Publications

Precise modulation of transcription factor levels identifies features underlying dosage sensitivity.

Naqvi S, Kim S, Hoskens H, Matthews HS, Spritz RA, Klein OD, Hallgrímsson B, Swigut T, Claes P, Pritchard JK, Wysocka J. [PubMed]

Direct visualization of transcription-replication conflicts reveals post-replicative DNA:RNA hybrids.

Stoy H, Zwicky K, Kuster D, Lang KS, Krietsch J, Crossley MP, Schmid JA, Cimprich KA, Merrikh H, Lopes M. Nat Struct Mol Biol. 2023 Mar 2. doi: 10.1038/s41594-023-00928-6. Online ahead of print. PMID: 36864174 [PubMed]

Drp1/p53 interaction mediates p53 mitochondrial localization and dysfunction in septic cardiomyopathy.

Mukherjee R, Tetri LH, Li SJ, Fajardo G, Ostberg NP, Tsegay KB, Gera K, Cornell TT, Bernstein D, Mochly-Rosen D, Haileselassie B. J Mol Cell Cardiol. 2023 Feb 23;177:28-37. doi: 10.1016/j.yjmcc.2023.01.008. Online ahead of print. PMID: 36841153 [PubMed]

C. David Allis (1951-2023).

Bernstein E, Dent S, Dou Y, Duncan EM, Hake SB, Strahl BD, Wysocka J. Mol Cell. 2023 Feb 16;83(4):497-499. doi: 10.1016/j.molcel.2023.02.002. PMID: 36805122 No abstract available. [PubMed]

Pseudouridine synthases modify human pre-mRNA co-transcriptionally and affect pre-mRNA processing.

Martinez NM, Su A, Burns MC, Nussbacher JK, Schaening C, Sathe S, Yeo GW, Gilbert WV. Mol Cell. 2022 Feb 3;82(3):645-659.e9. doi: 10.1016/j.molcel.2021.12.023. Epub 2022 Jan 19. PMID: 35051350; PMCID: PMC8859966. [PubMed]

Pseudouridine site assignment by high-throughput in vitroRNA pseudouridylation and sequencing.

Martinez N. M., Schaening-Burgos C. and Gilbert W. V. (2021). Methods Enymol 658, 277-310. doi: 10.1016/bs.mie.2021.06.026. [PubMed]

Single-strand DNA breaks cause replisome disassembly.

Vrtis K., Dewar J., Chistol G., Wu A.R., Graham T.G.W., Walter J.C. Molecular Cell, 81:1309-18 (2021). [PubMed]

COVID-19 prophylaxis with immunoglobulin Y (IgY) for the world population: The critical role that governments and non-governmental organizations can play.

Frumkin LR, Lucas M, Wallach M, Scribner CL, St John T, Mochly-Rosen D. J Glob Health. 2022 Dec 3;12:03080. doi: 10.7189/jogh.12.03080. PMID: 36462205 Free PMC article. No abstract available. [PubMed]

Deciphering the multi-scale, quantitative cis-regulatory code.

Kim S, Wysocka J. Mol Cell. 2023 Feb 2;83(3):373-392. doi: 10.1016/j.molcel.2022.12.032. Epub 2023 Jan 23. PMID: 36693380 Free PMC article. Review. [PubMed]

SGLT2 inhibitor ameliorates endothelial dysfunction associated with the common ALDH2 alcohol flushing variant.

Guo H, Yu X, Liu Y, Paik DT, Justesen JM, Chandy M, Jahng JWS, Zhang T, Wu W, Rwere F, Zhao SR, Pokhrel S, Shivnaraine RV, Mukherjee S, Simon DJ, Manhas A, Zhang A, Chen CH, Rivas MA, Gross ER, Mochly-Rosen D, Wu JC. Sci Transl Med. 2023 Jan 25;15(680):eabp9952. doi: 10.1126/scitranslmed.abp9952. Epub 2023 Jan 25. PMID: 36696485 [PubMed]

R-loop-derived cytoplasmic RNA-DNA hybrids activate an immune response.

Crossley MP, Song C, Bocek MJ, Choi JH, Kousorous J, Sathirachinda A, Lin C, Brickner JR, Bai G, Lans H, Vermeulen W, Abu-Remaileh M, Cimprich KA. Nature. 2023 Jan;613(7942):187-194. doi: 10.1038/s41586-022-05545-9. Epub 2022 Dec 21. PMID: 36544021 [PubMed]

ALDH7A1 rs12514417 polymorphism may increase ischemic stroke risk in alcohol-exposed individuals.

Lin CH, Nfor ON, Ho CC, Hsu SY, Tantoh DM, Liaw YC, Mochly-Rosen D, Chen CH, Liaw YP. Nutr Metab (Lond). 2022 Oct 18;19(1):70. doi: 10.1186/s12986-022-00702-3. PMID: 36258220 [PubMed]

Biomolecular Condensation: A New Phase in Cancer Research.

Chakravarty AK, McGrail DJ, Lozanoski TM, Dunn BS, Shih DJH, Cirillo KM, Cetinkaya SH, Zheng WJ, Mills GB, Yi SS, Jarosz DF, Sahni N. Cancer Discov. 2022 Jul 19:OF1-OF13. doi: 10.1158/2159-8290.CD-21-1605. Online ahead of print. PMID: 35852417 [PubMed]

A cAMP Sensor Based on Ligand-Dependent Protein Stabilization.

Sidoli M, Chen LC, Lu AJ, Wandless TJ, Talbot WS. ACS Chem Biol. 2022 Jul 15. doi: 10.1021/acschembio.2c00333. Online ahead of print. PMID: 35839076 [PubMed]

Double-lariat caged morpholino oligonucleotides for optical gene silencing.

Pattanayak S., Deiters, A., and Chen, J. K. (2022) Double-lariat caged morpholino oligonucleotides for optical gene silencing. ChemRxiv doi:10.26434/chemrxiv-2022-z6shp. [ChemRxiv]

Targeting colorectal cancer with small-molecule inhibitors of ALDH1B1.

Feng, Z., Hom, M. E., Bearrood, T. E., Rosenthal, Z. C., Fernández, D., Ondrus, A. E., Gu, Y., McCormick, A. K., Tomaske, M. G., Marshall, C. R., Kline, T., Chen, C.-H., Mochly-Rosen, D., Kuo, C. J., and Chen, J. K. (2022) Targeting colorectal cancer with small-molecule inhibitors of ALDH1B1. Nat. Chem. Biol., online ahead of print. [PubMed]

Structure of the nutrient-sensing hub GATOR2. Nature.

Valenstein ML, Rogala KB, Lalgudi PV, Brignole EJ, Gu X, Saxton RA, Chantranupong L, Kolibus J, Quast J-P, Sabatini DM. (2022) Structure of the nutrient-sensing hub GATOR2. Nature, 607(7919):610–616. PMID: 35831510. [PubMed]

Egg-Derived Anti-SARS-CoV-2 Immunoglobulin Y (IgY) With Broad Variant Activity as Intranasal Prophylaxis Against COVID-19.

Frumkin LR, Lucas M, Scribner CL, Ortega-Heinly N, Rogers J, Yin G, Hallam TJ, Yam A, Bedard K, Begley R, Cohen CA, Badger CV, Abbasi SA, Dye JM, McMillan B, Wallach M, Bricker TL, Joshi A, Boon ACM, Pokhrel S, Kraemer BR, Lee L, Kargotich S, Agochiya M, John TS, Mochly-Rosen D. Front Immunol. 2022 Jun 1;13:899617. doi: 10.3389/fimmu.2022.899617. eCollection 2022. PMID: 35720389 [PubMed]

ALDH2 variance in disease and populations.

Chen CH, Kraemer BR, Mochly-Rosen D. Dis Model Mech. 2022 Jun 1;15(6):dmm049601. doi: 10.1242/dmm.049601. Epub 2022 Jun 24. PMID: 35749303 [PubMed]

Quantitative DNA-RNA Immunoprecipitation Sequencing with Spike-Ins.

Crossley MP, Cimprich KA. Methods Mol Biol. 2022;2528:381-410. doi: 10.1007/978-1-0716-2477-7_26. PMID: 35704206 [PubMed]

Walking a tightrope: The complex balancing act of R-loops in genome stability.

Brickner JR, Garzon JL, Cimprich KA. Mol Cell. 2022 Apr 29:S1097-2765(22)00325-2. doi: 10.1016/j.molcel.2022.04.014. Online ahead of print. PMID: 35508167 Review. [PubMed]

Azetidine-2-Carboxylic Acid-Induced Oligodendrogliopathy: Relevance to the Pathogenesis of Multiple Sclerosis.

Sobel RA, Albertelli M, Hinojoza JR, Eaton MJ, Grimes KV, Rubenstein E. J Neuropathol Exp Neurol. 2022 May 20;81(6):414-433. doi: 10.1093/jnen/nlac028. PMID: 35521963 Free PMC article. [PubMed]

A US clinical trial network is needed for the next pandemic.

Yajima R, More AF, Garvan C, Harper C, Grimes KV. Nat Med. 2022 May 31. doi: 10.1038/s41591-022-01831-1. Online ahead of print. PMID: 35641823 No abstract available. [PubMed]

Affordable IgY-based antiviral prophylaxis for resource-limited settings to address epidemic and pandemic risks.

Chen CJ, Hudson AF, Jia AS, Kunchur CR, Song AJ, Tran E, Fisher CJ, Zanchi D, Lee L, Kargotich S, Romeo M, Koperniku A, Pamnani RD, Mochly-Rosen D. J Glob Health. 2022 Feb 26;12:05009. doi: 10.7189/jogh.12.05009. eCollection 2022. PMID: 35265332 Free PMC article. [PubMed]

Alcohol Consumption, ALDH2 Polymorphism as Risk Factors for Upper Aerodigestive Tract Cancer Progression and Prognosis.

Chen CH, Wang WL, Hsu MH, Mochly-Rosen D. Life (Basel). 2022 Feb 27;12(3):348. doi: 10.3390/life12030348. PMID: 35330099 Free PMC article. Review. [PubMed]