{"id":"https://openalex.org/W4225972003","doi":"https://doi.org/10.1186/s12859-022-04639-5","title":"ALGAEFUN with MARACAS, microALGAE FUNctional enrichment tool for MicroAlgae RnA-seq and Chip-seq AnalysiS","display_name":"ALGAEFUN with MARACAS, microALGAE FUNctional enrichment tool for MicroAlgae RnA-seq and Chip-seq AnalysiS","publication_year":2022,"publication_date":"2022-03-31","ids":{"openalex":"https://openalex.org/W4225972003","doi":"https://doi.org/10.1186/s12859-022-04639-5","pmid":"https://pubmed.ncbi.nlm.nih.gov/35361110"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-022-04639-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-04639-5","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04639-5","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://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04639-5","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5075560030","display_name":"Ana B. Romero\u2013Losada","orcid":"https://orcid.org/0000-0003-4073-3631"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210142936","display_name":"Centro de Investigaciones Cient\u00edficas Isla de la Cartuja","ror":"https://ror.org/05343aa75","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210142936"]},{"id":"https://openalex.org/I79238269","display_name":"Universidad de Sevilla","ror":"https://ror.org/03yxnpp24","country_code":"ES","type":"education","lineage":["https://openalex.org/I79238269"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Ana B. Romero-Losada","raw_affiliation_strings":["Department of Computer Science and Artificial Intelligence, University of Sevilla, Escuela T\u00e9cnica Superior en Ingenier\u00eda Inform\u00e1tica, Avenida Reina Mercedes s/n, 41012, Seville, Spain","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Artificial Intelligence, University of Sevilla, Escuela T\u00e9cnica Superior en Ingenier\u00eda Inform\u00e1tica, Avenida Reina Mercedes s/n, 41012, Seville, Spain","institution_ids":["https://openalex.org/I79238269"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I4210142936"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210142936","https://openalex.org/I79238269"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056596028","display_name":"Christina Arvanitidou","orcid":"https://orcid.org/0000-0003-4092-0365"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210142936","display_name":"Centro de Investigaciones Cient\u00edficas Isla de la Cartuja","ror":"https://ror.org/05343aa75","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210142936"]},{"id":"https://openalex.org/I79238269","display_name":"Universidad de Sevilla","ror":"https://ror.org/03yxnpp24","country_code":"ES","type":"education","lineage":["https://openalex.org/I79238269"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Christina Arvanitidou","raw_affiliation_strings":["Department of Computer Science and Artificial Intelligence, University of Sevilla, Escuela T\u00e9cnica Superior en Ingenier\u00eda Inform\u00e1tica, Avenida Reina Mercedes s/n, 41012, Seville, Spain","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Artificial Intelligence, University of Sevilla, Escuela T\u00e9cnica Superior en Ingenier\u00eda Inform\u00e1tica, Avenida Reina Mercedes s/n, 41012, Seville, Spain","institution_ids":["https://openalex.org/I79238269"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I4210142936"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210142936","https://openalex.org/I79238269"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103199593","display_name":"Pedro de los Reyes","orcid":"https://orcid.org/0000-0002-7725-3087"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210142936","display_name":"Centro de Investigaciones Cient\u00edficas Isla de la Cartuja","ror":"https://ror.org/05343aa75","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210142936"]},{"id":"https://openalex.org/I79238269","display_name":"Universidad de Sevilla","ror":"https://ror.org/03yxnpp24","country_code":"ES","type":"education","lineage":["https://openalex.org/I79238269"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Pedro de los Reyes","raw_affiliation_strings":["Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I4210142936"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210142936","https://openalex.org/I79238269"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074352546","display_name":"Mercedes Garc\u00eda\u2010Gonz\u00e1lez","orcid":"https://orcid.org/0000-0003-0375-8493"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210142936","display_name":"Centro de Investigaciones Cient\u00edficas Isla de la Cartuja","ror":"https://ror.org/05343aa75","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210142936"]},{"id":"https://openalex.org/I79238269","display_name":"Universidad de Sevilla","ror":"https://ror.org/03yxnpp24","country_code":"ES","type":"education","lineage":["https://openalex.org/I79238269"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Mercedes Garc\u00eda-Gonz\u00e1lez","raw_affiliation_strings":["Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I4210142936"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210142936","https://openalex.org/I79238269"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021627857","display_name":"Francisco J. Romero\u2013Campero","orcid":"https://orcid.org/0000-0001-9834-030X"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"government","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210142936","display_name":"Centro de Investigaciones Cient\u00edficas Isla de la Cartuja","ror":"https://ror.org/05343aa75","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210142936"]},{"id":"https://openalex.org/I79238269","display_name":"Universidad de Sevilla","ror":"https://ror.org/03yxnpp24","country_code":"ES","type":"education","lineage":["https://openalex.org/I79238269"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Francisco J. Romero-Campero","raw_affiliation_strings":["Department of Computer Science and Artificial Intelligence, University of Sevilla, Escuela T\u00e9cnica Superior en Ingenier\u00eda Inform\u00e1tica, Avenida Reina Mercedes s/n, 41012, Seville, Spain. fran@us.es","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain. fran@us.es","Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain"],"raw_orcid":"https://orcid.org/0000-0001-9834-030X","affiliations":[{"raw_affiliation_string":"Department of Computer Science and Artificial Intelligence, University of Sevilla, Escuela T\u00e9cnica Superior en Ingenier\u00eda Inform\u00e1tica, Avenida Reina Mercedes s/n, 41012, Seville, Spain. fran@us.es","institution_ids":["https://openalex.org/I79238269"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla - Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain. fran@us.es","institution_ids":["https://openalex.org/I4210142936"]},{"raw_affiliation_string":"Institute for Plant Biochemistry and Photosynthesis, Universidad de Sevilla \u2013 Consejo Superior de Investigaciones Cient\u00edficas, Centro de Investigaciones Cient\u00edficas Isla de La Cartuja, Avenida Am\u00e9rico Vespucio 49, 41092, Seville, Spain","institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210142936","https://openalex.org/I79238269"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5021627857"],"corresponding_institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210142936","https://openalex.org/I79238269"],"apc_list":{"value":2690,"currency":"USD","value_usd":2690},"apc_paid":{"value":2690,"currency":"USD","value_usd":2690},"fwci":0.4022,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.46845766,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"23","issue":"1","first_page":"113","last_page":"113"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10476","display_name":"Algal biology and biofuel production","score":0.9090999960899353,"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"}},"topics":[{"id":"https://openalex.org/T10476","display_name":"Algal biology and biofuel production","score":0.9090999960899353,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.013199999928474426,"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/T10236","display_name":"Aquatic Ecosystems and Phytoplankton Dynamics","score":0.006200000178068876,"subfield":{"id":"https://openalex.org/subfields/2304","display_name":"Environmental Chemistry"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.8117368221282959},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.639327347278595},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47233572602272034},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.36139732599258423},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3613132834434509},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.28570953011512756},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15902596712112427},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.14068996906280518},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.10931241512298584}],"concepts":[{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.8117368221282959},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.639327347278595},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47233572602272034},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.36139732599258423},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3613132834434509},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.28570953011512756},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15902596712112427},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.14068996906280518},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.10931241512298584}],"mesh":[{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081204","descriptor_name":"Chromatin Immunoprecipitation Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000081246","descriptor_name":"RNA-Seq","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":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058086","descriptor_name":"Microalgae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D058086","descriptor_name":"Microalgae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D058086","descriptor_name":"Microalgae","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1186/s12859-022-04639-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-04639-5","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04639-5","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:35361110","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/35361110","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":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8973887","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8973887","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:digital.csic.es:10261/364225","is_oa":true,"landing_page_url":"http://hdl.handle.net/10261/364225","pdf_url":null,"source":{"id":"https://openalex.org/S4306400616","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"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":"","raw_type":"art\u00edculo"},{"id":"pmh:oai:doaj.org/article:297d6c6369f1495da31428e28c93c4c6","is_oa":false,"landing_page_url":"https://doaj.org/article/297d6c6369f1495da31428e28c93c4c6","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 23, Iss 1, Pp 1-15 (2022)","raw_type":"article"},{"id":"pmh:oai:idus.us.es:11441/131925","is_oa":true,"landing_page_url":"https://hdl.handle.net/11441/131925","pdf_url":null,"source":{"id":"https://openalex.org/S4306401665","display_name":"Deposito de Investigacion Universidad de Sevilla (University of Seville)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I79238269","host_organization_name":"Universidad de Sevilla","host_organization_lineage":["https://openalex.org/I79238269"],"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":null,"raw_type":"journal article"}],"best_oa_location":{"id":"doi:10.1186/s12859-022-04639-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-022-04639-5","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-022-04639-5","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":[{"score":0.7699999809265137,"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger"}],"awards":[{"id":"https://openalex.org/G6380632210","display_name":null,"funder_award_id":"BIO2017-84066-R","funder_id":"https://openalex.org/F4320322930","funder_display_name":"Ministerio de Ciencia e Innovaci\u00f3n"}],"funders":[{"id":"https://openalex.org/F4320322930","display_name":"Ministerio de Ciencia e Innovaci\u00f3n","ror":"https://ror.org/034900433"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4225972003.pdf","grobid_xml":"https://content.openalex.org/works/W4225972003.grobid-xml"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W33885457","https://openalex.org/W1985426628","https://openalex.org/W2021795499","https://openalex.org/W2037045595","https://openalex.org/W2063647527","https://openalex.org/W2065702910","https://openalex.org/W2071783223","https://openalex.org/W2072919660","https://openalex.org/W2098425296","https://openalex.org/W2102652793","https://openalex.org/W2110256992","https://openalex.org/W2116041602","https://openalex.org/W2118258530","https://openalex.org/W2120729838","https://openalex.org/W2120807642","https://openalex.org/W2123550792","https://openalex.org/W2131478115","https://openalex.org/W2133579817","https://openalex.org/W2139874678","https://openalex.org/W2141224543","https://openalex.org/W2141292707","https://openalex.org/W2146512944","https://openalex.org/W2162290777","https://openalex.org/W2170551349","https://openalex.org/W2170830174","https://openalex.org/W2171808845","https://openalex.org/W2284174360","https://openalex.org/W2294098372","https://openalex.org/W2323326409","https://openalex.org/W2345673981","https://openalex.org/W2510875395","https://openalex.org/W2611604995","https://openalex.org/W2613304904","https://openalex.org/W2765353327","https://openalex.org/W2907138919","https://openalex.org/W2950595506","https://openalex.org/W2983671856","https://openalex.org/W2991646398","https://openalex.org/W3010228510","https://openalex.org/W3033787078","https://openalex.org/W3044053934","https://openalex.org/W3094399674","https://openalex.org/W3100584158","https://openalex.org/W3111510690","https://openalex.org/W3128934591","https://openalex.org/W3155977634","https://openalex.org/W3158561610","https://openalex.org/W3175752499","https://openalex.org/W6602019454"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W1971568933","https://openalex.org/W1971332228"],"abstract_inverted_index":{"BACKGROUND:":[0],"Microalgae":[1],"are":[2,34,80,264,303],"emerging":[3],"as":[4,45,138,188,190,201,257,259],"promising":[5],"sustainable":[6],"sources":[7],"for":[8,67,165,270,281],"biofuels,":[9],"biostimulants":[10],"in":[11,94,97,308],"agriculture,":[12],"soil":[13],"bioremediation,":[14],"feed":[15],"and":[16,26,110,128,167,215,242,266,298,314],"human":[17],"nutrients.":[18],"Nonetheless,":[19],"the":[20,27,39,62,82,204,224,228,244,247,255,282,288,309],"molecular":[21],"mechanisms":[22],"underpinning":[23],"microalgae":[24,42,54,74,98,151,283],"physiology":[25],"biosynthesis":[28],"of":[29,31,41,50,64,84,89,120,156,162,192,230,238,246,254,290,311],"compounds":[30],"biotechnological":[32],"interest":[33],"largely":[35],"uncharacterized.":[36],"This":[37],"hinders":[38],"development":[40],"full":[43],"potential":[44,239],"cell-factories.":[46],"The":[47,87],"recent":[48],"application":[49,180],"omics":[51,69],"technologies":[52],"into":[53],"research":[55,284],"aims":[56],"at":[57],"unraveling":[58],"these":[59,85],"systems.":[60],"Nevertheless,":[61],"lack":[63],"specific":[65],"tools":[66],"analysing":[68],"raw":[70,148,296],"data":[71,149,232],"generated":[72,184,265],"from":[73,150,185,195,295],"to":[75,107,211,305],"provide":[76],"biological":[77,216,293],"meaningful":[78],"information":[79,294],"hampering":[81],"impact":[83],"technologies.":[86],"purpose":[88],"ALGAEFUN":[90,116,172,274,322],"with":[91,99,117,261,275,323],"MARACAS":[92,118,125,153,276,324],"consists":[93,119],"providing":[95],"researchers":[96,307],"an":[100,278],"enabling":[101],"tool":[102],"that":[103,286],"will":[104],"allow":[105],"them":[106],"exploit":[108],"transcriptomic":[109],"cistromic":[111],"high-throughput":[112],"sequencing":[113],"data.":[114,300],"RESULTS:":[115],"two":[121],"different":[122],"tools.":[123],"First,":[124],"(MicroAlgae":[126],"RnA-seq":[127],"Chip-seq":[129],"AnalysiS)":[130],"implements":[131],"a":[132,178,236],"fully":[133],"automatic":[134],"computational":[135],"pipeline":[136],"receiving":[137],"input":[139],"RNA-seq":[140,166,186,297],"(RNA":[141],"sequencing)":[142,147],"or":[143,160],"ChIP-seq":[144,168,196,231,299],"(chromatin":[145],"immunoprecipitation":[146],"studies.":[152],"generates":[154],"sets":[155,183],"differentially":[157],"expressed":[158],"genes":[159,241],"lists":[161,191,313],"genomic":[163,193,315],"loci":[164,194,248,316],"analysis":[169,187,197,219],"respectively.":[170],"Second,":[171],"(microALGAE":[173],"FUNctional":[174],"enrichment":[175,218,320],"tool)":[176],"is":[177,325],"web-based":[179],"where":[181],"gene":[182,221,250,262,312],"well":[189,258],"can":[198,208,267],"be":[199,209,268],"used":[200,210],"input.":[202],"On":[203,223],"one":[205],"hand,":[206,226],"it":[207,234],"perform":[212],"Gene":[213],"Ontology":[214],"pathways":[217],"over":[220,249],"sets.":[222],"other":[225],"using":[227],"results":[229,256],"analysis,":[233],"identifies":[235],"set":[237],"target":[240],"analyses":[243],"distribution":[245],"features.":[251],"Graphical":[252],"representation":[253],"tables":[260],"annotations":[263],"downloaded":[269],"further":[271],"analysis.":[272,321],"CONCLUSIONS:":[273],"provides":[277],"integrated":[279],"environment":[280],"community":[285],"facilitates":[287],"process":[289],"obtaining":[291],"relevant":[292],"These":[301],"applications":[302],"designed":[304],"assist":[306],"interpretation":[310],"based":[317],"on":[318,328],"functional":[319],"publicly":[326],"available":[327],"https://greennetwork.us.es/AlgaeFUN/":[329],".":[330]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1}],"updated_date":"2026-08-28T12:50:07.497085","created_date":"2025-10-10T00:00:00"}
