{"id":"https://openalex.org/W2123479813","doi":"https://doi.org/10.1093/bioinformatics/bts344","title":"miRcode: a map of putative microRNA target sites in the long non-coding transcriptome","display_name":"miRcode: a map of putative microRNA target sites in the long non-coding transcriptome","publication_year":2012,"publication_date":"2012-05-19","ids":{"openalex":"https://openalex.org/W2123479813","doi":"https://doi.org/10.1093/bioinformatics/bts344","mag":"2123479813","pmid":"https://pubmed.ncbi.nlm.nih.gov/22718787"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts344","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts344","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/15/2062/48873446/bioinformatics_28_15_2062.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/28/15/2062/48873446/bioinformatics_28_15_2062.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031573650","display_name":"Ashwini Jeggari","orcid":"https://orcid.org/0000-0002-7155-9050"},"institutions":[{"id":"https://openalex.org/I881427289","display_name":"University of Gothenburg","ror":"https://ror.org/01tm6cn81","country_code":"SE","type":"education","lineage":["https://openalex.org/I881427289"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["SE","US"],"is_corresponding":true,"raw_author_name":"Ashwini Jeggari","raw_affiliation_strings":["1 Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden and 2Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden and 2Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA","institution_ids":["https://openalex.org/I881427289","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022191527","display_name":"Debora S. Marks","orcid":"https://orcid.org/0000-0001-9388-2281"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I881427289","display_name":"University of Gothenburg","ror":"https://ror.org/01tm6cn81","country_code":"SE","type":"education","lineage":["https://openalex.org/I881427289"]}],"countries":["SE","US"],"is_corresponding":false,"raw_author_name":"Debora S Marks","raw_affiliation_strings":["1 Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden and 2Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden and 2Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA","institution_ids":["https://openalex.org/I881427289","https://openalex.org/I136199984"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5050629872","display_name":"Erik Larsson","orcid":"https://orcid.org/0000-0003-1400-0119"},"institutions":[{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I881427289","display_name":"University of Gothenburg","ror":"https://ror.org/01tm6cn81","country_code":"SE","type":"education","lineage":["https://openalex.org/I881427289"]}],"countries":["SE","US"],"is_corresponding":false,"raw_author_name":"Erik Larsson","raw_affiliation_strings":["1 Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden and 2Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA"],"affiliations":[{"raw_affiliation_string":"1 Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg, Gothenburg, SE-405 30, Sweden and 2Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA","institution_ids":["https://openalex.org/I881427289","https://openalex.org/I136199984"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5031573650"],"corresponding_institution_ids":["https://openalex.org/I136199984","https://openalex.org/I881427289"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":7.7311,"has_fulltext":true,"cited_by_count":871,"citation_normalized_percentile":{"value":0.98110447,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"28","issue":"15","first_page":"2062","last_page":"2063"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9993000030517578,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T11482","display_name":"RNA modifications and cancer","score":0.9988999962806702,"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/microrna","display_name":"microRNA","score":0.815402090549469},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.8021947145462036},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6364510655403137},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.610042929649353},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.47799959778785706},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.46660205721855164},{"id":"https://openalex.org/keywords/small-rna","display_name":"Small RNA","score":0.4253196716308594},{"id":"https://openalex.org/keywords/long-non-coding-rna","display_name":"Long non-coding RNA","score":0.41800978779792786},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.36169716715812683},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.32057762145996094},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.20863690972328186}],"concepts":[{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.815402090549469},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.8021947145462036},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6364510655403137},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.610042929649353},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.47799959778785706},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.46660205721855164},{"id":"https://openalex.org/C2779341050","wikidata":"https://www.wikidata.org/wiki/Q24287527","display_name":"Small RNA","level":4,"score":0.4253196716308594},{"id":"https://openalex.org/C62203573","wikidata":"https://www.wikidata.org/wiki/Q15087973","display_name":"Long non-coding RNA","level":4,"score":0.41800978779792786},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.36169716715812683},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.32057762145996094},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.20863690972328186},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bts344","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts344","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/15/2062/48873446/bioinformatics_28_15_2062.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22718787","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22718787","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:pubmedcentral.nih.gov:3400968","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3400968","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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","raw_type":"Text"},{"id":"pmh:oai:dash.harvard.edu:1/10445586","is_oa":true,"landing_page_url":"http://nrs.harvard.edu/urn-3:HUL.InstRepos:10445586","pdf_url":null,"source":{"id":"https://openalex.org/S4306401540","display_name":"Digital Access to Scholarship at Harvard (DASH) (Harvard University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I136199984","host_organization_name":"Harvard University","host_organization_lineage":["https://openalex.org/I136199984"],"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":"Journal Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts344","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts344","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/28/15/2062/48873446/bioinformatics_28_15_2062.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322833","display_name":"Stiftelsen Lars Hiertas Minne","ror":"https://ror.org/03cpsrf24"},{"id":"https://openalex.org/F4320323741","display_name":"Magnus Bergvalls Stiftelse","ror":"https://ror.org/040ya8k73"},{"id":"https://openalex.org/F4320334626","display_name":"Medical Research Council","ror":"https://ror.org/03x94j517"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2123479813.pdf","grobid_xml":"https://content.openalex.org/works/W2123479813.grobid-xml"},"referenced_works_count":28,"referenced_works":["https://openalex.org/W1934757642","https://openalex.org/W1966498224","https://openalex.org/W1973445288","https://openalex.org/W2006556963","https://openalex.org/W2026570544","https://openalex.org/W2031176852","https://openalex.org/W2044832480","https://openalex.org/W2046621435","https://openalex.org/W2050869737","https://openalex.org/W2051911149","https://openalex.org/W2059073003","https://openalex.org/W2061427860","https://openalex.org/W2065566217","https://openalex.org/W2067410483","https://openalex.org/W2087377443","https://openalex.org/W2098044274","https://openalex.org/W2107959716","https://openalex.org/W2111688179","https://openalex.org/W2112132489","https://openalex.org/W2116236561","https://openalex.org/W2121352589","https://openalex.org/W2127640118","https://openalex.org/W2128034264","https://openalex.org/W2145931730","https://openalex.org/W2150098952","https://openalex.org/W2163199119","https://openalex.org/W2169674658","https://openalex.org/W6675747015"],"related_works":["https://openalex.org/W2399513595","https://openalex.org/W4388386498","https://openalex.org/W2028462563","https://openalex.org/W2942994004","https://openalex.org/W2982720988","https://openalex.org/W3150324899","https://openalex.org/W2523545060","https://openalex.org/W4229998356","https://openalex.org/W4379374180","https://openalex.org/W1504075687"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":33},{"year":2024,"cited_by_count":50},{"year":2023,"cited_by_count":83},{"year":2022,"cited_by_count":115},{"year":2021,"cited_by_count":155},{"year":2020,"cited_by_count":142},{"year":2019,"cited_by_count":90},{"year":2018,"cited_by_count":65},{"year":2017,"cited_by_count":34},{"year":2016,"cited_by_count":32},{"year":2015,"cited_by_count":26},{"year":2014,"cited_by_count":22},{"year":2013,"cited_by_count":14},{"year":2012,"cited_by_count":6}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
