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SARS-CoV-2 genomes from Saudi Arabia implicate nucleocapsid mutations in host response and increased viral load.
Mourier T, Shuaib M, Hala S, Mfarrej S, Alofi F, Naeem R, Alsomali A, Jorgensen D, Subudhi AK, Ben Rached F, Guan Q, Salunke RP, Ooi A, Esau L, Douvropoulou O, Nugmanova R, Perumal S, Zhang H, Rajan I, Al-Omari A, Salih S, Shamsan A, Al Mutair A, Taha J, Alahmadi A, Khotani N, Alhamss A, Mahmoud A, Alquthami K, Dageeg A, Khogeer A, Hashem AM, Moraga P, Volz E, Almontashiri N, Pain A. Mourier T, et al. Among authors: pain a. Nat Commun. 2022 Feb 1;13(1):601. doi: 10.1038/s41467-022-28287-8. Nat Commun. 2022. PMID: 35105893 Free PMC article.
SVAMP: sequence variation analysis, maps and phylogeny.
Naeem R, Hidayah L, Preston MD, Clark TG, Pain A. Naeem R, et al. Among authors: pain a. Bioinformatics. 2014 Aug 1;30(15):2227-9. doi: 10.1093/bioinformatics/btu176. Epub 2014 Apr 3. Bioinformatics. 2014. PMID: 24700318 Free PMC article.
SUMMARY: SVAMP is a stand-alone desktop application to visualize genomic variants (in variant call format) in the context of geographical metadata. ...AVAILABILITY AND IMPLEMENTATION: The Qt/C++ software code, binaries, user manual and example datasets are available at htt …
SUMMARY: SVAMP is a stand-alone desktop application to visualize genomic variants (in variant call format) in the context of geograph …
Comprehensive evaluation of Toxoplasma gondii VEG and Neospora caninum LIV genomes with tachyzoite stage transcriptome and proteome defines novel transcript features.
Ramaprasad A, Mourier T, Naeem R, Malas TB, Moussa E, Panigrahi A, Vermont SJ, Otto TD, Wastling J, Pain A. Ramaprasad A, et al. Among authors: pain a. PLoS One. 2015 Apr 13;10(4):e0124473. doi: 10.1371/journal.pone.0124473. eCollection 2015. PLoS One. 2015. PMID: 25875305 Free PMC article.
Genomic expression catalogue of a global collection of BCG vaccine strains show evidence for highly diverged metabolic and cell-wall adaptations.
Abdallah AM, Hill-Cawthorne GA, Otto TD, Coll F, Guerra-Assunção JA, Gao G, Naeem R, Ansari H, Malas TB, Adroub SA, Verboom T, Ummels R, Zhang H, Panigrahi AK, McNerney R, Brosch R, Clark TG, Behr MA, Bitter W, Pain A. Abdallah AM, et al. Among authors: pain a. Sci Rep. 2015 Oct 21;5:15443. doi: 10.1038/srep15443. Sci Rep. 2015. PMID: 26487098 Free PMC article.
315 results