{"id":"https://openalex.org/W2981638200","doi":"https://doi.org/10.1093/bioinformatics/btz802","title":"PlanExp: intuitive integration of complex RNA-seq datasets with planarian omics resources","display_name":"PlanExp: intuitive integration of complex RNA-seq datasets with planarian omics resources","publication_year":2019,"publication_date":"2019-10-23","ids":{"openalex":"https://openalex.org/W2981638200","doi":"https://doi.org/10.1093/bioinformatics/btz802","mag":"2981638200","pmid":"https://pubmed.ncbi.nlm.nih.gov/31647529"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz802","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz802","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/6/1889/32915517/btz802.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/36/6/1889/32915517/btz802.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5066374651","display_name":"Sergio Castillo-Lara","orcid":"https://orcid.org/0000-0003-3904-2948"},"institutions":[{"id":"https://openalex.org/I4388891874","display_name":"Institut de Biomedicina de la Universitat de Barcelona","ror":"https://ror.org/01y43zx14","country_code":null,"type":"education","lineage":["https://openalex.org/I4388891874","https://openalex.org/I71999127"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"S Castillo-Lara","raw_affiliation_strings":["Computational Genomics Laboratory, Genetics, Microbiology and Statistics Department, Universitat de Barcelona , Catalonia, Spain","Institut de Biomedicina de la Universitat de Barcelona (IBUB); Universitat de Barcelona , Catalonia, Spain","Universitat de Barcelona, Catalonia, Spain"],"affiliations":[{"raw_affiliation_string":"Computational Genomics Laboratory, Genetics, Microbiology and Statistics Department, Universitat de Barcelona , Catalonia, Spain","institution_ids":["https://openalex.org/I71999127"]},{"raw_affiliation_string":"Institut de Biomedicina de la Universitat de Barcelona (IBUB); Universitat de Barcelona , Catalonia, Spain","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4388891874"]},{"raw_affiliation_string":"Universitat de Barcelona, Catalonia, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047762841","display_name":"Eudald Pascual-Carreras","orcid":"https://orcid.org/0000-0002-9577-840X"},"institutions":[{"id":"https://openalex.org/I4388891874","display_name":"Institut de Biomedicina de la Universitat de Barcelona","ror":"https://ror.org/01y43zx14","country_code":null,"type":"education","lineage":["https://openalex.org/I4388891874","https://openalex.org/I71999127"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"E Pascual-Carreras","raw_affiliation_strings":["Computational Genomics Laboratory, Genetics, Microbiology and Statistics Department, Universitat de Barcelona , Catalonia, Spain","Institut de Biomedicina de la Universitat de Barcelona (IBUB); Universitat de Barcelona , Catalonia, Spain","Universitat de Barcelona, Catalonia, Spain"],"affiliations":[{"raw_affiliation_string":"Computational Genomics Laboratory, Genetics, Microbiology and Statistics Department, Universitat de Barcelona , Catalonia, Spain","institution_ids":["https://openalex.org/I71999127"]},{"raw_affiliation_string":"Institut de Biomedicina de la Universitat de Barcelona (IBUB); Universitat de Barcelona , Catalonia, Spain","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4388891874"]},{"raw_affiliation_string":"Universitat de Barcelona, Catalonia, Spain","institution_ids":["https://openalex.org/I71999127"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024668108","display_name":"Josep F. Abril","orcid":null},"institutions":[{"id":"https://openalex.org/I4388891874","display_name":"Institut de Biomedicina de la Universitat de Barcelona","ror":"https://ror.org/01y43zx14","country_code":null,"type":"education","lineage":["https://openalex.org/I4388891874","https://openalex.org/I71999127"]},{"id":"https://openalex.org/I71999127","display_name":"Universitat de Barcelona","ror":"https://ror.org/021018s57","country_code":"ES","type":"education","lineage":["https://openalex.org/I71999127"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"J F Abril","raw_affiliation_strings":["Computational Genomics Laboratory, Genetics, Microbiology and Statistics Department, Universitat de Barcelona , Catalonia, Spain","Institut de Biomedicina de la Universitat de Barcelona (IBUB); Universitat de Barcelona , Catalonia, Spain","Universitat de Barcelona, Catalonia, Spain"],"affiliations":[{"raw_affiliation_string":"Computational Genomics Laboratory, Genetics, Microbiology and Statistics Department, Universitat de Barcelona , Catalonia, Spain","institution_ids":["https://openalex.org/I71999127"]},{"raw_affiliation_string":"Institut de Biomedicina de la Universitat de Barcelona (IBUB); Universitat de Barcelona , Catalonia, Spain","institution_ids":["https://openalex.org/I71999127","https://openalex.org/I4388891874"]},{"raw_affiliation_string":"Universitat de Barcelona, Catalonia, Spain","institution_ids":["https://openalex.org/I71999127"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5024668108"],"corresponding_institution_ids":["https://openalex.org/I4388891874","https://openalex.org/I71999127"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.9448,"has_fulltext":false,"cited_by_count":17,"citation_normalized_percentile":{"value":0.75032919,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":97},"biblio":{"volume":"36","issue":"6","first_page":"1889","last_page":"1895"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12789","display_name":"Planarian Biology and Electrostimulation","score":0.9990000128746033,"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/T12789","display_name":"Planarian Biology and Electrostimulation","score":0.9990000128746033,"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/T12213","display_name":"Marine Ecology and Invasive Species","score":0.972000002861023,"subfield":{"id":"https://openalex.org/subfields/2306","display_name":"Global and Planetary Change"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11289","display_name":"Single-cell and spatial transcriptomics","score":0.9120000004768372,"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/planarian","display_name":"Planarian","score":0.94234299659729},{"id":"https://openalex.org/keywords/planaria","display_name":"Planaria","score":0.6960150003433228},{"id":"https://openalex.org/keywords/rna-seq","display_name":"RNA-Seq","score":0.5598040819168091},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5508180856704712},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5128162503242493},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.4793689548969269},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.42137232422828674},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3569512963294983},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.34055590629577637},{"id":"https://openalex.org/keywords/regeneration","display_name":"Regeneration (biology)","score":0.26354315876960754},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.23568734526634216},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21386003494262695}],"concepts":[{"id":"https://openalex.org/C2775935104","wikidata":"https://www.wikidata.org/wiki/Q6502673","display_name":"Planarian","level":3,"score":0.94234299659729},{"id":"https://openalex.org/C2777113906","wikidata":"https://www.wikidata.org/wiki/Q2855014","display_name":"Planaria","level":3,"score":0.6960150003433228},{"id":"https://openalex.org/C107397762","wikidata":"https://www.wikidata.org/wiki/Q2542347","display_name":"RNA-Seq","level":5,"score":0.5598040819168091},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5508180856704712},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5128162503242493},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.4793689548969269},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.42137232422828674},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3569512963294983},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.34055590629577637},{"id":"https://openalex.org/C171056886","wikidata":"https://www.wikidata.org/wiki/Q193119","display_name":"Regeneration (biology)","level":2,"score":0.26354315876960754},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.23568734526634216},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21386003494262695}],"mesh":[{"descriptor_ui":"D000073359","descriptor_name":"Exome Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000073359","descriptor_name":"Exome Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000073359","descriptor_name":"Exome Sequencing","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":"D000081246","descriptor_name":"RNA-Seq","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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010932","descriptor_name":"Planarians","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010932","descriptor_name":"Planarians","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010932","descriptor_name":"Planarians","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btz802","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz802","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/6/1889/32915517/btz802.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:31647529","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31647529","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},{"id":"pmh:oai:diposit.ub.edu:2445/195347","is_oa":false,"landing_page_url":"http://hdl.handle.net/2445/195347","pdf_url":null,"source":{"id":"https://openalex.org/S4306401653","display_name":"Dip\u00f2sit Digital de la Universitat de Barcelona (Universitat de Barcelona)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71999127","host_organization_name":"Universitat de Barcelona","host_organization_lineage":["https://openalex.org/I71999127"],"host_organization_lineage_names":[],"type":"repository"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Articles publicats en revistes (Gen\u00e8tica, Microbiologia i Estad\u00edstica)","raw_type":"info:eu-repo/semantics/acceptedVersion"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz802","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz802","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/6/1889/32915517/btz802.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":[{"id":"https://openalex.org/G1506930890","display_name":null,"funder_award_id":"FI-FDR: 2017FI_B_00191","funder_id":"https://openalex.org/F4320334830","funder_display_name":"Ag\u00e8ncia de Gesti\u00f3 d'Ajuts Universitaris i de Recerca"},{"id":"https://openalex.org/G1812290980","display_name":null,"funder_award_id":"2017SGR1455","funder_id":"https://openalex.org/F4320321505","funder_display_name":"Generalitat de Catalunya"}],"funders":[{"id":"https://openalex.org/F4320321505","display_name":"Generalitat de Catalunya","ror":"https://ror.org/01bg62x04"},{"id":"https://openalex.org/F4320333248","display_name":"Medical Engineering Centre, King\u2019s College London","ror":null},{"id":"https://openalex.org/F4320334830","display_name":"Ag\u00e8ncia de Gesti\u00f3 d'Ajuts Universitaris i de Recerca","ror":"https://ror.org/01n4pqe45"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2981638200.pdf","grobid_xml":"https://content.openalex.org/works/W2981638200.grobid-xml"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W607236675","https://openalex.org/W1858638169","https://openalex.org/W1989277387","https://openalex.org/W1990312560","https://openalex.org/W1996934645","https://openalex.org/W2076513103","https://openalex.org/W2081077466","https://openalex.org/W2094621772","https://openalex.org/W2133357122","https://openalex.org/W2137526110","https://openalex.org/W2179127114","https://openalex.org/W2233603983","https://openalex.org/W2336957559","https://openalex.org/W2474869522","https://openalex.org/W2616922646","https://openalex.org/W2769082099","https://openalex.org/W2785060806","https://openalex.org/W2794480084","https://openalex.org/W2799796757","https://openalex.org/W2801443765","https://openalex.org/W2807884764","https://openalex.org/W2845591014","https://openalex.org/W2900048527","https://openalex.org/W2904318930","https://openalex.org/W2951850020","https://openalex.org/W4233698560"],"related_works":["https://openalex.org/W2969806122","https://openalex.org/W2399635326","https://openalex.org/W4315707189","https://openalex.org/W2333309290","https://openalex.org/W2809011402","https://openalex.org/W2900201370","https://openalex.org/W2947157228","https://openalex.org/W2146495438","https://openalex.org/W2415458563","https://openalex.org/W1972159232"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":4}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
