{"id":"https://openalex.org/W4313435377","doi":"https://doi.org/10.3390/data8010001","title":"Gene Expression Datasets for Two Versions of the Saccharum spontaneum AP85-441 Genome","display_name":"Gene Expression Datasets for Two Versions of the Saccharum spontaneum AP85-441 Genome","publication_year":2022,"publication_date":"2022-12-20","ids":{"openalex":"https://openalex.org/W4313435377","doi":"https://doi.org/10.3390/data8010001"},"language":"en","primary_location":{"id":"doi:10.3390/data8010001","is_oa":true,"landing_page_url":"https://doi.org/10.3390/data8010001","pdf_url":"https://www.mdpi.com/2306-5729/8/1/1/pdf?version=1671508339","source":{"id":"https://openalex.org/S4210226510","display_name":"Data","issn_l":"2306-5729","issn":["2306-5729"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Data","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://www.mdpi.com/2306-5729/8/1/1/pdf?version=1671508339","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5031638431","display_name":"Nicol\u00e1s L\u00f3pez-Rozo","orcid":"https://orcid.org/0000-0002-8060-6891"},"institutions":[{"id":"https://openalex.org/I233745408","display_name":"Pontificia Universidad Javeriana","ror":"https://ror.org/03etyjw28","country_code":"CO","type":"education","lineage":["https://openalex.org/I233745408"]}],"countries":["CO"],"is_corresponding":false,"raw_author_name":"Nicol\u00e1s L\u00f3pez-Rozo","raw_affiliation_strings":["Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia"],"raw_orcid":"https://orcid.org/0000-0002-8060-6891","affiliations":[{"raw_affiliation_string":"Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]},{"raw_affiliation_string":"OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056774799","display_name":"Maur\u00edcio Ram\u00edrez-Castrill\u00f3n","orcid":"https://orcid.org/0000-0001-8525-5341"},"institutions":[{"id":"https://openalex.org/I233745408","display_name":"Pontificia Universidad Javeriana","ror":"https://ror.org/03etyjw28","country_code":"CO","type":"education","lineage":["https://openalex.org/I233745408"]}],"countries":["CO"],"is_corresponding":false,"raw_author_name":"Mauricio Ramirez-Castrillon","raw_affiliation_strings":["OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia"],"raw_orcid":"https://orcid.org/0000-0001-8525-5341","affiliations":[{"raw_affiliation_string":"OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017864445","display_name":"Miguel Romero","orcid":"https://orcid.org/0000-0002-7068-970X"},"institutions":[{"id":"https://openalex.org/I233745408","display_name":"Pontificia Universidad Javeriana","ror":"https://ror.org/03etyjw28","country_code":"CO","type":"education","lineage":["https://openalex.org/I233745408"]}],"countries":["CO"],"is_corresponding":false,"raw_author_name":"Miguel Romero","raw_affiliation_strings":["Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia"],"raw_orcid":"https://orcid.org/0000-0002-7068-970X","affiliations":[{"raw_affiliation_string":"Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]},{"raw_affiliation_string":"OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062553576","display_name":"Jorge Finke","orcid":"https://orcid.org/0000-0003-2393-6066"},"institutions":[{"id":"https://openalex.org/I233745408","display_name":"Pontificia Universidad Javeriana","ror":"https://ror.org/03etyjw28","country_code":"CO","type":"education","lineage":["https://openalex.org/I233745408"]}],"countries":["CO"],"is_corresponding":false,"raw_author_name":"Jorge Finke","raw_affiliation_strings":["Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia"],"raw_orcid":"https://orcid.org/0000-0003-2393-6066","affiliations":[{"raw_affiliation_string":"Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]},{"raw_affiliation_string":"OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056784361","display_name":"Camilo Rocha","orcid":"https://orcid.org/0000-0003-4356-7704"},"institutions":[{"id":"https://openalex.org/I233745408","display_name":"Pontificia Universidad Javeriana","ror":"https://ror.org/03etyjw28","country_code":"CO","type":"education","lineage":["https://openalex.org/I233745408"]}],"countries":["CO"],"is_corresponding":true,"raw_author_name":"Camilo Rocha","raw_affiliation_strings":["Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia"],"raw_orcid":"https://orcid.org/0000-0003-4356-7704","affiliations":[{"raw_affiliation_string":"Department of Electronics and Computer Science, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]},{"raw_affiliation_string":"OMICAS Program, Pontificia Universidad Javeriana, Cali 760031, Colombia","institution_ids":["https://openalex.org/I233745408"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5056784361"],"corresponding_institution_ids":["https://openalex.org/I233745408"],"apc_list":{"value":1600,"currency":"CHF","value_usd":1732},"apc_paid":{"value":1600,"currency":"CHF","value_usd":1732},"fwci":0.2106,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.69160332,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"8","issue":"1","first_page":"1","last_page":"1"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12431","display_name":"Sugarcane Cultivation and Processing","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12431","display_name":"Sugarcane Cultivation and Processing","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10171","display_name":"Biofuel production and bioconversion","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T13828","display_name":"Natural Products and Biological Research","score":0.9743000268936157,"subfield":{"id":"https://openalex.org/subfields/2746","display_name":"Surgery"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6916069984436035},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6515248417854309},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.5854122638702393},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.44826069474220276},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4310307502746582},{"id":"https://openalex.org/keywords/ensembl","display_name":"Ensembl","score":0.42997950315475464},{"id":"https://openalex.org/keywords/adaptation","display_name":"Adaptation (eye)","score":0.4288483262062073},{"id":"https://openalex.org/keywords/gene-prediction","display_name":"Gene prediction","score":0.41333284974098206},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.3358280062675476}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6916069984436035},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6515248417854309},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.5854122638702393},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.44826069474220276},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4310307502746582},{"id":"https://openalex.org/C141674004","wikidata":"https://www.wikidata.org/wiki/Q1344256","display_name":"Ensembl","level":5,"score":0.42997950315475464},{"id":"https://openalex.org/C139807058","wikidata":"https://www.wikidata.org/wiki/Q352374","display_name":"Adaptation (eye)","level":2,"score":0.4288483262062073},{"id":"https://openalex.org/C105565629","wikidata":"https://www.wikidata.org/wiki/Q1248292","display_name":"Gene prediction","level":4,"score":0.41333284974098206},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.3358280062675476},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.3390/data8010001","is_oa":true,"landing_page_url":"https://doi.org/10.3390/data8010001","pdf_url":"https://www.mdpi.com/2306-5729/8/1/1/pdf?version=1671508339","source":{"id":"https://openalex.org/S4210226510","display_name":"Data","issn_l":"2306-5729","issn":["2306-5729"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Data","raw_type":"journal-article"},{"id":"pmh:oai:RePEc:gam:jdataj:v:8:y:2022:i:1:p:1-:d:1008497","is_oa":false,"landing_page_url":"https://www.mdpi.com/2306-5729/8/1/1/","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"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":"article"},{"id":"pmh:oai:doaj.org/article:b6a5d88b09cf4e7d9a88027fc496d506","is_oa":true,"landing_page_url":"https://doaj.org/article/b6a5d88b09cf4e7d9a88027fc496d506","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Data, Vol 8, Iss 1, p 1 (2022)","raw_type":"article"},{"id":"pmh:oai:mdpi.com:/2306-5729/8/1/1/","is_oa":true,"landing_page_url":"https://dx.doi.org/10.3390/data8010001","pdf_url":null,"source":{"id":"https://openalex.org/S4306400947","display_name":"MDPI (MDPI AG)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210097602","host_organization_name":"Multidisciplinary Digital Publishing Institute (Switzerland)","host_organization_lineage":["https://openalex.org/I4210097602"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Data; Volume 8; Issue 1; Pages: 1","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.3390/data8010001","is_oa":true,"landing_page_url":"https://doi.org/10.3390/data8010001","pdf_url":"https://www.mdpi.com/2306-5729/8/1/1/pdf?version=1671508339","source":{"id":"https://openalex.org/S4210226510","display_name":"Data","issn_l":"2306-5729","issn":["2306-5729"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310310987","host_organization_name":"Multidisciplinary Digital Publishing Institute","host_organization_lineage":["https://openalex.org/P4310310987"],"host_organization_lineage_names":["Multidisciplinary Digital Publishing Institute"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Data","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G8111698027","display_name":null,"funder_award_id":"FP44842-217-2018","funder_id":"https://openalex.org/F4320307855","funder_display_name":"World Bank Group"},{"id":"https://openalex.org/G8697027269","display_name":null,"funder_award_id":"FP44842-217-2018","funder_id":"https://openalex.org/F4320328732","funder_display_name":"Instituto Colombiano de Cr\u00e9dito Educativo y Estudios T\u00e9cnicos en el Exterior"},{"id":"https://openalex.org/G8902551914","display_name":null,"funder_award_id":"792-61187","funder_id":"https://openalex.org/F4320307855","funder_display_name":"World Bank Group"}],"funders":[{"id":"https://openalex.org/F4320307855","display_name":"World Bank Group","ror":"https://ror.org/00ae7jd04"},{"id":"https://openalex.org/F4320321992","display_name":"Minist\u00e9rio da Ci\u00eancia, Tecnologia e Inova\u00e7\u00e3o","ror":"https://ror.org/050zdnc69"},{"id":"https://openalex.org/F4320328732","display_name":"Instituto Colombiano de Cr\u00e9dito Educativo y Estudios T\u00e9cnicos en el Exterior","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4313435377.pdf","grobid_xml":"https://content.openalex.org/works/W4313435377.grobid-xml"},"referenced_works_count":19,"referenced_works":["https://openalex.org/W1596398041","https://openalex.org/W1988537289","https://openalex.org/W2020134788","https://openalex.org/W2055043387","https://openalex.org/W2323326409","https://openalex.org/W2895074862","https://openalex.org/W2946106749","https://openalex.org/W2971848043","https://openalex.org/W2990963479","https://openalex.org/W2996124191","https://openalex.org/W3000596652","https://openalex.org/W3090476081","https://openalex.org/W3152539674","https://openalex.org/W3164697368","https://openalex.org/W3171040846","https://openalex.org/W3196032567","https://openalex.org/W4220724970","https://openalex.org/W6635562293","https://openalex.org/W6772677343"],"related_works":["https://openalex.org/W2170496993","https://openalex.org/W1919879969","https://openalex.org/W2165640100","https://openalex.org/W2029750512","https://openalex.org/W1709622954","https://openalex.org/W2952377671","https://openalex.org/W4292960220","https://openalex.org/W3094269189","https://openalex.org/W1814949048","https://openalex.org/W2114759476"],"abstract_inverted_index":{"Sugarcane":[0],"is":[1],"a":[2,32,71,122],"species":[3],"of":[4,77,103,119,132],"tall":[5],"grass":[6],"with":[7,107],"high":[8],"biomass":[9],"and":[10,13,25,50,84,121,130,154,156,182],"sucrose":[11],"production,":[12],"the":[14,42,100,104,116,140,159],"world\u2019s":[15],"largest":[16],"crop":[17],"by":[18],"production":[19],"quantity.":[20],"Its":[21],"evolutionary":[22],"environment":[23],"adaptation":[24],"anthropogenic":[26],"breeding":[27],"response":[28],"have":[29,38],"resulted":[30],"in":[31,41,88],"complex":[33],"autopolyploid":[34],"genome.":[35],"Few":[36],"efforts":[37],"been":[39],"reported":[40],"literature":[43],"to":[44,90,111,126,138,145],"document":[45],"this":[46,93],"organism\u2019s":[47],"gene":[48,57,184],"co-expression":[49,176],"annotation,":[51],"and,":[52],"when":[53],"available,":[54],"use":[55],"different":[56],"identifiers":[58],"that":[59,73],"cannot":[60],"be":[61],"easily":[62],"associated":[63],"across":[64],"studies.":[65],"This":[66],"data":[67,96],"descriptor":[68],"paper":[69],"presents":[70],"dataset":[72],"consolidates":[74],"expression":[75,141,149],"matrices":[76,150],"two":[78,105,117,160],"Saccharum":[79],"spontaneum":[80],"AP85-441":[81],"genome":[82,161],"versions":[83],"an":[85],"algorithm":[86,125],"implemented":[87],"Python":[89],"mechanically":[91],"obtain":[92],"dataset.":[94],"The":[95,147],"are":[97,136],"processed":[98],"from":[99,143,158],"allele-level":[101],"information":[102],"sources,":[106],"BLASTn":[108],"used":[109,137],"bidirectionally":[110],"suggest":[112],"feasible":[113],"mappings":[114],"between":[115],"sets":[118],"alleles,":[120],"graph-matching":[123],"optimization":[124],"maximize":[127],"global":[128],"identity":[129],"uniqueness":[131],"genes.":[133,146],"Association":[134],"tables":[135],"consolidate":[139],"values":[142],"alleles":[144],"contributed":[148],"comprise":[151],"96":[152],"experiments":[153],"109,050":[155],"35,516":[157],"versions.":[162],"They":[163],"can":[164],"represent":[165],"significant":[166],"computational":[167],"cost":[168],"reduction":[169],"for":[170],"further":[171],"research":[172],"on,":[173],"e.g.,":[174],"sugarcane":[175],"network":[177],"generation,":[178],"functional":[179],"annotation":[180],"prediction,":[181],"stress-specific":[183],"identification.":[185]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-03-27T05:58:40.876381","created_date":"2023-01-06T00:00:00"}