{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,10]],"date-time":"2026-04-10T17:58:39Z","timestamp":1775843919433,"version":"3.50.1"},"reference-count":49,"publisher":"Oxford University Press (OUP)","issue":"6","license":[{"start":{"date-parts":[[2022,1,6]],"date-time":"2022-01-06T00:00:00Z","timestamp":1641427200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"name":"Graduate Programs of Genetics"},{"name":"Bioinformatics (PPG-Bioinfo) of Universidade Federal de Minas Gerais"},{"name":"CAPES (Coordena\u00e7\u00e3o de Aperfei\u00e7oamento de Pessoal de N\u00edvel Superior\u2014Brasil) \u2013 Finance","award":["001"],"award-info":[{"award-number":["001"]}]},{"name":"Pr\u00f3-Reitoria de Pesquisa-UFMG"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,3,4]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Motivation<\/jats:title>\n                  <jats:p>Insects possess a vast phenotypic diversity and key ecological roles. Several insect species also have medical, agricultural and veterinary importance as parasites and disease vectors. Therefore, strategies to identify potential essential genes in insects may reduce the resources needed to find molecular players in central processes of insect biology. However, most predictors of essential genes in multicellular eukaryotes using machine learning rely on expensive and laborious experimental data to be used as gene features, such as gene expression profiles or protein\u2013protein interactions, even though some of this information may not be available for the majority of insect species with genomic sequences available.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>Here, we present and validate a machine learning strategy to predict essential genes in insects using sequence-based intrinsic attributes (statistical and physicochemical data) together with the predictions of subcellular location and transcriptomic data, if available. We gathered information available in public databases describing essential and non-essential genes for Drosophila melanogaster (fruit fly, Diptera) and Tribolium castaneum (red flour beetle, Coleoptera). We proceeded by computing intrinsic and extrinsic attributes that were used to train statistical models in one species and tested by their capability of predicting essential genes in the other. Even models trained using only intrinsic attributes are capable of predicting genes in the other insect species, including the prediction of lineage-specific essential genes. Furthermore, the inclusion of RNA-Seq data is a major factor to increase classifier performance.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>The code, data and final models produced in this study are freely available at https:\/\/github.com\/g1o\/GeneEssentiality\/.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Supplementary information<\/jats:title>\n                  <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac009","type":"journal-article","created":{"date-parts":[[2022,1,4]],"date-time":"2022-01-04T20:10:33Z","timestamp":1641327033000},"page":"1504-1513","source":"Crossref","is-referenced-by-count":8,"title":["Cross-species prediction of essential genes in insects"],"prefix":"10.1093","volume":"38","author":[{"given":"Giovanni","family":"Marques de Castro","sequence":"first","affiliation":[{"name":"Departamento de Gen\u00e9tica, Ecologia e Evolu\u00e7\u00e3o, Instituto de Ci\u00eancias Biol\u00f3gicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zandora","family":"Hastenreiter","sequence":"additional","affiliation":[{"name":"Departamento de Gen\u00e9tica, Ecologia e Evolu\u00e7\u00e3o, Instituto de Ci\u00eancias Biol\u00f3gicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thiago Augusto","family":"Silva Monteiro","sequence":"additional","affiliation":[{"name":"Departamento de Gen\u00e9tica, Ecologia e Evolu\u00e7\u00e3o, Instituto de Ci\u00eancias Biol\u00f3gicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thieres Tayroni","family":"Martins da Silva","sequence":"additional","affiliation":[{"name":"Departamento de Gen\u00e9tica, Ecologia e Evolu\u00e7\u00e3o, Instituto de Ci\u00eancias Biol\u00f3gicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9671-9313","authenticated-orcid":false,"given":"Francisco","family":"Pereira Lobo","sequence":"additional","affiliation":[{"name":"Departamento de Gen\u00e9tica, Ecologia e Evolu\u00e7\u00e3o, Instituto de Ci\u00eancias Biol\u00f3gicas, Universidade Federal de Minas Gerais , Belo Horizonte, Minas Gerais, Brazil"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2022,1,6]]},"reference":[{"key":"2023020108585241000_btac009-B1","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1186\/1471-2105-10-290","article-title":"Towards the prediction of essential genes by integration of network topology, cellular localization and biological process information","volume":"10","author":"Acencio","year":"2009","journal-title":"BMC Bioinformatics"},{"key":"2023020108585241000_btac009-B2","doi-asserted-by":"crossref","first-page":"3387","DOI":"10.1093\/bioinformatics\/btx431","article-title":"DeepLoc: prediction of protein subcellular localization using deep learning","volume":"33","author":"Almagro Armenteros","year":"2017","journal-title":"Bioinformatics"},{"key":"2023020108585241000_btac009-B3","doi-asserted-by":"crossref","first-page":"612","DOI":"10.1016\/j.csbj.2020.02.022","article-title":"Essential gene prediction in Drosophila melanogaster using machine learning approaches based on sequence and functional features","volume":"18","author":"Aromolaran","year":"2020","journal-title":"Comput. 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