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Sequence clustering confounds AlphaFold2.
Schafer JW, Chakravarty D, Chen EA, Porter LL. Schafer JW, et al. Among authors: chakravarty d. bioRxiv [Preprint]. 2024 Jan 9:2024.01.05.574434. doi: 10.1101/2024.01.05.574434. bioRxiv. 2024. PMID: 38313252 Free PMC article. Preprint.
AlphaFold2 has more to learn about protein energy landscapes.
Chakravarty D, Schafer JW, Chen EA, Thole JR, Porter LL. Chakravarty D, et al. bioRxiv [Preprint]. 2023 Dec 13:2023.12.12.571380. doi: 10.1101/2023.12.12.571380. bioRxiv. 2023. PMID: 38168383 Free PMC article. Preprint.
Precision Oncology: 2023 in Review.
Murciano-Goroff YR, Suehnholz SP, Drilon A, Chakravarty D. Murciano-Goroff YR, et al. Among authors: chakravarty d. Cancer Discov. 2023 Dec 12;13(12):2525-2531. doi: 10.1158/2159-8290.CD-23-1194. Cancer Discov. 2023. PMID: 38084089 Free PMC article. Review.
Enhanced clinical assessment of hematologic malignancies through routine paired tumor and normal sequencing.
Ptashkin RN, Ewalt MD, Jayakumaran G, Kiecka I, Bowman AS, Yao J, Casanova J, Lin YD, Petrova-Drus K, Mohanty AS, Bacares R, Benhamida J, Rana S, Razumova A, Vanderbilt C, Balakrishnan Rema A, Rijo I, Son-Garcia J, de Bruijn I, Zhu M, Lachhander S, Wang W, Haque MS, Seshan VE, Wang J, Liu Y, Nafa K, Borsu L, Zhang Y, Aypar U, Suehnholz SP, Chakravarty D, Park JH, Abdel-Wahab O, Mato AR, Xiao W, Roshal M, Yabe M, Batlevi CL, Giralt S, Salles G, Rampal R, Tallman M, Stein EM, Younes A, Levine RL, Perales MA, van den Brink MRM, Dogan A, Ladanyi M, Berger MF, Brannon AR, Benayed R, Zehir A, Arcila ME. Ptashkin RN, et al. Among authors: chakravarty d. Nat Commun. 2023 Oct 28;14(1):6895. doi: 10.1038/s41467-023-42585-9. Nat Commun. 2023. PMID: 37898613 Free PMC article.
Tumor sequencing of African ancestry reveals differences in clinically relevant alterations across common cancers.
Jiagge E, Jin DX, Newberg JY, Perea-Chamblee T, Pekala KR, Fong C, Waters M, Ma D, Dei-Adomakoh Y, Erb G, Arora KS, Maund SL, Njiraini N, Ntekim A, Kim S, Bai X, Thomas M, van Eeden R, Hegde P, Jee J, Chakravarty D, Schultz N, Berger MF, Frampton GM, Sokol ES, Carrot-Zhang J. Jiagge E, et al. Among authors: chakravarty d. Cancer Cell. 2023 Nov 13;41(11):1963-1971.e3. doi: 10.1016/j.ccell.2023.10.003. Epub 2023 Oct 26. Cancer Cell. 2023. PMID: 37890492 Free article.
Quantifying the Expanding Landscape of Clinical Actionability for Patients with Cancer.
Suehnholz SP, Nissan MH, Zhang H, Kundra R, Nandakumar S, Lu C, Carrero S, Dhaneshwar A, Fernandez N, Xu BW, Arcila ME, Zehir A, Syed A, Brannon AR, Rudolph JE, Paraiso E, Sabbatini PJ, Levine RL, Dogan A, Gao J, Ladanyi M, Drilon A, Berger MF, Solit DB, Schultz N, Chakravarty D. Suehnholz SP, et al. Among authors: chakravarty d. Cancer Discov. 2024 Jan 12;14(1):49-65. doi: 10.1158/2159-8290.CD-23-0467. Cancer Discov. 2024. PMID: 37849038 Free PMC article.
Molecular Characterization of Endometrial Carcinomas in Black and White Patients Reveals Disparate Drivers with Therapeutic Implications.
Weigelt B, Marra A, Selenica P, Rios-Doria E, Momeni-Boroujeni A, Berger MF, Arora K, Nemirovsky D, Iasonos A, Chakravarty D, Abu-Rustum NR, Da Cruz Paula A, Dessources K, Ellenson LH, Liu YL, Aghajanian C, Brown CL. Weigelt B, et al. Among authors: chakravarty d. Cancer Discov. 2023 Nov 1;13(11):2356-2369. doi: 10.1158/2159-8290.CD-23-0546. Cancer Discov. 2023. PMID: 37651310
318 results