{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,27]],"date-time":"2025-10-27T10:14:31Z","timestamp":1761560071197,"version":"3.41.2"},"reference-count":50,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2022,5,30]],"date-time":"2022-05-30T00:00:00Z","timestamp":1653868800000},"content-version":"vor","delay-in-days":149,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000038","name":"Natural Sciences and Engineering Research Council of Canada","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,1,10]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>SARS-CoV-2, the virus that causes COVID-19, is a current concern for people worldwide. The virus has recently spread worldwide and is out of control in several countries, putting the outbreak into a terrifying phase. Machine learning with transcriptome analysis has advanced in recent years. Its outstanding performance in several fields has emerged as a potential option to find out how SARS-CoV-2 is related to other diseases. Idiopathic pulmonary fibrosis (IPF) disease is caused by long-term lung injury, a risk factor for SARS-CoV-2. In this article, we used a variety of combinatorial statistical approaches, machine learning, and bioinformatics tools to investigate how the SARS-CoV-2 affects IPF patients\u2019 complexity. For this study, we employed two RNA-seq datasets. The unique contributions include common genes identification to identify shared pathways and drug targets, PPI network to identify hub-genes and basic modules, and the interaction of transcription factors (TFs) genes and TFs\u2013miRNAs with common differentially expressed genes also placed on the datasets. Furthermore, we used gene ontology and molecular pathway analysis to do functional analysis and discovered that IPF patients have certain standard connections with the SARS-CoV-2 virus. A detailed investigation was carried out to recommend therapeutic compounds for IPF patients affected by the SARS-CoV-2 virus.<\/jats:p>","DOI":"10.1093\/biomethods\/bpac013","type":"journal-article","created":{"date-parts":[[2022,5,31]],"date-time":"2022-05-31T22:15:15Z","timestamp":1654035315000},"source":"Crossref","is-referenced-by-count":10,"title":["MLBioIGE: integration and interplay of machine learning and bioinformatics approach to identify the genetic effect of SARS-COV-2 on idiopathic pulmonary fibrosis patients"],"prefix":"10.1093","volume":"7","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-4435-7856","authenticated-orcid":false,"given":"Sk","family":"Tanzir Mehedi","sequence":"first","affiliation":[{"name":"Department of Information Technology, University of Information Technology and Sciences , Baridhara, Dhaka-1212, Bangladesh"},{"name":"Group of Bio-PhotomatiX, Department of Information and Communication Technology, Mawlana Bhashani Science and Technology University , Santosh, Tangail 1902, Bangladesh"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4034-9819","authenticated-orcid":false,"given":"Kawsar","family":"Ahmed","sequence":"additional","affiliation":[{"name":"Department of Electrical and Computer Engineering, University of Saskatchewan , Saskatoon, SK S7N 5A9, Canada"},{"name":"Group of Bio-PhotomatiX, Department of Information and Communication Technology, Mawlana Bhashani Science and Technology University , Santosh, Tangail 1902, Bangladesh"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8799-5965","authenticated-orcid":false,"given":"Francis M","family":"Bui","sequence":"additional","affiliation":[{"name":"Department of Electrical and Computer Engineering, University of Saskatchewan , Saskatoon, SK S7N 5A9, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Musfikur","family":"Rahaman","sequence":"additional","affiliation":[{"name":"Department of Information Technology, University of Information Technology and Sciences , Baridhara, Dhaka-1212, Bangladesh"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Imran","family":"Hossain","sequence":"additional","affiliation":[{"name":"Department of Information Technology, University of Information Technology and Sciences , Baridhara, Dhaka-1212, Bangladesh"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tareq Mahmud","family":"Tonmoy","sequence":"additional","affiliation":[{"name":"Department of Information Technology, University of Information Technology and Sciences , Baridhara, Dhaka-1212, Bangladesh"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rakibul Alam","family":"Limon","sequence":"additional","affiliation":[{"name":"Department of Information Technology, University of Information Technology and Sciences , Baridhara, Dhaka-1212, Bangladesh"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sobhy M","family":"Ibrahim","sequence":"additional","affiliation":[{"name":"Department of Biochemistry, College of Science, King Saud University , Riyadh 11451, Saudi Arabia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0756-1006","authenticated-orcid":false,"given":"Mohammad Ali","family":"Moni","sequence":"additional","affiliation":[{"name":"Faculty of Health and Behavioural Sciences, School of Health and Rehabilitation Sciences, The University of Queensland , St Lucia, QLD 4072, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2022,5,30]]},"reference":[{"key":"2022062112435185500_bpac013-B1","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1038\/s41564-020-0695-z","article-title":"The species severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2","volume":"5","author":"Coronaviridae Study Group of the International Committee on Taxonomy of Viruses","year":"2020","journal-title":"Nat Microbiol"},{"author":"National Foundation for Infectious Diseases","key":"2022062112435185500_bpac013-B2"},{"key":"2022062112435185500_bpac013-B3","doi-asserted-by":"crossref","first-page":"1177","DOI":"10.1056\/NEJMc2001737","article-title":"SARS-CoV-2 viral load in upper respiratory specimens of infected patients","volume":"382","author":"Zou","year":"2020","journal-title":"N Engl J Med"},{"author":"Wikipedia","key":"2022062112435185500_bpac013-B4"},{"author":"World Health Organization","key":"2022062112435185500_bpac013-B5"},{"author":"World Health Organization. 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