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How can systems approaches help us understand and treat infectious disease?
Kuchina A, Yang J, Aldridge B, Janes KA, Subramanian N, Krogan NJ, Bouhaddou M, Einav S, Papin J, Germain RN. Kuchina A, et al. Among authors: krogan nj. Cell Syst. 2022 Dec 21;13(12):945-949. doi: 10.1016/j.cels.2022.11.009. Cell Syst. 2022. PMID: 36549272 Free article.
A multi-scale map of protein assemblies in the DNA damage response.
Kratz A, Kim M, Kelly MR, Zheng F, Koczor CA, Li J, Ono K, Qin Y, Churas C, Chen J, Pillich RT, Park J, Modak M, Collier R, Licon K, Pratt D, Sobol RW, Krogan NJ, Ideker T. Kratz A, et al. Among authors: krogan nj. Cell Syst. 2023 Jun 21;14(6):447-463.e8. doi: 10.1016/j.cels.2023.04.007. Epub 2023 May 22. Cell Syst. 2023. PMID: 37220749 Free PMC article.
SARS-CoV-2 evolution balances conflicting roles of N protein phosphorylation.
Syed AM, Ciling A, Chen IP, Carlson CR, Adly AN, Martin HS, Taha TY, Khalid MM, Price N, Bouhaddou M, Ummadi MR, Moen JM, Krogan NJ, Morgan DO, Ott M, Doudna JA. Syed AM, et al. Among authors: krogan nj. PLoS Pathog. 2024 Nov 21;20(11):e1012741. doi: 10.1371/journal.ppat.1012741. Online ahead of print. PLoS Pathog. 2024. PMID: 39571001 Free article.
Protocol for mapping differential protein-protein interaction networks using affinity purification-mass spectrometry.
Kaushal P, Ummadi MR, Jang GM, Delgado Y, Makanani SK, Alba K, Winters DM, Blanc SF, Xu J, Polacco B, Zhou Y, Stevenson E, Eckhardt M, Zuliani-Alvarez L, Kaake R, Swaney DL, Krogan NJ, Bouhaddou M. Kaushal P, et al. Among authors: krogan nj. STAR Protoc. 2024 Nov 2;5(4):103286. doi: 10.1016/j.xpro.2024.103286. Online ahead of print. STAR Protoc. 2024. PMID: 39488835 Free PMC article.
MerlinS13 phosphorylation regulates meningioma Wnt signaling and magnetic resonance imaging features.
Eaton CD, Avalos L, Liu SJ, Chen Z, Zakimi N, Casey-Clyde T, Bisignano P, Lucas CG, Stevenson E, Choudhury A, Vasudevan HN, Magill ST, Young JS, Krogan NJ, Villanueva-Meyer JE, Swaney DL, Raleigh DR. Eaton CD, et al. Among authors: krogan nj. Nat Commun. 2024 Sep 9;15(1):7873. doi: 10.1038/s41467-024-52284-8. Nat Commun. 2024. PMID: 39251601 Free PMC article.
Fibrin drives thromboinflammation and neuropathology in COVID-19.
Ryu JK, Yan Z, Montano M, Sozmen EG, Dixit K, Suryawanshi RK, Matsui Y, Helmy E, Kaushal P, Makanani SK, Deerinck TJ, Meyer-Franke A, Rios Coronado PE, Trevino TN, Shin MG, Tognatta R, Liu Y, Schuck R, Le L, Miyajima H, Mendiola AS, Arun N, Guo B, Taha TY, Agrawal A, MacDonald E, Aries O, Yan A, Weaver O, Petersen MA, Meza Acevedo R, Alzamora MDPS, Thomas R, Traglia M, Kouznetsova VL, Tsigelny IF, Pico AR, Red-Horse K, Ellisman MH, Krogan NJ, Bouhaddou M, Ott M, Greene WC, Akassoglou K. Ryu JK, et al. Among authors: krogan nj. Nature. 2024 Sep;633(8031):905-913. doi: 10.1038/s41586-024-07873-4. Epub 2024 Aug 28. Nature. 2024. PMID: 39198643 Free PMC article.
The Mac1 ADP-ribosylhydrolase is a Therapeutic Target for SARS-CoV-2.
Suryawanshi RK, Jaishankar P, Correy GJ, Rachman MM, O'Leary PC, Taha TY, Zapatero-Belinchón FJ, McCavittMalvido M, Doruk YU, Stevens MGV, Diolaiti ME, Jogalekar MP, Richards AL, Montano M, Rosecrans J, Matthay M, Togo T, Gonciarz RL, Gopalkrishnan S, Neitz RJ, Krogan NJ, Swaney DL, Shoichet BK, Ott M, Renslo AR, Ashworth A, Fraser JS. Suryawanshi RK, et al. Among authors: krogan nj. bioRxiv [Preprint]. 2024 Aug 29:2024.08.08.606661. doi: 10.1101/2024.08.08.606661. bioRxiv. 2024. PMID: 39149230 Free PMC article. Preprint.
Interactome of the HIV-1 proteome and human host RNA.
Schynkel T, Snippenberg WV, Verniers K, Jang GM, Krogan NJ, Mestdagh P, Vandekerckhove L, Trypsteen W. Schynkel T, et al. Among authors: krogan nj. EMBO Rep. 2024 Sep;25(9):4078-4090. doi: 10.1038/s44319-024-00222-6. Epub 2024 Aug 9. EMBO Rep. 2024. PMID: 39122863 Free PMC article.
A proximity proteomics pipeline with improved reproducibility and throughput.
Zhong X, Li Q, Polacco BJ, Patil T, Marley A, Foussard H, Khare P, Vartak R, Xu J, DiBerto JF, Roth BL, Eckhardt M, von Zastrow M, Krogan NJ, Hüttenhain R. Zhong X, et al. Among authors: krogan nj. Mol Syst Biol. 2024 Aug;20(8):952-971. doi: 10.1038/s44320-024-00049-2. Epub 2024 Jul 1. Mol Syst Biol. 2024. PMID: 38951684 Free PMC article.
371 results