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Distinct Escherichia coli transcriptional profiles in the guts of recurrent UTI sufferers revealed by pan-genome hybrid selection.
Young MG, Straub TJ, Worby CJ, Metsky HC, Gnirke A, Bronson RA, van Dijk LR, Desjardins CA, Matranga C, Qu J, Dodson K, Schreiber HL 4th, Manson AL, Hultgren SJ, Earl AM. Young MG, et al. Among authors: gnirke a. bioRxiv [Preprint]. 2024 Feb 29:2024.02.29.582780. doi: 10.1101/2024.02.29.582780. bioRxiv. 2024. PMID: 38463963 Free PMC article. Preprint.
Comparative genomics of Cryptococcus and Kwoniella reveals pathogenesis evolution and contrasting karyotype dynamics via intercentromeric recombination or chromosome fusion.
Coelho MA, David-Palma M, Shea T, Bowers K, McGinley-Smith S, Mohammad AW, Gnirke A, Yurkov AM, Nowrousian M, Sun S, Cuomo CA, Heitman J. Coelho MA, et al. Among authors: gnirke a. bioRxiv [Preprint]. 2024 Jan 13:2023.12.27.573464. doi: 10.1101/2023.12.27.573464. bioRxiv. 2024. PMID: 38234769 Free PMC article. Preprint.
A rapid, low-cost, and highly sensitive SARS-CoV-2 diagnostic based on whole-genome sequencing.
Adastra PA, Durand NC, Mitra N, Pulido SG, Mahajan R, Blackburn A, Colaric ZL, Theisen JWM, Weisz D, Dudchenko O, Gnirke A, Rao SSP, Kaur P, Aiden EL, Aiden AP. Adastra PA, et al. Among authors: gnirke a. PLoS One. 2023 Nov 30;18(11):e0294283. doi: 10.1371/journal.pone.0294283. eCollection 2023. PLoS One. 2023. PMID: 38032990 Free PMC article.
DNA hypomethylation silences anti-tumor immune genes in early prostate cancer and CTCs.
Guo H, Vuille JA, Wittner BS, Lachtara EM, Hou Y, Lin M, Zhao T, Raman AT, Russell HC, Reeves BA, Pleskow HM, Wu CL, Gnirke A, Meissner A, Efstathiou JA, Lee RJ, Toner M, Aryee MJ, Lawrence MS, Miyamoto DT, Maheswaran S, Haber DA. Guo H, et al. Among authors: gnirke a. Cell. 2023 Jun 22;186(13):2765-2782.e28. doi: 10.1016/j.cell.2023.05.028. Epub 2023 Jun 15. Cell. 2023. PMID: 37327786 Free PMC article.
Activation of Notch and Myc Signaling via B-cell-Restricted Depletion of Dnmt3a Generates a Consistent Murine Model of Chronic Lymphocytic Leukemia.
Biran A, Yin S, Kretzmer H, Ten Hacken E, Parvin S, Lucas F, Uduman M, Gutierrez C, Dangle N, Billington L, Regis FF, Rassenti LZ, Mohammad A, Hoffmann GB, Stevenson K, Zheng M, Witten E, Fernandes SM, Tausch E, Sun C, Stilgenbauer S, Brown JR, Kipps TJ, Aster JC, Gnirke A, Neuberg DS, Letai A, Wang L, Carrasco RD, Meissner A, Wu CJ. Biran A, et al. Among authors: gnirke a. Cancer Res. 2021 Dec 15;81(24):6117-6130. doi: 10.1158/0008-5472.CAN-21-1273. Epub 2021 Oct 22. Cancer Res. 2021. PMID: 34686499 Free PMC article.
Smart-RRBS for single-cell methylome and transcriptome analysis.
Gu H, Raman AT, Wang X, Gaiti F, Chaligne R, Mohammad AW, Arczewska A, Smith ZD, Landau DA, Aryee MJ, Meissner A, Gnirke A. Gu H, et al. Among authors: gnirke a. Nat Protoc. 2021 Aug;16(8):4004-4030. doi: 10.1038/s41596-021-00571-9. Epub 2021 Jul 9. Nat Protoc. 2021. PMID: 34244697 Free PMC article. Review.
Discovery of Candidate DNA Methylation Cancer Driver Genes.
Pan H, Renaud L, Chaligne R, Bloehdorn J, Tausch E, Mertens D, Fink AM, Fischer K, Zhang C, Betel D, Gnirke A, Imielinski M, Moreaux J, Hallek M, Meissner A, Stilgenbauer S, Wu CJ, Elemento O, Landau DA. Pan H, et al. Among authors: gnirke a. Cancer Discov. 2021 Sep;11(9):2266-2281. doi: 10.1158/2159-8290.CD-20-1334. Epub 2021 May 10. Cancer Discov. 2021. PMID: 33972312 Free PMC article. Clinical Trial.
Preneoplastic Alterations Define CLL DNA Methylome and Persist through Disease Progression and Therapy.
Kretzmer H, Biran A, Purroy N, Lemvigh CK, Clement K, Gruber M, Gu H, Rassenti L, Mohammad AW, Lesnick C, Slager SL, Braggio E, Shanafelt TD, Kay NE, Fernandes SM, Brown JR, Wang L, Li S, Livak KJ, Neuberg DS, Klages S, Timmermann B, Kipps TJ, Campo E, Gnirke A, Wu CJ, Meissner A. Kretzmer H, et al. Among authors: gnirke a. Blood Cancer Discov. 2021 Jan;2(1):54-69. doi: 10.1158/2643-3230.BCD-19-0058. Epub 2020 Dec 3. Blood Cancer Discov. 2021. PMID: 33604581 Free PMC article.
121 results