{"id":"https://openalex.org/W2047511953","doi":"https://doi.org/10.1016/s1672-0229(11)60021-1","title":"Junker: An Intergenic Explorer for Bacterial Genomes","display_name":"Junker: An Intergenic Explorer for Bacterial Genomes","publication_year":2011,"publication_date":"2011-10-01","ids":{"openalex":"https://openalex.org/W2047511953","doi":"https://doi.org/10.1016/s1672-0229(11)60021-1","mag":"2047511953","pmid":"https://pubmed.ncbi.nlm.nih.gov/22196361"},"language":"en","primary_location":{"id":"doi:10.1016/s1672-0229(11)60021-1","is_oa":true,"landing_page_url":"https://doi.org/10.1016/s1672-0229(11)60021-1","pdf_url":null,"source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1016/s1672-0229(11)60021-1","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5006066403","display_name":"Jayavel Sridhar","orcid":"https://orcid.org/0000-0001-7947-2438"},"institutions":[{"id":"https://openalex.org/I13268429","display_name":"Madurai Kamaraj University","ror":"https://ror.org/04c8e9019","country_code":"IN","type":"education","lineage":["https://openalex.org/I13268429"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Jayavel Sridhar","raw_affiliation_strings":["Centre of Excellence in Bioinformatics, School of Biotechnology, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India","UGC-Networking Resource Centre in Biological Sciences, School of Biological Sciences, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India"],"affiliations":[{"raw_affiliation_string":"Centre of Excellence in Bioinformatics, School of Biotechnology, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India","institution_ids":["https://openalex.org/I13268429"]},{"raw_affiliation_string":"UGC-Networking Resource Centre in Biological Sciences, School of Biological Sciences, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India","institution_ids":["https://openalex.org/I13268429"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024231765","display_name":"Radhakrishnan Sabarinathan","orcid":"https://orcid.org/0000-0001-8916-3954"},"institutions":[{"id":"https://openalex.org/I59270414","display_name":"Indian Institute of Science Bangalore","ror":"https://ror.org/04dese585","country_code":"IN","type":"education","lineage":["https://openalex.org/I59270414"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Radhakrishnan Sabarinathan","raw_affiliation_strings":["Bioinformatics Centre, Indian Institute of Science , Bangalore, Karnataka, 560012 , India"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Indian Institute of Science , Bangalore, Karnataka, 560012 , India","institution_ids":["https://openalex.org/I59270414"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011858304","display_name":"S. Balan","orcid":null},"institutions":[{"id":"https://openalex.org/I59270414","display_name":"Indian Institute of Science Bangalore","ror":"https://ror.org/04dese585","country_code":"IN","type":"education","lineage":["https://openalex.org/I59270414"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Shanmugam Siva Balan","raw_affiliation_strings":["Bioinformatics Centre, Indian Institute of Science , Bangalore, Karnataka, 560012 , India"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Indian Institute of Science , Bangalore, Karnataka, 560012 , India","institution_ids":["https://openalex.org/I59270414"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042670209","display_name":"Ziauddin Ahamed Rafi","orcid":null},"institutions":[{"id":"https://openalex.org/I13268429","display_name":"Madurai Kamaraj University","ror":"https://ror.org/04c8e9019","country_code":"IN","type":"education","lineage":["https://openalex.org/I13268429"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Ziauddin Ahamed Rafi","raw_affiliation_strings":["Centre of Excellence in Bioinformatics, School of Biotechnology, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India"],"affiliations":[{"raw_affiliation_string":"Centre of Excellence in Bioinformatics, School of Biotechnology, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India","institution_ids":["https://openalex.org/I13268429"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062575746","display_name":"Paramasamy Gunasekaran","orcid":"https://orcid.org/0000-0002-8078-2123"},"institutions":[{"id":"https://openalex.org/I13268429","display_name":"Madurai Kamaraj University","ror":"https://ror.org/04c8e9019","country_code":"IN","type":"education","lineage":["https://openalex.org/I13268429"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Paramasamy Gunasekaran","raw_affiliation_strings":["UGC-Networking Resource Centre in Biological Sciences, School of Biological Sciences, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India"],"affiliations":[{"raw_affiliation_string":"UGC-Networking Resource Centre in Biological Sciences, School of Biological Sciences, Madurai Kamaraj University , Madurai, Tamilnadu, 625021 , India","institution_ids":["https://openalex.org/I13268429"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5035649762","display_name":"K. Sekar","orcid":"https://orcid.org/0000-0002-9755-862X"},"institutions":[{"id":"https://openalex.org/I59270414","display_name":"Indian Institute of Science Bangalore","ror":"https://ror.org/04dese585","country_code":"IN","type":"education","lineage":["https://openalex.org/I59270414"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Kanagaraj Sekar","raw_affiliation_strings":["Bioinformatics Centre, Indian Institute of Science , Bangalore, Karnataka, 560012 , India"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Centre, Indian Institute of Science , Bangalore, Karnataka, 560012 , India","institution_ids":["https://openalex.org/I59270414"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5035649762"],"corresponding_institution_ids":["https://openalex.org/I59270414"],"apc_list":{"value":3500,"currency":"USD","value_usd":3500},"apc_paid":{"value":3500,"currency":"USD","value_usd":3500},"fwci":0.667,"has_fulltext":false,"cited_by_count":13,"citation_normalized_percentile":{"value":0.68573724,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"9","issue":"4-5","first_page":"179","last_page":"182"},"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9983999729156494,"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/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.9972000122070312,"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":0.6396230459213257},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6244919300079346},{"id":"https://openalex.org/keywords/intergenic-region","display_name":"Intergenic region","score":0.6140387654304504},{"id":"https://openalex.org/keywords/integrase","display_name":"Integrase","score":0.6019943952560425},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4875475764274597},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4740450382232666},{"id":"https://openalex.org/keywords/transposable-element","display_name":"Transposable element","score":0.4226861596107483},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1419503390789032}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6396230459213257},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6244919300079346},{"id":"https://openalex.org/C195139083","wikidata":"https://www.wikidata.org/wiki/Q3463539","display_name":"Intergenic region","level":4,"score":0.6140387654304504},{"id":"https://openalex.org/C14430832","wikidata":"https://www.wikidata.org/wiki/Q412550","display_name":"Integrase","level":3,"score":0.6019943952560425},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4875475764274597},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4740450382232666},{"id":"https://openalex.org/C4918238","wikidata":"https://www.wikidata.org/wiki/Q121438","display_name":"Transposable element","level":4,"score":0.4226861596107483},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1419503390789032}],"mesh":[{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","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":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":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","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":"D021901","descriptor_name":"DNA, Intergenic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D021901","descriptor_name":"DNA, Intergenic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D021901","descriptor_name":"DNA, Intergenic","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1016/s1672-0229(11)60021-1","is_oa":true,"landing_page_url":"https://doi.org/10.1016/s1672-0229(11)60021-1","pdf_url":null,"source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},{"id":"pmid:22196361","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/22196361","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":"Genomics, proteomics & bioinformatics","raw_type":null},{"id":"pmh:oai:europepmc.org:4016604","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5054447","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1016/s1672-0229(11)60021-1","is_oa":true,"landing_page_url":"https://doi.org/10.1016/s1672-0229(11)60021-1","pdf_url":null,"source":{"id":"https://openalex.org/S155547894","display_name":"Genomics Proteomics & Bioinformatics","issn_l":"1672-0229","issn":["1672-0229","2210-3244"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genomics, Proteomics &amp; Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.6299999952316284,"display_name":"Quality Education","id":"https://metadata.un.org/sdg/4"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320310071","display_name":"Indian Institute of Science","ror":"https://ror.org/04dese585"},{"id":"https://openalex.org/F4320320767","display_name":"University Grants Commission","ror":"https://ror.org/04p800546"},{"id":"https://openalex.org/F4320324957","display_name":"Madurai Kamaraj University","ror":"https://ror.org/04c8e9019"},{"id":"https://openalex.org/F4320332167","display_name":"Directorate for Biological Sciences","ror":"https://ror.org/001xhss06"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":22,"referenced_works":["https://openalex.org/W1972521238","https://openalex.org/W1996423252","https://openalex.org/W1996506941","https://openalex.org/W2013749849","https://openalex.org/W2021751029","https://openalex.org/W2037031019","https://openalex.org/W2039680623","https://openalex.org/W2048017191","https://openalex.org/W2100133223","https://openalex.org/W2105133080","https://openalex.org/W2126007649","https://openalex.org/W2128731054","https://openalex.org/W2133253129","https://openalex.org/W2134153749","https://openalex.org/W2139869862","https://openalex.org/W2143485490","https://openalex.org/W2148900177","https://openalex.org/W2149941588","https://openalex.org/W2159174448","https://openalex.org/W2160619010","https://openalex.org/W4285719527","https://openalex.org/W6683499438"],"related_works":["https://openalex.org/W2057222603","https://openalex.org/W2053969879","https://openalex.org/W2082641564","https://openalex.org/W2107333779","https://openalex.org/W2790772971","https://openalex.org/W3108190435","https://openalex.org/W1964419640","https://openalex.org/W2571285940","https://openalex.org/W2108267719","https://openalex.org/W2952365809"],"abstract_inverted_index":{"In":[0,109],"the":[1,9,38,45,65,89,121,126,130,135,141,145,156],"past":[2],"few":[3],"decades,":[4],"scientists":[5],"from":[6],"all":[7],"over":[8],"world":[10],"have":[11,56],"taken":[12],"a":[13,58,85,96],"keen":[14],"interest":[15,106],"in":[16,44,107,120],"novel":[17],"functional":[18],"units":[19],"such":[20],"as":[21,95],"small":[22,25],"regulatory":[23],"RNAs,":[24],"open":[26],"reading":[27],"frames,":[28],"pseudogenes,":[29],"transposons,":[30],"integrase":[31],"binding":[32],"attB/attP":[33],"sites,":[34],"repeat":[35,80],"elements":[36],"within":[37],"bacterial":[39,87],"intergenic":[40],"regions":[41,50],"(IGRs)":[42],"and":[43,79,118,132],"analysis":[46,67],"of":[47,68,84,105,129,138],"those":[48],"\"junk\"":[49],"for":[51,70],"genomic":[52],"complexity.":[53],"Here":[54],"we":[55],"developed":[57],"web":[59,122,150],"server,":[60],"named":[61],"Junker,":[62],"to":[63,101,124,133],"facilitate":[64],"in-depth":[66],"IGRs":[69,131,139],"examining":[71],"their":[72],"length":[73,127],"distribution,":[74],"four-quadrant":[75,146],"plots,":[76],"GC":[77],"percentage":[78],"details.":[81],"Upon":[82],"selection":[83],"particular":[86],"genome,":[88],"physical":[90],"genome":[91,142],"map":[92],"is":[93,152],"displayed":[94],"multiple":[97],"loci":[98,104],"with":[99],"options":[100],"view":[102],"any":[103],"detail.":[108],"addition,":[110],"an":[111],"IGR":[112],"statistics":[113],"module":[114],"has":[115],"been":[116],"created":[117],"implemented":[119],"server":[123,151],"analyze":[125],"distribution":[128],"understand":[134],"disordered":[136],"grouping":[137],"across":[140],"by":[143],"generating":[144],"plots.":[147],"The":[148],"proposed":[149],"freely":[153],"available":[154],"at":[155],"URL":[157],"http://pranag.physics.iisc.ernet.in/junker/.":[158]},"counts_by_year":[{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":3},{"year":2020,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-04-21T08:09:41.155169","created_date":"2025-10-10T00:00:00"}
