{"id":"https://openalex.org/W2796038416","doi":"https://doi.org/10.1093/bioinformatics/bty220","title":"IRscope: an online program to visualize the junction sites of chloroplast genomes","display_name":"IRscope: an online program to visualize the junction sites of chloroplast genomes","publication_year":2018,"publication_date":"2018-04-04","ids":{"openalex":"https://openalex.org/W2796038416","doi":"https://doi.org/10.1093/bioinformatics/bty220","mag":"2796038416","pmid":"https://pubmed.ncbi.nlm.nih.gov/29659705"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty220","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty220","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/3030/25703072/bty220.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/34/17/3030/25703072/bty220.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5018642770","display_name":"Ali Amiryousefi","orcid":"https://orcid.org/0000-0002-6317-3860"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Ali Amiryousefi","raw_affiliation_strings":["Organismal Evolutionary Biology Research Program, Faculty of Biology and Environmental Sciences, Viikki Plant Science Centre"],"affiliations":[{"raw_affiliation_string":"Organismal Evolutionary Biology Research Program, Faculty of Biology and Environmental Sciences, Viikki Plant Science Centre","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042516141","display_name":"Jaakko Hyv\u00f6nen","orcid":"https://orcid.org/0000-0001-7559-8295"},"institutions":[{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]},{"id":"https://openalex.org/I4210139717","display_name":"Finnish Museum of Natural History","ror":"https://ror.org/03tcx6c30","country_code":"FI","type":"archive","lineage":["https://openalex.org/I133731052","https://openalex.org/I4210139717"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Jaakko Hyv\u00f6nen","raw_affiliation_strings":["Finnish Museum of Natural History, University of Helsinki, FI-00014 Helsinki, Finland","Organismal Evolutionary Biology Research Program, Faculty of Biology and Environmental Sciences, Viikki Plant Science Centre"],"affiliations":[{"raw_affiliation_string":"Finnish Museum of Natural History, University of Helsinki, FI-00014 Helsinki, Finland","institution_ids":["https://openalex.org/I4210139717","https://openalex.org/I133731052"]},{"raw_affiliation_string":"Organismal Evolutionary Biology Research Program, Faculty of Biology and Environmental Sciences, Viikki Plant Science Centre","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084883352","display_name":"P\u00e9ter Poczai","orcid":"https://orcid.org/0000-0002-0107-1068"},"institutions":[{"id":"https://openalex.org/I4210139717","display_name":"Finnish Museum of Natural History","ror":"https://ror.org/03tcx6c30","country_code":"FI","type":"archive","lineage":["https://openalex.org/I133731052","https://openalex.org/I4210139717"]},{"id":"https://openalex.org/I133731052","display_name":"University of Helsinki","ror":"https://ror.org/040af2s02","country_code":"FI","type":"education","lineage":["https://openalex.org/I133731052"]}],"countries":["FI"],"is_corresponding":false,"raw_author_name":"Peter Poczai","raw_affiliation_strings":["Finnish Museum of Natural History, University of Helsinki, FI-00014 Helsinki, Finland"],"affiliations":[{"raw_affiliation_string":"Finnish Museum of Natural History, University of Helsinki, FI-00014 Helsinki, Finland","institution_ids":["https://openalex.org/I4210139717","https://openalex.org/I133731052"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5018642770"],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":18.8043,"has_fulltext":false,"cited_by_count":1182,"citation_normalized_percentile":{"value":0.9964497,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"34","issue":"17","first_page":"3030","last_page":"3031"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10303","display_name":"Photosynthetic Processes and Mechanisms","score":0.9973999857902527,"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/T10012","display_name":"Genetic diversity and population structure","score":0.9934999942779541,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/genome","display_name":"Genome","score":0.796417236328125},{"id":"https://openalex.org/keywords/genbank","display_name":"GenBank","score":0.6763913631439209},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6716479063034058},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.6599690914154053},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6590246558189392},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6267901062965393},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.526456892490387},{"id":"https://openalex.org/keywords/genome-project","display_name":"Genome project","score":0.4549540877342224},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4326311945915222},{"id":"https://openalex.org/keywords/range","display_name":"Range (aeronautics)","score":0.41542285680770874},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3049297332763672},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.26722773909568787},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.239096999168396},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1552894115447998},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.15322530269622803},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1436767280101776}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.796417236328125},{"id":"https://openalex.org/C79029880","wikidata":"https://www.wikidata.org/wiki/Q901755","display_name":"GenBank","level":3,"score":0.6763913631439209},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6716479063034058},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.6599690914154053},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6590246558189392},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6267901062965393},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.526456892490387},{"id":"https://openalex.org/C89566754","wikidata":"https://www.wikidata.org/wiki/Q2273828","display_name":"Genome project","level":4,"score":0.4549540877342224},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4326311945915222},{"id":"https://openalex.org/C204323151","wikidata":"https://www.wikidata.org/wiki/Q905424","display_name":"Range (aeronautics)","level":2,"score":0.41542285680770874},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3049297332763672},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.26722773909568787},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.239096999168396},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1552894115447998},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15322530269622803},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1436767280101776},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"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":"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":"D054628","descriptor_name":"Genome, Chloroplast","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054628","descriptor_name":"Genome, Chloroplast","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054628","descriptor_name":"Genome, Chloroplast","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty220","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty220","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/3030/25703072/bty220.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:29659705","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29659705","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:helda.helsinki.fi:10138/300671","is_oa":true,"landing_page_url":"http://hdl.handle.net/10138/300671","pdf_url":null,"source":{"id":"https://openalex.org/S4210213322","display_name":"Ty\u00f6v\u00e4entutkimus Vuosikirja","issn_l":"0784-1272","issn":["0784-1272","1459-7780"],"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty220","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty220","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/3030/25703072/bty220.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320310086","display_name":"Helsingin Yliopisto","ror":"https://ror.org/040af2s02"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2796038416.pdf","grobid_xml":"https://content.openalex.org/works/W2796038416.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W1965710962","https://openalex.org/W1966276307","https://openalex.org/W1983903377","https://openalex.org/W2027448315","https://openalex.org/W2028257373","https://openalex.org/W2045004495","https://openalex.org/W2146384771","https://openalex.org/W2147096538","https://openalex.org/W2265011897"],"related_works":["https://openalex.org/W1999129612","https://openalex.org/W2162782320","https://openalex.org/W2059565715","https://openalex.org/W2217004864","https://openalex.org/W3111061871","https://openalex.org/W2009940763","https://openalex.org/W2114034054","https://openalex.org/W2064107380","https://openalex.org/W45826765","https://openalex.org/W1760213857"],"abstract_inverted_index":{"Source":[0],"codes":[1],"and":[2],"the":[3],"online":[4],"suit":[5],"available":[6],"at":[7],"https://irscope.shinyapps.io/irapp/":[8],"or":[9],"https://github.com/Limpfrog/irscope.":[10]},"counts_by_year":[{"year":2026,"cited_by_count":43},{"year":2025,"cited_by_count":171},{"year":2024,"cited_by_count":293},{"year":2023,"cited_by_count":236},{"year":2022,"cited_by_count":238},{"year":2021,"cited_by_count":98},{"year":2020,"cited_by_count":76},{"year":2019,"cited_by_count":22},{"year":2018,"cited_by_count":4}],"updated_date":"2026-04-18T07:56:08.524223","created_date":"2025-10-10T00:00:00"}
