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Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing.
Replogle JM, Norman TM, Xu A, Hussmann JA, Chen J, Cogan JZ, Meer EJ, Terry JM, Riordan DP, Srinivas N, Fiddes IT, Arthur JG, Alvarado LJ, Pfeiffer KA, Mikkelsen TS, Weissman JS, Adamson B. Replogle JM, et al. Among authors: chen j. Nat Biotechnol. 2020 Aug;38(8):954-961. doi: 10.1038/s41587-020-0470-y. Epub 2020 Mar 30. Nat Biotechnol. 2020. PMID: 32231336 Free PMC article.
Genome-wide programmable transcriptional memory by CRISPR-based epigenome editing.
Nuñez JK, Chen J, Pommier GC, Cogan JZ, Replogle JM, Adriaens C, Ramadoss GN, Shi Q, Hung KL, Samelson AJ, Pogson AN, Kim JYS, Chung A, Leonetti MD, Chang HY, Kampmann M, Bernstein BE, Hovestadt V, Gilbert LA, Weissman JS. Nuñez JK, et al. Among authors: chen j. Cell. 2021 Apr 29;184(9):2503-2519.e17. doi: 10.1016/j.cell.2021.03.025. Epub 2021 Apr 9. Cell. 2021. PMID: 33838111 Free PMC article.
Standardized annotation of translated open reading frames.
Mudge JM, Ruiz-Orera J, Prensner JR, Brunet MA, Calvet F, Jungreis I, Gonzalez JM, Magrane M, Martinez TF, Schulz JF, Yang YT, Albà MM, Aspden JL, Baranov PV, Bazzini AA, Bruford E, Martin MJ, Calviello L, Carvunis AR, Chen J, Couso JP, Deutsch EW, Flicek P, Frankish A, Gerstein M, Hubner N, Ingolia NT, Kellis M, Menschaert G, Moritz RL, Ohler U, Roucou X, Saghatelian A, Weissman JS, van Heesch S. Mudge JM, et al. Among authors: chen j. Nat Biotechnol. 2022 Jul;40(7):994-999. doi: 10.1038/s41587-022-01369-0. Nat Biotechnol. 2022. PMID: 35831657 Free PMC article. No abstract available.
A CRISPR/Cas9-Engineered ARID1A-Deficient Human Gastric Cancer Organoid Model Reveals Essential and Nonessential Modes of Oncogenic Transformation.
Lo YH, Kolahi KS, Du Y, Chang CY, Krokhotin A, Nair A, Sobba WD, Karlsson K, Jones SJ, Longacre TA, Mah AT, Tercan B, Sockell A, Xu H, Seoane JA, Chen J, Shmulevich I, Weissman JS, Curtis C, Califano A, Fu H, Crabtree GR, Kuo CJ. Lo YH, et al. Among authors: chen j. Cancer Discov. 2021 Jun;11(6):1562-1581. doi: 10.1158/2159-8290.CD-20-1109. Epub 2021 Jan 15. Cancer Discov. 2021. PMID: 33451982 Free PMC article.
Structured elements drive extensive circular RNA translation.
Chen CK, Cheng R, Demeter J, Chen J, Weingarten-Gabbay S, Jiang L, Snyder MP, Weissman JS, Segal E, Jackson PK, Chang HY. Chen CK, et al. Among authors: chen j. Mol Cell. 2021 Oct 21;81(20):4300-4318.e13. doi: 10.1016/j.molcel.2021.07.042. Epub 2021 Aug 25. Mol Cell. 2021. PMID: 34437836 Free PMC article.
Developmental dynamics of RNA translation in the human brain.
Duffy EE, Finander B, Choi G, Carter AC, Pritisanac I, Alam A, Luria V, Karger A, Phu W, Sherman MA, Assad EG, Pajarillo N, Khitun A, Crouch EE, Ganesh S, Chen J, Berger B, Sestan N, O'Donnell-Luria A, Huang EJ, Griffith EC, Forman-Kay JD, Moses AM, Kalish BT, Greenberg ME. Duffy EE, et al. Among authors: chen j. Nat Neurosci. 2022 Oct;25(10):1353-1365. doi: 10.1038/s41593-022-01164-9. Epub 2022 Sep 28. Nat Neurosci. 2022. PMID: 36171426 Free PMC article.
Dynamic pathways of -1 translational frameshifting.
Chen J, Petrov A, Johansson M, Tsai A, O'Leary SE, Puglisi JD. Chen J, et al. Nature. 2014 Aug 21;512(7514):328-32. doi: 10.1038/nature13428. Epub 2014 Jun 11. Nature. 2014. PMID: 24919156 Free PMC article.
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