{"id":"https://openalex.org/W2151640651","doi":"https://doi.org/10.1186/1471-2105-13-s18-a9","title":"Elucidating gene signatures that control the circadian rhythm in cyanobacteria using bioinformatics methods","display_name":"Elucidating gene signatures that control the circadian rhythm in cyanobacteria using bioinformatics methods","publication_year":2012,"publication_date":"2012-12-01","ids":{"openalex":"https://openalex.org/W2151640651","doi":"https://doi.org/10.1186/1471-2105-13-s18-a9","mag":"2151640651"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-13-s18-a9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-s18-a9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-13-S18-A9","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"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-13-S18-A9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085266151","display_name":"Tulip Nandu","orcid":"https://orcid.org/0000-0001-9786-614X"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Tulip Nandu","raw_affiliation_strings":["School of Informatics, Indiana University-Purdue University, Indianapolis, Indiana, 46204, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Informatics, Indiana University-Purdue University, Indianapolis, Indiana, 46204, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5029457488","display_name":"Meeta Pradhan","orcid":"https://orcid.org/0000-0003-4450-1897"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Meeta Pradhan","raw_affiliation_strings":["School of Informatics, Indiana University-Purdue University, Indianapolis, Indiana, 46204, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Informatics, Indiana University-Purdue University, Indianapolis, Indiana, 46204, USA","institution_ids":["https://openalex.org/I55769427"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044460012","display_name":"Mathew Palakal","orcid":"https://orcid.org/0000-0002-2990-0999"},"institutions":[{"id":"https://openalex.org/I55769427","display_name":"Indiana University \u2013 Purdue University Indianapolis","ror":"https://ror.org/05gxnyn08","country_code":"US","type":"education","lineage":["https://openalex.org/I55769427","https://openalex.org/I592451"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Mathew J Palakal","raw_affiliation_strings":["School of Informatics, Indiana University-Purdue University, Indianapolis, Indiana, 46204, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Informatics, Indiana University-Purdue University, Indianapolis, Indiana, 46204, USA","institution_ids":["https://openalex.org/I55769427"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5044460012"],"corresponding_institution_ids":["https://openalex.org/I55769427"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":0.1131,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.54907698,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"13","issue":"S18","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10476","display_name":"Algal biology and biofuel production","score":0.9853000044822693,"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":0.9853000044822693,"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/T10303","display_name":"Photosynthetic Processes and Mechanisms","score":0.9575999975204468,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9096999764442444,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"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/circadian-rhythm","display_name":"Circadian rhythm","score":0.8399966955184937},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7740012407302856},{"id":"https://openalex.org/keywords/circadian-clock","display_name":"Circadian clock","score":0.5959433913230896},{"id":"https://openalex.org/keywords/organism","display_name":"Organism","score":0.5600317716598511},{"id":"https://openalex.org/keywords/cyanobacteria","display_name":"Cyanobacteria","score":0.526961624622345},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5076674222946167},{"id":"https://openalex.org/keywords/bacterial-circadian-rhythms","display_name":"Bacterial circadian rhythms","score":0.42475053668022156},{"id":"https://openalex.org/keywords/model-organism","display_name":"Model organism","score":0.4180225431919098},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.41123533248901367},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.36117419600486755},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.19956457614898682},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.10017365217208862}],"concepts":[{"id":"https://openalex.org/C121446783","wikidata":"https://www.wikidata.org/wiki/Q208353","display_name":"Circadian rhythm","level":2,"score":0.8399966955184937},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7740012407302856},{"id":"https://openalex.org/C38606739","wikidata":"https://www.wikidata.org/wiki/Q5121352","display_name":"Circadian clock","level":3,"score":0.5959433913230896},{"id":"https://openalex.org/C137858568","wikidata":"https://www.wikidata.org/wiki/Q7239","display_name":"Organism","level":2,"score":0.5600317716598511},{"id":"https://openalex.org/C2779669040","wikidata":"https://www.wikidata.org/wiki/Q93315","display_name":"Cyanobacteria","level":3,"score":0.526961624622345},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5076674222946167},{"id":"https://openalex.org/C130679736","wikidata":"https://www.wikidata.org/wiki/Q3454009","display_name":"Bacterial circadian rhythms","level":4,"score":0.42475053668022156},{"id":"https://openalex.org/C19843653","wikidata":"https://www.wikidata.org/wiki/Q213907","display_name":"Model organism","level":3,"score":0.4180225431919098},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41123533248901367},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.36117419600486755},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.19956457614898682},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.10017365217208862}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1186/1471-2105-13-s18-a9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-s18-a9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-13-S18-A9","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":"pmh:oai:europepmc.org:2521763","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3522035","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:scholarworks.iupui.edu:1805/7837","is_oa":false,"landing_page_url":"http://hdl.handle.net/1805/7837","pdf_url":null,"source":{"id":"https://openalex.org/S4306400987","display_name":"IUScholarWorks (Indiana University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I592451","host_organization_name":"Indiana University","host_organization_lineage":["https://openalex.org/I592451"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Poster"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-13-s18-a9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-13-s18-a9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/1471-2105-13-S18-A9","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":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2151640651.pdf","grobid_xml":"https://content.openalex.org/works/W2151640651.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W4223896405","https://openalex.org/W2059629050","https://openalex.org/W2258998699","https://openalex.org/W3013644380","https://openalex.org/W2074740504","https://openalex.org/W1996935079","https://openalex.org/W3210243923","https://openalex.org/W2145833061","https://openalex.org/W1998405066","https://openalex.org/W2171737904"],"abstract_inverted_index":{"The":[0,104,122],"circadian":[1,108,161],"rhythm,":[2],"or":[3,208],"biological":[4],"\u201cclock,\u201d":[5],"allows":[6],"the":[7,14,17,24,34,45,93,102,107,111,141,174,196,203,206,212,219],"organism":[8,54],"to":[9,125,149,183],"anticipate":[10],"and":[11,33,61,75,95,110,132,156,171,198],"prepare":[12],"for":[13],"changes":[15],"in":[16,71,101,119,140,153,160,163,187],"physical":[18],"environment.":[19],"Studies":[20],"have":[21],"found":[22],"that":[23,55,181],"internal":[25],"clock":[26],"consists":[27],"of":[28,31,89,98,145,205,216],"an":[29,53],"array":[30],"genes":[32,113,176],"protein":[35],"products":[36],"they":[37],"encode,":[38],"which":[39,72],"regulate":[40],"various":[41],"physiological":[42],"processes":[43],"throughout":[44,81],"body.":[46],"Cyanothece":[47,164,188],"sp":[48,165,189],".":[49,166,190],"ATCC":[50,167,191],"51142":[51],"is":[52,124],"has":[56,66],"both":[57],"photosynthetic":[58],"(producing":[59],"oxygen)":[60],"nitrogen":[62],"fixing":[63],"ability.":[64],"It":[65],"developed":[67],"a":[68,82,184],"temporal":[69],"regulation":[70],"N2":[73,99],"fixation":[74,91,100],"photosynthesis":[76],"occur":[77],"at":[78],"different":[79],"times":[80],"diurnal":[83],"cycle":[84],"with":[85,130],"very":[86],"high":[87,96],"levels":[88,97],"CO2":[90],"during":[92,202,218],"light":[94],"dark.":[103],"mechanisms":[105],"underlying":[106],"rhythm":[109],"signature":[112,175,213],"elucidating":[114],"this":[115,120],"mechanism":[116],"are":[117],"addressed":[118],"research.":[121],"objective":[123],"integrate":[126],"gene":[127,151],"expression":[128,201],"data":[129,131],"knowledge":[133],"from":[134,178],"prior":[135],"studies":[136],"using":[137],"bibliomics":[138],"techniques,":[139],"de":[142],"novo":[143],"construction":[144],"quasi-complete":[146],"regulatory":[147],"networks":[148],"identify":[150],"signatures":[152],"functional":[154],"motifs":[155],"elucidate":[157],"their":[158,199],"role":[159],"rhythms":[162],"51142.":[168,192],"Tables":[169],"1":[170,194],"2":[172],"show":[173],"identified":[177],"topological":[179],"analysis":[180],"lead":[182],"specific":[185],"pathway":[186],"Figure":[193],"shows":[195],"pathways":[197,217],"peak":[200],"time":[204,220],"day":[207],"night":[209],"depending":[210],"on":[211],"genes.":[214],"Expression":[215],"period":[221]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}
