{"id":"https://openalex.org/W31386881","doi":"https://doi.org/10.1007/978-1-60761-444-9_23","title":"Managing Experimental Data Using FuGE","display_name":"Managing Experimental Data Using FuGE","publication_year":2009,"publication_date":"2009-12-05","ids":{"openalex":"https://openalex.org/W31386881","doi":"https://doi.org/10.1007/978-1-60761-444-9_23","mag":"31386881","pmid":"https://pubmed.ncbi.nlm.nih.gov/20013382"},"language":"en","primary_location":{"id":"doi:10.1007/978-1-60761-444-9_23","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-60761-444-9_23","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods in Molecular Biology","raw_type":"book-chapter"},"type":"article","indexed_in":["crossref","pubmed"],"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/A5073268875","display_name":"Andrew R. Jones","orcid":"https://orcid.org/0000-0001-6118-9327"},"institutions":[{"id":"https://openalex.org/I146655781","display_name":"University of Liverpool","ror":"https://ror.org/04xs57h96","country_code":"GB","type":"education","lineage":["https://openalex.org/I146655781"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Andrew R. Jones","raw_affiliation_strings":["Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, UK. andrew.jones@liv.ac.uk","Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, UK"],"affiliations":[{"raw_affiliation_string":"Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, UK. andrew.jones@liv.ac.uk","institution_ids":["https://openalex.org/I146655781"]},{"raw_affiliation_string":"Department of Pre-clinical Veterinary Science, Faculty of Veterinary Science, University of Liverpool, Liverpool, UK","institution_ids":["https://openalex.org/I146655781"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5087271600","display_name":"Allyson Lister","orcid":"https://orcid.org/0000-0002-7702-4495"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Allyson L. Lister","raw_affiliation_strings":["CISBAN and School of Computing Science, Newcastle University, Newcastle upon Tyne, UK"],"affiliations":[{"raw_affiliation_string":"CISBAN and School of Computing Science, Newcastle University, Newcastle upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5073268875"],"corresponding_institution_ids":["https://openalex.org/I146655781"],"apc_list":null,"apc_paid":null,"fwci":1.8763,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.86032233,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"604","issue":null,"first_page":"333","last_page":"343"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9970999956130981,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9970999956130981,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9965000152587891,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9916999936103821,"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/workflow","display_name":"Workflow","score":0.6032773852348328},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6019203662872314},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.48995867371559143},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4376230537891388},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.4333961606025696},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.33582186698913574},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.2783355116844177}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6032773852348328},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6019203662872314},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.48995867371559143},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4376230537891388},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.4333961606025696},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.33582186698913574},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.2783355116844177},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057188","descriptor_name":"Workflow","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1007/978-1-60761-444-9_23","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-1-60761-444-9_23","pdf_url":null,"source":{"id":"https://openalex.org/S4210172139","display_name":"Methods in molecular biology","issn_l":"1064-3745","issn":["1064-3745","1940-6029"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods in Molecular Biology","raw_type":"book-chapter"},{"id":"pmid:20013382","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20013382","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Methods in molecular biology (Clifton, N.J.)","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.5,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":20,"referenced_works":["https://openalex.org/W1963542257","https://openalex.org/W1979853788","https://openalex.org/W1995359657","https://openalex.org/W2007843173","https://openalex.org/W2028615859","https://openalex.org/W2042404226","https://openalex.org/W2046872827","https://openalex.org/W2047356598","https://openalex.org/W2068481474","https://openalex.org/W2087787518","https://openalex.org/W2097698606","https://openalex.org/W2111208057","https://openalex.org/W2113142309","https://openalex.org/W2113153354","https://openalex.org/W2137610621","https://openalex.org/W2140946052","https://openalex.org/W2154362705","https://openalex.org/W2161811833","https://openalex.org/W3105158995","https://openalex.org/W4253759977"],"related_works":["https://openalex.org/W1981780420","https://openalex.org/W2182707996","https://openalex.org/W45233828","https://openalex.org/W2964988449","https://openalex.org/W2397952901","https://openalex.org/W2029380707","https://openalex.org/W4255934811","https://openalex.org/W2465382974","https://openalex.org/W2010229520","https://openalex.org/W2547528905"],"abstract_inverted_index":{"Data":[0],"management":[1],"and":[2,23,28,55,78,111,118,140,184],"sharing":[3],"in":[4,145],"omics":[5,62],"science":[6],"is":[7,89,94,142],"highly":[8],"challenging":[9],"due":[10],"to":[11,43,155,164,180,188],"the":[12,18,29,127],"constant":[13],"evolution":[14],"of":[15,20,32,50,61,68,148,161],"experimental":[16,53,76,150,162],"techniques,":[17],"range":[19,160],"instrument":[21],"types":[22,163],"software":[24],"used":[25,144],"for":[26,47,58,75,83,100,108,112,134,175,185],"analysis,":[27],"high":[30],"volumes":[31],"data":[33,57,87,101,109,116,138,154,191],"produced.":[34],"The":[35],"Functional":[36],"Genomics":[37],"Experiment":[38],"(FuGE)":[39],"Model":[40],"was":[41],"created":[42],"provide":[44],"a":[45,72,81,146,159,172],"model":[46,92],"capturing":[48],"descriptions":[49],"sample":[51],"processing,":[52],"protocols":[54],"multidimensional":[56],"any":[59],"kind":[60],"experiment.":[63],"FuGE":[64,122],"has":[65,123],"two":[66],"modes":[67],"action:":[69],"(a)":[70],"as":[71,80],"storage":[73],"architecture":[74],"workflows":[77],"(b)":[79],"framework":[82],"building":[84,135],"new":[85,137,190],"technology-specific":[86],"standards.FuGE":[88],"an":[90,97],"object":[91],"that":[93],"converted":[95],"into":[96],"XML":[98,115],"implementation":[99],"exchange.":[102],"Software":[103],"toolkits":[104],"have":[105],"been":[106,124],"developed":[107],"handling":[110],"bridging":[113],"between":[114],"files":[117],"relational":[119],"database":[120],"implementations.":[121],"adopted":[125],"by":[126],"Proteomics":[128],"Standards":[129],"Initiative":[130],"(PSI,":[131],"http://www.psidev.info":[132],")":[133],"several":[136],"formats,":[139],"it":[141],"being":[143],"variety":[147],"other":[149],"contexts,":[151],"thus":[152],"allowing":[153],"be":[156],"integrated":[157],"across":[158],"support":[165],"Systems":[166],"Biology":[167],"approaches.":[168],"This":[169],"chapter":[170],"provides":[171],"practical":[173],"guide":[174],"laboratories":[176],"or":[177],"groups":[178],"wishing":[179,187],"manage":[181],"their":[182],"data,":[183],"developers":[186],"create":[189],"formats":[192],"using":[193],"FuGE.":[194]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}