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23 results

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Page 1
A reference quality, fully annotated diploid genome from a Saudi individual.
Kulmanov M, Tawfiq R, Liu Y, Al Ali H, Abdelhakim M, Alarawi M, Aldakhil H, Alhattab D, Alsolme EA, Althagafi A, Angelov A, Bougouffa S, Driguez P, Park C, Putra A, Reyes-Ramos AM, Hauser CAE, Cheung MS, Abedalthagafi MS, Hoehndorf R. Kulmanov M, et al. Among authors: abedalthagafi ms. Sci Data. 2024 Nov 23;11(1):1278. doi: 10.1038/s41597-024-04121-2. Sci Data. 2024. PMID: 39580486 Free article.
The evolution of computational research in a data-centric world.
Deshpande D, Chhugani K, Ramesh T, Pellegrini M, Shiffman S, Abedalthagafi MS, Alqahtani S, Ye J, Liu XS, Leek JT, Brazma A, Ophoff RA, Rao G, Butte AJ, Moore JH, Katritch V, Mangul S. Deshpande D, et al. Among authors: abedalthagafi ms. Cell. 2024 Aug 22;187(17):4449-4457. doi: 10.1016/j.cell.2024.07.045. Cell. 2024. PMID: 39178828 Review.
Packaging and containerization of computational methods.
Alser M, Lawlor B, Abdill RJ, Waymost S, Ayyala R, Rajkumar N, LaPierre N, Brito J, Ribeiro-Dos-Santos AM, Almadhoun N, Sarwal V, Firtina C, Osinski T, Eskin E, Hu Q, Strong D, Kim BBD, Abedalthagafi MS, Mutlu O, Mangul S. Alser M, et al. Among authors: abedalthagafi ms. Nat Protoc. 2024 Sep;19(9):2529-2539. doi: 10.1038/s41596-024-00986-0. Epub 2024 Apr 2. Nat Protoc. 2024. PMID: 38565959 Review.
Fusing Peptide Epitopes for Advanced Multiplex Serological Testing for SARS-CoV-2 Antibody Detection.
Aldoukhi AH, Bilalis P, Alhattab DM, Valle-Pérez AU, Susapto HH, Pérez-Pedroza R, Backhoff-García E, Alsawaf SM, Alshehri S, Boshah H, Alrashoudi AA, Aljabr WA, Alaamery M, Alrashed M, Hasanato RM, Farzan RA, Alsubki RA, Moretti M, Abedalthagafi MS, Hauser CAE. Aldoukhi AH, et al. Among authors: abedalthagafi ms. ACS Bio Med Chem Au. 2023 Aug 30;4(1):37-52. doi: 10.1021/acsbiomedchemau.3c00010. eCollection 2024 Feb 21. ACS Bio Med Chem Au. 2023. PMID: 38404747 Free PMC article.
Analytical code sharing practices in biomedical research.
Sharma NK, Ayyala R, Deshpande D, Patel YM, Munteanu V, Ciorba D, Fiscutean A, Vahed M, Sarkar A, Guo R, Moore A, Darci-Maher N, Nogoy NA, Abedalthagafi MS, Mangul S. Sharma NK, et al. Among authors: abedalthagafi ms. bioRxiv [Preprint]. 2023 Aug 7:2023.07.31.551384. doi: 10.1101/2023.07.31.551384. bioRxiv. 2023. Update in: PeerJ Comput Sci. 2024 Jun 28;10:e2066. doi: 10.7717/peerj-cs.2066. PMID: 37609176 Free PMC article. Updated. Preprint.
Rigorous benchmarking of T-cell receptor repertoire profiling methods for cancer RNA sequencing.
Peng K, Nowicki TS, Campbell K, Vahed M, Peng D, Meng Y, Nagareddy A, Huang YN, Karlsberg A, Miller Z, Brito J, Nadel B, Pak VM, Abedalthagafi MS, Burkhardt AM, Alachkar H, Ribas A, Mangul S. Peng K, et al. Among authors: abedalthagafi ms. Brief Bioinform. 2023 Jul 20;24(4):bbad220. doi: 10.1093/bib/bbad220. Brief Bioinform. 2023. PMID: 37291798 Free PMC article.
Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative.
Butler-Laporte G, Povysil G, Kosmicki JA, Cirulli ET, Drivas T, Furini S, Saad C, Schmidt A, Olszewski P, Korotko U, Quinodoz M, Çelik E, Kundu K, Walter K, Jung J, Stockwell AD, Sloofman LG, Jordan DM, Thompson RC, Del Valle D, Simons N, Cheng E, Sebra R, Schadt EE, Kim-Schulze S, Gnjatic S, Merad M, Buxbaum JD, Beckmann ND, Charney AW, Przychodzen B, Chang T, Pottinger TD, Shang N, Brand F, Fava F, Mari F, Chwialkowska K, Niemira M, Pula S, Baillie JK, Stuckey A, Salas A, Bello X, Pardo-Seco J, Gómez-Carballa A, Rivero-Calle I, Martinón-Torres F, Ganna A, Karczewski KJ, Veerapen K, Bourgey M, Bourque G, Eveleigh RJ, Forgetta V, Morrison D, Langlais D, Lathrop M, Mooser V, Nakanishi T, Frithiof R, Hultström M, Lipcsey M, Marincevic-Zuniga Y, Nordlund J, Schiabor Barrett KM, Lee W, Bolze A, White S, Riffle S, Tanudjaja F, Sandoval E, Neveux I, Dabe S, Casadei N, Motameny S, Alaamery M, Massadeh S, Aljawini N, Almutairi MS, Arabi YM, Alqahtani SA, Al Harthi FS, Almutairi A, Alqubaishi F, Alotaibi S, Binowayn A, Alsolm EA, El Bardisy H, Fawzy M, Cai F, Soranzo N, Butterworth A; COVID-19 Host Genetics Initiative; DeCOI Host Genetics Group; GEN-COVID Multicenter Study (Italy); Mount S… See abstract for full author list ➔ Butler-Laporte G, et al. Among authors: abedalthagafi ms. PLoS Genet. 2022 Nov 3;18(11):e1010367. doi: 10.1371/journal.pgen.1010367. eCollection 2022 Nov. PLoS Genet. 2022. PMID: 36327219 Free PMC article.
Unlocking capacities of genomics for the COVID-19 response and future pandemics.
Knyazev S, Chhugani K, Sarwal V, Ayyala R, Singh H, Karthikeyan S, Deshpande D, Baykal PI, Comarova Z, Lu A, Porozov Y, Vasylyeva TI, Wertheim JO, Tierney BT, Chiu CY, Sun R, Wu A, Abedalthagafi MS, Pak VM, Nagaraj SH, Smith AL, Skums P, Pasaniuc B, Komissarov A, Mason CE, Bortz E, Lemey P, Kondrashov F, Beerenwinkel N, Lam TT, Wu NC, Zelikovsky A, Knight R, Crandall KA, Mangul S. Knyazev S, et al. Among authors: abedalthagafi ms. Nat Methods. 2022 Apr;19(4):374-380. doi: 10.1038/s41592-022-01444-z. Nat Methods. 2022. PMID: 35396471 Free PMC article.
23 results