{"id":"https://openalex.org/W2160699382","doi":"https://doi.org/10.1093/bioinformatics/btn394","title":"Protein function prediction and annotation in an integrated environment powered by web services (AFAWE)","display_name":"Protein function prediction and annotation in an integrated environment powered by web services (AFAWE)","publication_year":2008,"publication_date":"2008-08-12","ids":{"openalex":"https://openalex.org/W2160699382","doi":"https://doi.org/10.1093/bioinformatics/btn394","mag":"2160699382","pmid":"https://pubmed.ncbi.nlm.nih.gov/18697771"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btn394","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn394","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/20/2393/16882649/btn394.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/24/20/2393/16882649/btn394.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5037892543","display_name":"Anika J\u00f6cker","orcid":null},"institutions":[{"id":"https://openalex.org/I4210141639","display_name":"Max Planck Institute for Plant Breeding Research","ror":"https://ror.org/044g3zk14","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210141639"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Anika J\u00f6cker","raw_affiliation_strings":["Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany"],"affiliations":[{"raw_affiliation_string":"Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany","institution_ids":["https://openalex.org/I4210141639"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5105529521","display_name":"Fabian Hoffmann","orcid":null},"institutions":[{"id":"https://openalex.org/I4210141639","display_name":"Max Planck Institute for Plant Breeding Research","ror":"https://ror.org/044g3zk14","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210141639"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Fabian Hoffmann","raw_affiliation_strings":["Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany"],"affiliations":[{"raw_affiliation_string":"Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany","institution_ids":["https://openalex.org/I4210141639"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082037957","display_name":"Andreas Groscurth","orcid":null},"institutions":[{"id":"https://openalex.org/I4210141639","display_name":"Max Planck Institute for Plant Breeding Research","ror":"https://ror.org/044g3zk14","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210141639"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Andreas Groscurth","raw_affiliation_strings":["Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany"],"affiliations":[{"raw_affiliation_string":"Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany","institution_ids":["https://openalex.org/I4210141639"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5068160155","display_name":"Heiko Schoof","orcid":"https://orcid.org/0000-0002-1527-3752"},"institutions":[{"id":"https://openalex.org/I4210141639","display_name":"Max Planck Institute for Plant Breeding Research","ror":"https://ror.org/044g3zk14","country_code":"DE","type":"facility","lineage":["https://openalex.org/I149899117","https://openalex.org/I4210141639"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Heiko Schoof","raw_affiliation_strings":["Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany"],"affiliations":[{"raw_affiliation_string":"Plant Computational Biology, Max Planck Institute for Plant Breeding Research, Carl-von-Linn\u00e9-Weg 10, 50829 Cologne, Germany","institution_ids":["https://openalex.org/I4210141639"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5068160155"],"corresponding_institution_ids":["https://openalex.org/I4210141639"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.5387,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.67207831,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"24","issue":"20","first_page":"2393","last_page":"2394"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9987000226974487,"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":0.9987000226974487,"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":0.9975000023841858,"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":0.9955999851226807,"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/annotation","display_name":"Annotation","score":0.8785537481307983},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8098199367523193},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7538846731185913},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.7319247126579285},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5759290456771851},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5433919429779053},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4442996382713318},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.441346138715744},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.43682801723480225},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.34194186329841614},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.34155869483947754},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3083958625793457},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.2688925266265869},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.15798547863960266},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.07738900184631348}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8785537481307983},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8098199367523193},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7538846731185913},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.7319247126579285},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5759290456771851},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5433919429779053},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4442996382713318},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.441346138715744},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.43682801723480225},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.34194186329841614},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.34155869483947754},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3083958625793457},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.2688925266265869},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.15798547863960266},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.07738900184631348},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C187736073","wikidata":"https://www.wikidata.org/wiki/Q2920921","display_name":"Management","level":1,"score":0.0},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D046913","descriptor_name":"Medicago truncatula","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D046913","descriptor_name":"Medicago truncatula","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D046913","descriptor_name":"Medicago truncatula","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btn394","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn394","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/20/2393/16882649/btn394.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:18697771","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18697771","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btn394","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btn394","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/24/20/2393/16882649/btn394.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2160699382.pdf","grobid_xml":"https://content.openalex.org/works/W2160699382.grobid-xml"},"referenced_works_count":8,"referenced_works":["https://openalex.org/W1947762817","https://openalex.org/W1999129612","https://openalex.org/W2042848740","https://openalex.org/W2068886104","https://openalex.org/W2103017472","https://openalex.org/W2107251251","https://openalex.org/W2147231162","https://openalex.org/W2168103533"],"related_works":["https://openalex.org/W151193258","https://openalex.org/W4247588490","https://openalex.org/W3210209121","https://openalex.org/W3165190053","https://openalex.org/W2160699382","https://openalex.org/W2999699891","https://openalex.org/W3095285701","https://openalex.org/W2916894319","https://openalex.org/W4294281692","https://openalex.org/W3214915308"],"abstract_inverted_index":{"Many":[0],"sequenced":[1],"genes":[2],"are":[3,80],"mainly":[4],"annotated":[5],"through":[6],"automatic":[7,64],"transfer":[8],"of":[9,16,35,41,53],"annotation":[10,56,120],"from":[11,21,110],"similar":[12],"sequences.":[13],"Manual":[14],"comparison":[15],"results":[17,20,70,109],"or":[18],"intermediate":[19],"different":[22,59],"tools":[23,44,60],"can":[24,90,127],"help":[25,105],"avoid":[26],"wrong":[27],"annotations":[28],"and":[29,61,67,89],"give":[30],"hints":[31],"to":[32,106,116,121,130],"the":[33,42,51,69,98],"function":[34,65],"a":[36,72],"gene":[37,123],"even":[38],"if":[39],"none":[40],"automated":[43],"could":[45],"return":[46],"any":[47],"result.":[48],"AFAWE":[49,85],"simplifies":[50],"task":[52],"manual":[54,119],"functional":[55],"by":[57],"running":[58],"workflows":[62],"for":[63],"prediction":[66],"displaying":[68],"in":[71],"way":[73],"that":[74],"facilitates":[75],"comparison.":[76],"Because":[77],"all":[78],"programs":[79],"executed":[81],"as":[82],"web":[83],"services,":[84],"is":[86,124],"easily":[87],"extensible":[88],"directly":[91],"query":[92],"primary":[93],"databases,":[94],"thereby":[95],"always":[96],"using":[97],"most":[99],"up-to-date":[100],"data":[101],"sources.":[102],"Visual":[103],"filters":[104],"distinguish":[107],"trustworthy":[108],"non-significant":[111],"results.":[112],"Furthermore,":[113],"an":[114],"interface":[115],"add":[117],"detailed":[118],"each":[122],"provided,":[125],"which":[126],"be":[128],"displayed":[129],"other":[131],"users.":[132]},"counts_by_year":[{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
