Publications:

( Pubmed link for all publications)

2025

Surya A, Bolton BM, Rothe R, Mejia-Trujillo R, Leonita A, Zhao Q, Arya A, Liu Y, Rangan R, Gorusu Y, Nguyen P, Cenik C, Sarinay Cenik E. Differential impacts of ribosomal protein haploinsufficiency on mitochondrial function. Journal of Cell Biology 2025 Mar 3;224(3):e202404084. Article link, BioRxiv link

Note: You can find the raw datasets for this manuscript in the following Texas Data Repository link

2024

Liu Y, Hoskins I, Geng M, Zhao Q, Chacko J, Qi K, Persyn L, Wang J, Zheng D, Zhong Y, Rao S, Park D, Cenik ES, Agarwal V, Ozadam H, Cenik C. Translation efficiency covariation across cell types is a conserved organizing principle of mammalian transcriptomes. bioRxiv [Preprint]. 2024 Aug 11:2024.08.11.607360. PMC preprint link

Zhao Q, Sarinay Cenik E. Ribosomal proteins' unforeseen impact on mitochondrial integrity. Biomedical Research (2024) Vol 35, Issue 3. Review Article link

 

Al-Refaie, N., Padovani, F., Hornung, J. , Pudelko L., Binando F., del Carmen Fabregat A., Zhao Q., Towbin B., Sarinay Cenik E., Stroustrup N., Padeken J., Schmoller K., Cabianca D.. Fasting shapes chromatin architecture through an mTOR/RNA Pol I axis. Nature Cell Biology (2024). Article link

2023

Zhao, Q., Rangan, R., Weng, S., Ozdemir, C. , Cenik, E. S. Inhibition of ribosome biogenesis in the epidermis is sufficient to trigger organism-wide growth quiescence independently of nutritional status in C. elegans (2023). PLOS Biology. Article link

Freeman, TF. Zhao, Q., Surya A, Rothe R, Cenik E. S. Ribosome biogenesis disruption mediated chromatin structure changes revealed by SRAtac, a customizable end to end analysis pipeline for ATAC-seq (2023). BMC Genomics, 10.1186/s12864-023-09576-y. Article link

NOTE: You can find the SRAtac tool, an end-to-end customizable analysis pipeline for alignment and ATAC-seq analysis across different model organisms, at the following GitHub repositories: https://github.com/trev-f/SRAlign, https://github.com/trev-f/SRAtac

2022

Surya, A. & Cenik, E.S. Cell autonomous and non-autonomous consequences of deviations in translation machinery on organism growth and the connecting signalling pathways (2022) Open Biology April 27; 12: 210308. Review article link

2021

Panici, B., Nakajima, H., Carlston, C. M., Ozadam, H., Cenik, C., Cenik, E. S. (2021). Loss of coordinated expression between ribosomal and mitochondrial genes revealed by comprehensive characterization of a large family with a rare Mendelian disorder (2021). Genomics. July; 113(4):1895-1905. Article link

Rao, S, Hoskins, I, Garcia, D, Tonn, T, Ozadam, H, Cenik, E.S, Cenik, C (2021). Genes with 5’terminal oligopyrimidine tracts preferentially escape global suppression of translation by the SARS-CoV-2 NSP1 protein (2021). RNA. Jun 14. 2021 Recipient of the RNA Journal Prize. Article link

Byeon, GW, Cenik, ES, Jiang, L, Tang, H, Das, R, & Barna, M. (2021). Functional and structural basis of extreme non-coding conservation in vertebrate mRNAs (2021). Nature Genetics, highlighted in the same issue with News & Views by Gupta & Beaudoin. Article link

2019

Cenik ES, Meng X, Tang NH ,Hall RN, Arribere JA, Cenik C, Jin Y, Fire AZ (2019). Maternal ribosomes are sufficient for tissue diversification during embryonic development in C. elegans. Developmental Cell, Mar25;48(6), 811-826.e6. Featured in Faculty of 1000. Article link

Highlighted in the same issue with a preview by Haag & Dinman, 2019, Link

2016 and earlier

Arribere, JA, Cenik ES, Jain N, Hess G, Lee C, Bassik MC, Fire AF. (2016). Translation Readthrough Mitigation. Nature, Jun 1;534(7609):719-723. Article link

Cenik C, Cenik ES, Byeon GW, Grubert F, Candille S, Spacek D, Alsallakh B, Tilgner H, Araya CL, Tang H, Ricci E, Snyder MP. (2015). Integrative analysis of RNA, translation, and protein levels reveals distinct regulatory variation across humans. Genome Research, Nov;25(11):1610-21. Article link

Cenik, ES, & Zamore, PD (2011). Argonaute proteins. Current Biology, 21(12), R446-9. Review Article link

Cenik, ES, Fukunaga, R, Lu, G, Dutcher, R, Wang, Y, Tanaka Hall, TM, Zamore, PD (2011). Phosphate and R2D2 restrict the substrate specificity of Dicer-2, an ATP-driven ribonuclease. Molecular Cell, 42(2), 172-184. Featured in Faculty of 1000. Article link