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Human Body Single-Cell Atlas of 3D Genome Organization and DNA Methylation.
Zhou J, Wu Y, Liu H, Tian W, Castanon RG, Bartlett A, Zhang Z, Yao G, Shi D, Clock B, Marcotte S, Nery JR, Liem M, Claffey N, Boggeman L, Barragan C, Drigo RAE, Weimer AK, Shi M, Cooper-Knock J, Zhang S, Snyder MP, Preissl S, Ren B, O'Connor C, Chen S, Luo C, Dixon JR, Ecker JR. Zhou J, et al. Among authors: zhang s, zhang z. bioRxiv [Preprint]. 2025 Mar 24:2025.03.23.644697. doi: 10.1101/2025.03.23.644697. bioRxiv. 2025. PMID: 40196612 Free PMC article. Preprint.
Common and rare variant analyses combined with single-cell multiomics reveal cell-type-specific molecular mechanisms of COVID-19 severity.
Zhang S, Cooper-Knock J, Weimer AK, Harvey C, Julian TH, Wang C, Li J, Furini S, Frullanti E, Fava F, Renieri A, Pan C, Song J, Billing-Ross P, Gao P, Shen X, Timpanaro IS, Kenna KP; VA Million Veteran Program; GEN-COVID Network; Davis MM, Tsao PS, Snyder MP. Zhang S, et al. medRxiv [Preprint]. 2021 Jun 21:2021.06.15.21258703. doi: 10.1101/2021.06.15.21258703. medRxiv. 2021. Update in: Cell Syst. 2022 Aug 17;13(8):598-614.e6. doi: 10.1016/j.cels.2022.05.007. PMID: 34189540 Free PMC article. Updated. Preprint.
Low expression of EXOSC2 protects against clinical COVID-19 and impedes SARS-CoV-2 replication.
Moll T, Odon V, Harvey C, Collins MO, Peden A, Franklin J, Graves E, Marshall JNG, Souza CDS, Zhang S, Azzouz M, Gordon D, Krogan N, Ferraiuolo L, Snyder MP, Shaw PJ, Rehwinkel J, Cooper-Knock J. Moll T, et al. Among authors: zhang s. bioRxiv [Preprint]. 2022 Mar 7:2022.03.06.483172. doi: 10.1101/2022.03.06.483172. bioRxiv. 2022. Update in: Life Sci Alliance. 2022 Oct 14;6(1):e202201449. doi: 10.26508/lsa.202201449. PMID: 35291294 Free PMC article. Updated. Preprint.
Multiomic analysis reveals cell-type-specific molecular determinants of COVID-19 severity.
Zhang S, Cooper-Knock J, Weimer AK, Shi M, Kozhaya L, Unutmaz D, Harvey C, Julian TH, Furini S, Frullanti E, Fava F, Renieri A, Gao P, Shen X, Timpanaro IS, Kenna KP, Baillie JK, Davis MM, Tsao PS, Snyder MP. Zhang S, et al. Cell Syst. 2022 Aug 17;13(8):598-614.e6. doi: 10.1016/j.cels.2022.05.007. Epub 2022 Jun 3. Cell Syst. 2022. PMID: 35690068 Free PMC article.
predicTTE: An accessible and optimal tool for time-to-event prediction in neurological diseases.
Weinreich M, McDonough H, Yacovzada N, Magen I, Cohen Y, Harvey C, Gornall S, Boddy S, Alix J, Mohseni N, Kurz JM, Kenna KP, Zhang S, Iacoangeli A, Al-Khleifat A, Snyder MP, Hobson E, Al-Chalabi A, Hornstein E, Elhaik E, Shaw PJ, McDermott C, Cooper-Knock J. Weinreich M, et al. Among authors: zhang s. bioRxiv [Preprint]. 2024 Jul 23:2024.07.20.604416. doi: 10.1101/2024.07.20.604416. bioRxiv. 2024. PMID: 39091819 Free PMC article. Preprint.
Evaluation of a biomarker for amyotrophic lateral sclerosis derived from a hypomethylated DNA signature of human motor neurons.
Harvey C, Nowak A, Zhang S, Moll T, Weimer AK, Barcons AM, Dos Santos Souza C, Ferraiuolo L, Kenna K, Zaitlen N, Caggiano C, Shaw PJ, Snyder MP, Mill J, Hannon E, Cooper-Knock J. Harvey C, et al. Among authors: zhang s. Res Sq [Preprint]. 2024 Nov 26:rs.3.rs-5397445. doi: 10.21203/rs.3.rs-5397445/v1. Res Sq. 2024. Update in: BMC Med Genomics. 2025 Jan 14;18(1):10. doi: 10.1186/s12920-025-02084-w. PMID: 39649175 Free PMC article. Updated. Preprint.
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