by":[45,61,197],"first":[46,129],"inducing":[47,198],"general":[48],"models":[49,138,173,291],"from":[50,274,295],"such":[51],"already":[54],"characterized":[55,183],"genes":[56,115,145,209],"or":[57],"proteins":[58,117],"then":[60],"providing":[62,105],"hypotheses":[63,226],"on":[64,227],"functions":[66,123],"remaining,":[69],"uncharacterized":[70,185],"cases.":[71],"This":[72],"study":[73],"contains":[74],"four":[75],"parts":[76],"giving":[77],"novel":[78,245],"contributions":[79],"functional":[81],"through":[83],"different":[87,91],"aspects":[92],"functions.":[95],"Gene":[96],"Ontology":[97],"played":[98],"an":[99],"important":[100],"part":[101,130,189,242,279],"in":[102,118,146,164,236],"research":[104],"controlled":[107],"vocabulary":[108],"describing":[110],"cellular":[112],"roles":[113],"terms":[119],"specific":[121],"molecular":[122,293],"broad":[125],"processes.":[127,148],"The":[128,149,172,187,240],"used":[131,175,243,280],"expression":[133,165,212,235],"time":[134],"profiles":[135],"learn":[137],"capable":[139],"predicting":[141,292],"participation":[143],"model":[150],"consists":[151],"IF-THEN":[153,199,289],"rules":[154,200],"associating":[155,201],"processes":[157,180],"with":[158,210],"minimal":[159,202],"set":[160],"discrete":[162],"changes":[163],"level":[166,263],"over":[167],"limited":[168],"periods":[169],"time.":[171],"were":[174,216],"hypothesize":[177],"new":[178],"both":[182],"genes.":[186],"second":[188],"investigated":[190],"combinatorial":[192],"nature":[193],"regulation":[196,232],"combinations":[203,215],"sequence":[205,255],"motifs":[206],"common":[207],"similar":[211],"profiles.":[213],"Such":[214],"shown":[217],"be":[219],"significantly":[220],"correlated":[221],"function,":[223],"provided":[225],"mechanisms":[229],"behind":[230],"several":[237],"responses.":[239],"third":[241],"concept":[246],"local":[248,262,281],"descriptors":[249,282],"structure":[252,259,286],"investigate":[254],"patterns":[256],"governing":[257],"at":[260],"predict":[266],"topological":[268],"class":[269],"(fold)":[270],"domains":[273],"sequence.":[275],"Finally,":[276],"fourth":[278],"represent":[284],"induced":[288],"rule":[290],"structure.":[296]},"counts_by_year":[{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1}],"updated_date":"2026-11-03T10:50:19.383937","created_date":"2016-06-24T00:00:00"}