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Gene trajectory inference for single-cell data by optimal transport metrics.
Qu R, Cheng X, Sefik E, Stanley Iii JS, Landa B, Strino F, Platt S, Garritano J, Odell ID, Coifman R, Flavell RA, Myung P, Kluger Y. Qu R, et al. Among authors: sefik e. Nat Biotechnol. 2024 Apr 5. doi: 10.1038/s41587-024-02186-3. Online ahead of print. Nat Biotechnol. 2024. PMID: 38580861
Detection of differentially abundant cell subpopulations in scRNA-seq data.
Zhao J, Jaffe A, Li H, Lindenbaum O, Sefik E, Jackson R, Cheng X, Flavell RA, Kluger Y. Zhao J, et al. Among authors: sefik e. Proc Natl Acad Sci U S A. 2021 Jun 1;118(22):e2100293118. doi: 10.1073/pnas.2100293118. Proc Natl Acad Sci U S A. 2021. PMID: 34001664 Free PMC article.
A humanized mouse model of chronic COVID-19.
Sefik E, Israelow B, Mirza H, Zhao J, Qu R, Kaffe E, Song E, Halene S, Meffre E, Kluger Y, Nussenzweig M, Wilen CB, Iwasaki A, Flavell RA. Sefik E, et al. Nat Biotechnol. 2022 Jun;40(6):906-920. doi: 10.1038/s41587-021-01155-4. Epub 2021 Dec 17. Nat Biotechnol. 2022. PMID: 34921308 Free PMC article.
Inflammasome activation in infected macrophages drives COVID-19 pathology.
Sefik E, Qu R, Junqueira C, Kaffe E, Mirza H, Zhao J, Brewer JR, Han A, Steach HR, Israelow B, Blackburn HN, Velazquez SE, Chen YG, Halene S, Iwasaki A, Meffre E, Nussenzweig M, Lieberman J, Wilen CB, Kluger Y, Flavell RA. Sefik E, et al. Nature. 2022 Jun;606(7914):585-593. doi: 10.1038/s41586-022-04802-1. Epub 2022 Apr 28. Nature. 2022. PMID: 35483404 Free PMC article.
IL-6 trans-signaling in a humanized mouse model of scleroderma.
Odell ID, Agrawal K, Sefik E, Odell AV, Caves E, Kirkiles-Smith NC, Horsley V, Hinchcliff M, Pober JS, Kluger Y, Flavell RA. Odell ID, et al. Among authors: sefik e. Proc Natl Acad Sci U S A. 2023 Sep 12;120(37):e2306965120. doi: 10.1073/pnas.2306965120. Epub 2023 Sep 5. Proc Natl Acad Sci U S A. 2023. PMID: 37669366 Free PMC article.
A humanized mouse model of chronic COVID-19 to evaluate disease mechanisms and treatment options.
Sefik E, Israelow B, Zhao J, Qu R, Song E, Mirza H, Kaffe E, Halene S, Meffre E, Kluger Y, Nussenzweig M, Wilen CB, Iwasaki A, Flavell RA. Sefik E, et al. Res Sq [Preprint]. 2021 Mar 17:rs.3.rs-279341. doi: 10.21203/rs.3.rs-279341/v1. Res Sq. 2021. Update in: Nat Biotechnol. 2022 Jun;40(6):906-920. doi: 10.1038/s41587-021-01155-4. PMID: 33758831 Free PMC article. Updated. Preprint.
Enteric Nervous System-Derived IL-18 Orchestrates Mucosal Barrier Immunity.
Jarret A, Jackson R, Duizer C, Healy ME, Zhao J, Rone JM, Bielecki P, Sefik E, Roulis M, Rice T, Sivanathan KN, Zhou T, Solis AG, Honcharova-Biletska H, Vélez K, Hartner S, Low JS, Qu R, de Zoete MR, Palm NW, Ring AM, Weber A, Moor AE, Kluger Y, Nowarski R, Flavell RA. Jarret A, et al. Among authors: sefik e. Cell. 2020 Jan 9;180(1):50-63.e12. doi: 10.1016/j.cell.2019.12.016. Cell. 2020. PMID: 31923399 Free PMC article.
Autologous humanized PDX modeling for immuno-oncology recapitulates features of the human tumor microenvironment.
Chiorazzi M, Martinek J, Krasnick B, Zheng Y, Robbins KJ, Qu R, Kaufmann G, Skidmore Z, Juric M, Henze LA, Brösecke F, Adonyi A, Zhao J, Shan L, Sefik E, Mudd J, Bi Y, Goedegebuure SP, Griffith M, Griffith O, Oyedeji A, Fertuzinhos S, Garcia-Milian R, Boffa D, Detterbeck F, Dhanasopon A, Blasberg J, Judson B, Gettinger S, Politi K, Kluger Y, Palucka K, Fields RC, Flavell RA. Chiorazzi M, et al. Among authors: sefik e. J Immunother Cancer. 2023 Jul;11(7):e006921. doi: 10.1136/jitc-2023-006921. J Immunother Cancer. 2023. PMID: 37487666 Free PMC article.
77 results