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Human cytomegalovirus infection coopts chromatin organization to diminish TEAD1 transcription factor activity.
Sayeed K, Parameswaran S, Beucler MJ, Edsall LE, VonHandorf A, Crowther A, Donmez O, Hass M, Richards S, Forney C, Wright J, Leong MML, Murray-Nerger LA, Gewurz BE, Kaufman KM, Harley JB, Zhao B, Miller WE, Kottyan LC, Weirauch MT. Sayeed K, et al. Among authors: donmez o. bioRxiv [Preprint]. 2024 May 22:2024.04.12.588762. doi: 10.1101/2024.04.12.588762. bioRxiv. 2024. PMID: 38645179 Free PMC article. Preprint.
Shared and distinct interactions of type 1 and type 2 Epstein-Barr Nuclear Antigen 2 with the human genome.
Viel KCMF, Parameswaran S, Donmez OA, Forney CR, Hass MR, Yin C, Jones SH, Prosser HK, Diouf AA, Gittens OE, Edsall LE, Chen X, Rowden H, Dunn KA, Guo R, VonHandorf A, Leong MML, Ernst K, Kaufman KM, Lawson LP, Gewurz B, Zhao B, Kottyan LC, Weirauch MT. Viel KCMF, et al. Among authors: donmez oa. BMC Genomics. 2024 Mar 12;25(1):273. doi: 10.1186/s12864-024-10183-8. BMC Genomics. 2024. PMID: 38475709 Free PMC article.
Systematic identification of genotype-dependent enhancer variants in eosinophilic esophagitis.
Shook MS, Lu X, Chen X, Parameswaran S, Edsall L, Trimarchi MP, Ernst K, Granitto M, Forney C, Donmez OA, Diouf AA, VonHandorf A, Rothenberg ME, Weirauch MT, Kottyan LC. Shook MS, et al. Among authors: donmez oa. Am J Hum Genet. 2024 Feb 1;111(2):280-294. doi: 10.1016/j.ajhg.2023.12.008. Epub 2024 Jan 5. Am J Hum Genet. 2024. PMID: 38183988 Free PMC article.
Epigenetic and transcriptional dysregulation in CD4+ T cells in patients with atopic dermatitis.
Eapen AA, Parameswaran S, Forney C, Edsall LE, Miller D, Donmez O, Dunn K, Lu X, Granitto M, Rowden H, Magier AZ, Pujato M, Chen X, Kaufman K, Bernstein DI, Devonshire AL, Rothenberg ME, Weirauch MT, Kottyan LC. Eapen AA, et al. Among authors: donmez o. PLoS Genet. 2022 May 16;18(5):e1009973. doi: 10.1371/journal.pgen.1009973. eCollection 2022 May. PLoS Genet. 2022. PMID: 35576187 Free PMC article.
Macrophage epigenetic memories of early life injury drive neonatal nociceptive priming.
Dourson AJ, Fadaka AO, Warshak AM, Paranjpe A, Weinhaus B, Queme LF, Hofmann MC, Evans HM, Donmez OA, Forney C, Weirauch MT, Kottyan LT, Lucas D, Deepe GS, Jankowski MP. Dourson AJ, et al. Among authors: donmez oa. bioRxiv [Preprint]. 2023 Dec 14:2023.02.13.528015. doi: 10.1101/2023.02.13.528015. bioRxiv. 2023. PMID: 36824978 Free PMC article. Updated. Preprint.
Global discovery of lupus genetic risk variant allelic enhancer activity.
Lu X, Chen X, Forney C, Donmez O, Miller D, Parameswaran S, Hong T, Huang Y, Pujato M, Cazares T, Miraldi ER, Ray JP, de Boer CG, Harley JB, Weirauch MT, Kottyan LC. Lu X, et al. Among authors: donmez o. Nat Commun. 2021 Mar 12;12(1):1611. doi: 10.1038/s41467-021-21854-5. Nat Commun. 2021. PMID: 33712590 Free PMC article.
maxATAC: Genome-scale transcription-factor binding prediction from ATAC-seq with deep neural networks.
Cazares TA, Rizvi FW, Iyer B, Chen X, Kotliar M, Bejjani AT, Wayman JA, Donmez O, Wronowski B, Parameswaran S, Kottyan LC, Barski A, Weirauch MT, Prasath VBS, Miraldi ER. Cazares TA, et al. Among authors: donmez o. PLoS Comput Biol. 2023 Jan 31;19(1):e1010863. doi: 10.1371/journal.pcbi.1010863. eCollection 2023 Jan. PLoS Comput Biol. 2023. PMID: 36719906 Free PMC article.
86 results