{"id":"https://openalex.org/W2072919660","doi":"https://doi.org/10.1186/1471-2105-12-282","title":"Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data","display_name":"Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data","publication_year":2011,"publication_date":"2011-07-12","ids":{"openalex":"https://openalex.org/W2072919660","doi":"https://doi.org/10.1186/1471-2105-12-282","mag":"2072919660","pmid":"https://pubmed.ncbi.nlm.nih.gov/21749710"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-12-282","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-282","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-12-282.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-12-282.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101067750","display_name":"David Lopez","orcid":null},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Lopez","raw_affiliation_strings":["Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025393610","display_name":"David Casero","orcid":"https://orcid.org/0000-0002-7347-3330"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Casero","raw_affiliation_strings":["Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038723467","display_name":"Shawn Cokus","orcid":null},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shawn J Cokus","raw_affiliation_strings":["Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052051439","display_name":"Sabeeha Merchant","orcid":"https://orcid.org/0000-0002-2594-509X"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sabeeha S Merchant","raw_affiliation_strings":["Department of Chemistry and Biochemistry, University of California, Los Angeles, CA, USA","Institute of Genomics and Proteomics, University of California, Los Angeles, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemistry and Biochemistry, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Institute of Genomics and Proteomics, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5011670317","display_name":"Matteo Pellegrini","orcid":"https://orcid.org/0000-0001-9355-9564"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Matteo Pellegrini","raw_affiliation_strings":["Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA","Institute of Genomics and Proteomics, University of California, Los Angeles, CA, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular, Cell, and Developmental Biology, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]},{"raw_affiliation_string":"Institute of Genomics and Proteomics, University of California, Los Angeles, CA, USA","institution_ids":["https://openalex.org/I161318765"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5011670317"],"corresponding_institution_ids":["https://openalex.org/I161318765"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":4.3676,"has_fulltext":true,"cited_by_count":96,"citation_normalized_percentile":{"value":0.95594178,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"12","issue":"1","first_page":"282","last_page":"282"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.3840999901294708,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.3840999901294708,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.30570000410079956,"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/T10476","display_name":"Algal biology and biofuel production","score":0.08470000326633453,"subfield":{"id":"https://openalex.org/subfields/2105","display_name":"Renewable Energy, Sustainability and the Environment"},"field":{"id":"https://openalex.org/fields/21","display_name":"Energy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.8106898069381714},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6404561996459961},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.5460680723190308},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.5147695541381836},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5139672160148621},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.470192551612854},{"id":"https://openalex.org/keywords/gene-nomenclature","display_name":"Gene nomenclature","score":0.4670996069908142},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4441155195236206},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.43564850091934204},{"id":"https://openalex.org/keywords/genome-browser","display_name":"Genome browser","score":0.42239925265312195},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4060988128185272},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3438902497291565},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3341146409511566},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.22690391540527344},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19408288598060608}],"concepts":[{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.8106898069381714},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6404561996459961},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.5460680723190308},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.5147695541381836},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5139672160148621},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.470192551612854},{"id":"https://openalex.org/C62177273","wikidata":"https://www.wikidata.org/wiki/Q5531556","display_name":"Gene nomenclature","level":4,"score":0.4670996069908142},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4441155195236206},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.43564850091934204},{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.42239925265312195},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4060988128185272},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3438902497291565},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3341146409511566},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.22690391540527344},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19408288598060608},{"id":"https://openalex.org/C58642233","wikidata":"https://www.wikidata.org/wiki/Q8269924","display_name":"Taxonomy (biology)","level":2,"score":0.0},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C514705636","wikidata":"https://www.wikidata.org/wiki/Q863247","display_name":"Nomenclature","level":3,"score":0.0}],"mesh":[{"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":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015870","descriptor_name":"Gene Expression","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016825","descriptor_name":"Chlamydomonas reinhardtii","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016825","descriptor_name":"Chlamydomonas reinhardtii","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016825","descriptor_name":"Chlamydomonas reinhardtii","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D017360","descriptor_name":"Arabidopsis","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D056890","descriptor_name":"Eukaryota","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/1471-2105-12-282","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-282","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-12-282.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21749710","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21749710","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:qt6zm9j7bj","is_oa":true,"landing_page_url":"http://www.escholarship.org/uc/item/6zm9j7bj","pdf_url":"https://escholarship.org/content/qt6zm9j7bj/qt6zm9j7bj.pdf","source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Lopez, David; Casero, David; Cokus, Shawn J; Merchant, Sabeeha S; & Pellegrini, Matteo. (2011). Algal Functional Annotation Tool: a web-based analysis suite to functionally interpret large gene lists using integrated annotation and expression data. BMC Bioinformatics, 12(1), 282. doi: http://dx.doi.org/10.1186/1471-2105-12-282. Retrieved from: http://www.escholarship.org/uc/item/6zm9j7bj","raw_type":"article"},{"id":"pmh:oai:europepmc.org:2149373","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3144025","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:1dbd59eb84084031a09b980979370693","is_oa":true,"landing_page_url":"https://doaj.org/article/1dbd59eb84084031a09b980979370693","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 12, Iss 1, p 282 (2011)","raw_type":"article"},{"id":"pmh:oai:escholarship.org/ark:/13030/qt6zm9j7bj","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/6zm9j7bj","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, vol 12, iss 1","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-12-282","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-12-282","pdf_url":"https://link.springer.com/content/pdf/10.1186/1471-2105-12-282.pdf","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2355553396","display_name":null,"funder_award_id":"T32\u2010HG002536","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G6731714733","display_name":"TAS::89 0331::TAS RECOVERY    RECOVERY ACT: 'NATIONAL ALLIANCE FOR ADVANCED BIOFUELS AND BIOPRODUCTS - AN ALGAL BIOFUELS RESEARCH CONSORTIUM'","funder_award_id":"DEEE0003046","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2072919660.pdf","grobid_xml":"https://content.openalex.org/works/W2072919660.grobid-xml"},"referenced_works_count":34,"referenced_works":["https://openalex.org/W50788907","https://openalex.org/W63353829","https://openalex.org/W1965164276","https://openalex.org/W1965951894","https://openalex.org/W1986662234","https://openalex.org/W1999895438","https://openalex.org/W2003302159","https://openalex.org/W2017983350","https://openalex.org/W2021795499","https://openalex.org/W2029797853","https://openalex.org/W2050058926","https://openalex.org/W2050980391","https://openalex.org/W2098425296","https://openalex.org/W2103017472","https://openalex.org/W2108038959","https://openalex.org/W2110113352","https://openalex.org/W2116423958","https://openalex.org/W2120780572","https://openalex.org/W2122437201","https://openalex.org/W2123550792","https://openalex.org/W2128601422","https://openalex.org/W2133465414","https://openalex.org/W2135122666","https://openalex.org/W2137355204","https://openalex.org/W2138182334","https://openalex.org/W2139582820","https://openalex.org/W2141885858","https://openalex.org/W2143394831","https://openalex.org/W2155360453","https://openalex.org/W2155606054","https://openalex.org/W2158217645","https://openalex.org/W2162290777","https://openalex.org/W2171437346","https://openalex.org/W6681765588"],"related_works":["https://openalex.org/W3034139913","https://openalex.org/W2146014453","https://openalex.org/W2042690128","https://openalex.org/W3111061871","https://openalex.org/W4309908782","https://openalex.org/W2898598946","https://openalex.org/W2034579486","https://openalex.org/W1814949048","https://openalex.org/W2118704022","https://openalex.org/W4234176501"],"abstract_inverted_index":{"BACKGROUND:":[0],"Progress":[1],"in":[2,35,147,215],"genome":[3,43,160],"sequencing":[4],"is":[5,28,68,135,186,270,318,343],"proceeding":[6],"at":[7,346],"an":[8,252,298],"exponential":[9],"pace,":[10],"and":[11,56,116,154,199,214,236,248,284,327],"several":[12,93,104,126,196,243],"new":[13],"algal":[14,159,177,303],"genomes":[15,37],"are":[16,53],"becoming":[17],"available":[18,137,345],"every":[19],"year.":[20],"One":[21],"of":[22,31,64,71,77,121,141,152,157,176,278,324,330],"the":[23,26,29,36,69,139,155,173,209,216,322,328],"challenges":[24],"facing":[25],"community":[27],"association":[30],"protein":[32,50,200],"sequences":[33],"encoded":[34],"with":[38],"biological":[39,95,119],"function.":[40],"While":[41,125],"most":[42],"assembly":[44],"projects":[45],"generate":[46],"annotations":[47,72],"for":[48,132,138,167,208,242,260,302],"predicted":[49],"sequences,":[51,161],"they":[52],"usually":[54],"limited":[55,62],"integrate":[57,110],"functional":[58,114,234,325],"terms":[59],"from":[60,112,195,308,337],"a":[61,99,162,169,187,313],"number":[63],"databases.":[65,202],"Another":[66],"challenge":[67],"use":[70],"to":[73,89,144,171,226,250,258,296,320],"interpret":[74,227],"large":[75,122,228],"lists":[76,87,230],"'interesting'":[78],"genes":[79,262,279],"generated":[80],"by":[81,231,305],"genome-scale":[82],"datasets.":[83],"Previously,":[84],"these":[85,268],"gene":[86,123,229,265,286,331],"had":[88],"be":[90],"analyzed":[91,249],"across":[92,267],"independent":[94],"databases,":[96,106],"often":[97],"on":[98,264,280],"gene-by-gene":[100],"basis.":[101],"In":[102],"contrast,":[103],"annotation":[105,193,207,310,326],"such":[107,127,168,333],"as":[108,149,334],"DAVID,":[109],"data":[111,194,241,307],"multiple":[113,158,309],"databases":[115,128,311],"reveal":[117],"underlying":[118],"themes":[120],"lists.":[124],"have":[129],"been":[130],"constructed":[131],"animals,":[133],"none":[134],"currently":[136],"study":[140],"algae.":[142],"Due":[143],"renewed":[145],"interest":[146],"algae":[148],"potential":[150],"sources":[151],"biofuels":[153],"emergence":[156],"significant":[163],"need":[164],"has":[165],"arisen":[166],"database":[170],"process":[172,323],"growing":[174],"compendiums":[175],"genomic":[178],"data.":[179],"DESCRIPTION:":[180],"The":[181,203,222,290,341],"Algal":[182,291],"Functional":[183,292],"Annotation":[184,293],"Tool":[185,294],"web-based":[188],"comprehensive":[189],"analysis":[190],"suite":[191],"integrating":[192],"pathway,":[197],"ontology,":[198],"family":[201],"current":[204],"version":[205],"provides":[206],"model":[210],"alga":[211],"Chlamydomonas":[212],"reinhardtii,":[213],"future":[217],"will":[218],"include":[219,275],"additional":[220],"genomes.":[221],"site":[223,317],"allows":[224],"users":[225],"identifying":[232],"associated":[233],"terms,":[235],"their":[237],"enrichment.":[238],"Additionally,":[239],"expression":[240,266],"experimental":[244],"conditions":[245,269],"were":[246],"compiled":[247],"provide":[251,297],"expression-based":[253],"enrichment":[254],"search.":[255],"A":[256],"tool":[257,342],"search":[259],"functionally-related":[261],"based":[263],"also":[271],"provided.":[272],"Other":[273],"features":[274],"dynamic":[276],"visualization":[277],"KEGG":[281],"pathway":[282],"maps":[283],"batch":[285],"identifier":[287],"conversion.":[288],"CONCLUSIONS:":[289],"aims":[295],"integrated":[299],"data-mining":[300],"environment":[301],"genomics":[304],"combining":[306],"into":[312],"centralized":[314],"tool.":[315],"This":[316],"designed":[319],"expedite":[321],"interpretation":[329],"lists,":[332],"those":[335],"derived":[336],"high-throughput":[338],"RNA-seq":[339],"experiments.":[340],"publicly":[344],"http://pathways.mcdb.ucla.edu.":[347]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":7},{"year":2016,"cited_by_count":11},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":12},{"year":2013,"cited_by_count":10},{"year":2012,"cited_by_count":14}],"updated_date":"2026-08-18T07:49:30.821534","created_date":"2025-10-10T00:00:00"}