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Detection of low-frequency DNA variants by targeted sequencing of the Watson and Crick strands.
Cohen JD, Douville C, Dudley JC, Mog BJ, Popoli M, Ptak J, Dobbyn L, Silliman N, Schaefer J, Tie J, Gibbs P, Tomasetti C, Papadopoulos N, Kinzler KW, Vogelstein B. Cohen JD, et al. Among authors: dudley jc. Nat Biotechnol. 2021 Oct;39(10):1220-1227. doi: 10.1038/s41587-021-00900-z. Epub 2021 May 3. Nat Biotechnol. 2021. PMID: 33941929 Free PMC article.
Multiregion whole-exome sequencing of intraductal papillary mucinous neoplasms reveals frequent somatic KLF4 mutations predominantly in low-grade regions.
Fujikura K, Hosoda W, Felsenstein M, Song Q, Reiter JG, Zheng L, Beleva Guthrie V, Rincon N, Dal Molin M, Dudley J, Cohen JD, Wang P, Fischer CG, Braxton AM, Noë M, Jongepier M, Fernández-Del Castillo C, Mino-Kenudson M, Schmidt CM, Yip-Schneider MT, Lawlor RT, Salvia R, Roberts NJ, Thompson ED, Karchin R, Lennon AM, Jiao Y, Wood LD. Fujikura K, et al. Gut. 2021 May;70(5):928-939. doi: 10.1136/gutjnl-2020-321217. Epub 2020 Oct 7. Gut. 2021. PMID: 33028669 Free PMC article.
Detection of rare mutations, copy number alterations, and methylation in the same template DNA molecules.
Wang Y, Douville C, Cohen JD, Mattox A, Curtis S, Silliman N, Popoli M, Ptak J, Dobbyn L, Nehme N, Dudley JC, Summers M, Zhang M, Ho-Pham LT, Tran BNH, Tran TS, Nguyen TV, Bettegowda C, Papadopoulos N, Kinzler KW, Vogelstein B. Wang Y, et al. Among authors: dudley jc. Proc Natl Acad Sci U S A. 2023 Apr 11;120(15):e2220704120. doi: 10.1073/pnas.2220704120. Epub 2023 Apr 4. Proc Natl Acad Sci U S A. 2023. PMID: 37014860 Free PMC article.
Seq-ing the SINEs of central nervous system tumors in cerebrospinal fluid.
Douville C, Curtis S, Summers M, Azad TD, Rincon-Torroella J, Wang Y, Mattox A, Avigdor B, Dudley J, Materi J, Raj D, Nair S, Bhanja D, Tuohy K, Dobbyn L, Popoli M, Ptak J, Nehme N, Silliman N, Blair C, Judge K, Gallia GL, Groves M, Jackson CM, Jackson EM, Laterra J, Lim M, Mukherjee D, Weingart J, Naidoo J, Koschmann C, Smith N, Schreck KC, Pardo CA, Glantz M, Holdhoff M, Kinzler KW, Papadopoulos N, Vogelstein B, Bettegowda C. Douville C, et al. Cell Rep Med. 2023 Aug 15;4(8):101148. doi: 10.1016/j.xcrm.2023.101148. Epub 2023 Aug 7. Cell Rep Med. 2023. PMID: 37552989 Free PMC article.
Machine learning to detect the SINEs of cancer.
Douville C, Lahouel K, Kuo A, Grant H, Avigdor BE, Curtis SD, Summers M, Cohen JD, Wang Y, Mattox A, Dudley J, Dobbyn L, Popoli M, Ptak J, Nehme N, Silliman N, Blair C, Romans K, Thoburn C, Gizzi J, Schoen RE, Tie J, Gibbs P, Ho-Pham LT, Tran BNH, Tran TS, Nguyen TV, Goggins M, Wolfgang CL, Wang TL, Shih IM, Lennon AM, Hruban RH, Bettegowda C, Kinzler KW, Papadopoulos N, Vogelstein B, Tomasetti C. Douville C, et al. Sci Transl Med. 2024 Jan 24;16(731):eadi3883. doi: 10.1126/scitranslmed.adi3883. Epub 2024 Jan 24. Sci Transl Med. 2024. PMID: 38266106
37 results