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Integrative metabolomic and proteomic signatures define clinical outcomes in severe COVID-19.
Buyukozkan M, Alvarez-Mulett S, Racanelli AC, Schmidt F, Batra R, Hoffman KL, Sarwath H, Engelke R, Gomez-Escobar L, Simmons W, Benedetti E, Chetnik K, Zhang G, Schenck E, Suhre K, Choi JJ, Zhao Z, Racine-Brzostek S, Yang HS, Choi ME, Choi AMK, Cho SJ, Krumsiek J. Buyukozkan M, et al. iScience. 2022 Jul 15;25(7):104612. doi: 10.1016/j.isci.2022.104612. Epub 2022 Jun 17. iScience. 2022. PMID: 35756895 Free PMC article.
A strategy to incorporate prior knowledge into correlation network cutoff selection.
Benedetti E, Pučić-Baković M, Keser T, Gerstner N, Büyüközkan M, Štambuk T, Selman MHJ, Rudan I, Polašek O, Hayward C, Al-Amin H, Suhre K, Kastenmüller G, Lauc G, Krumsiek J. Benedetti E, et al. Among authors: buyukozkan m. Nat Commun. 2020 Oct 14;11(1):5153. doi: 10.1038/s41467-020-18675-3. Nat Commun. 2020. PMID: 33056991 Free PMC article.
Exogenous and Endogenous Sources of Serine Contribute to Colon Cancer Metabolism, Growth, and Resistance to 5-Fluorouracil.
Montrose DC, Saha S, Foronda M, McNally EM, Chen J, Zhou XK, Ha T, Krumsiek J, Buyukozkan M, Verma A, Elemento O, Yantiss RK, Chen Q, Gross SS, Galluzzi L, Dow LE, Dannenberg AJ. Montrose DC, et al. Among authors: buyukozkan m. Cancer Res. 2021 May 1;81(9):2275-2288. doi: 10.1158/0008-5472.CAN-20-1541. Epub 2021 Feb 1. Cancer Res. 2021. PMID: 33526512 Free PMC article.
maplet: an extensible R toolbox for modular and reproducible metabolomics pipelines.
Chetnik K, Benedetti E, Gomari DP, Schweickart A, Batra R, Buyukozkan M, Wang Z, Arnold M, Zierer J, Suhre K, Krumsiek J. Chetnik K, et al. Among authors: buyukozkan m. Bioinformatics. 2022 Jan 27;38(4):1168-1170. doi: 10.1093/bioinformatics/btab741. Bioinformatics. 2022. PMID: 34694386 Free PMC article.
Angiopoietin 2 Is Associated with Vascular Necroptosis Induction in Coronavirus Disease 2019 Acute Respiratory Distress Syndrome.
Price DR, Benedetti E, Hoffman KL, Gomez-Escobar L, Alvarez-Mulett S, Capili A, Sarwath H, Parkhurst CN, Lafond E, Weidman K, Ravishankar A, Cheong JG, Batra R, Büyüközkan M, Chetnik K, Easthausen I, Schenck EJ, Racanelli AC, Outtz Reed H, Laurence J, Josefowicz SZ, Lief L, Choi ME, Schmidt F, Borczuk AC, Choi AMK, Krumsiek J, Rafii S. Price DR, et al. Among authors: buyukozkan m. Am J Pathol. 2022 Jul;192(7):1001-1015. doi: 10.1016/j.ajpath.2022.04.002. Epub 2022 Apr 22. Am J Pathol. 2022. PMID: 35469796 Free PMC article.
Multi-omic comparative analysis of COVID-19 and bacterial sepsis-induced ARDS.
Batra R, Whalen W, Alvarez-Mulett S, Gomez-Escobar LG, Hoffman KL, Simmons W, Harrington J, Chetnik K, Buyukozkan M, Benedetti E, Choi ME, Suhre K, Schenck E, Choi AMK, Schmidt F, Cho SJ, Krumsiek J. Batra R, et al. Among authors: buyukozkan m. PLoS Pathog. 2022 Sep 19;18(9):e1010819. doi: 10.1371/journal.ppat.1010819. eCollection 2022 Sep. PLoS Pathog. 2022. PMID: 36121875 Free PMC article.
Urine-based multi-omic comparative analysis of COVID-19 and bacterial sepsis-induced ARDS.
Batra R, Uni R, Akchurin OM, Alvarez-Mulett S, Gómez-Escobar LG, Patino E, Hoffman KL, Simmons W, Whalen W, Chetnik K, Buyukozkan M, Benedetti E, Suhre K, Schenck E, Cho SJ, Choi AMK, Schmidt F, Choi ME, Krumsiek J. Batra R, et al. Among authors: buyukozkan m. Mol Med. 2023 Jan 26;29(1):13. doi: 10.1186/s10020-023-00609-6. Mol Med. 2023. PMID: 36703108 Free PMC article.
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