Publications

In vivo protein turnover rates in varying oxygen tensions nominate MYBBP1A as a mediator of the hyperoxia response.

Chen X, Haribowo AG, Baik AH, Fossati A, Stevenson E, Chen YR, Reyes NS, Peng T, Matthay MA, Traglia M, Pico AR, Jarosz DF, Buchwalter A, Ghaemmaghami S, Swaney DL, Jain IH. Sci Adv. 2023 Dec 8;9(49):eadj4884. doi: 10.1126/sciadv.adj4884. Epub 2023 Dec 8. PMID: 38064566 Free PMC article. [PubMed]

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

Crossley MP, Song C, Bocek MJ, Choi JH, Kousouros JN, Sathirachinda A, Lin C, Brickner JR, Bai G, Lans H, Vermeulen W, Abu-Remaileh M, Cimprich KA. Nature. 2024 Jan 23. doi: 10.1038/s41586-024-07064-1. Online ahead of print. PMID: 38263519 No abstract available. [PubMed]

Robust trigger wave speed in Xenopus cytoplasmic extracts.

Huang JH, Chen Y, Huang WYC, Tabatabaee S, Ferrell JE Jr. bioRxiv. 2023 Dec 23:2023.12.22.573127. doi: 10.1101/2023.12.22.573127. Preprint. PMID: 38187567 Free PMC article. [PubMed]

Membrane localization accelerates association under conditions relevant to cellular signaling.

Huang WYC, Boxer SG, Ferrell JE Jr. Proc Natl Acad Sci U S A. 2024 Mar 5;121(10):e2319491121. doi: 10.1073/pnas.2319491121. Epub 2024 Mar 1. PMID: 38427601 [PubMed]

Measuring Molecular Diffusion in Self-Organizing Xenopus Extracts by Fluorescence Correlation Spectroscopy.

Huang WYC, Ferrell JE Jr, Cheng X. Methods Mol Biol. 2024;2740:107-115. doi: 10.1007/978-1-0716-3557-5_6. PMID: 38393471 [PubMed]

Ubiquitin-Derived Fragment as a Peptide Linker for the Efficient Cleavage of a Target Protein from a Degron.

Utsugi Y, Nishimura K, Yamanaka S, Nishino K, Kosako H, Sawasaki T, Shigemori H, Wandless TJ, Miyamae Y. ACS Chem Biol. 2024 Feb 16;19(2):497-505. doi: 10.1021/acschembio.3c00670. Epub 2024 Jan 25. PMID: 38270585 [PubMed]

SPARKing academic technologies across the valley of death.

Kim JS, Kargotich S, Lee SH, Yajima R, Garcia AA, Ehrenkaufer G, Romeo M, Maria PS, Grimes KV, Mochly-Rosen D. Nat Biotechnol. 2024 Feb;42(2):339-342. doi: 10.1038/s41587-024-02130-5. PMID: 38361072 No abstract available. [PubMed]

DNA-guided transcription factor cooperativity shapes face and limb mesenchyme.

Kim S, Morgunova E, Naqvi S, Goovaerts S, Bader M, Koska M, Popov A, Luong C, Pogson A, Swigut T, Claes P, Taipale J, Wysocka J. Cell. 2024 Feb 1;187(3):692-711.e26. doi: 10.1016/j.cell.2023.12.032. Epub 2024 Jan 22. PMID: 38262408 [PubMed]

Hsp90 shapes adaptation by controlling the fitness consequences of regulatory variation.

Jakobson CM, Aguilar-Rodríguez J, Jarosz DF. bioRxiv. 2023 Nov 2:2023.10.30.564848. doi: 10.1101/2023.10.30.564848. Preprint. PMID: 37961536 Free PMC article. [PubMed]

Joint multi-ancestry and admixed GWAS reveals the complex genetics behind human cranial vault shape.

Goovaerts S, Hoskens H, Eller RJ, Herrick N, Musolf AM, Justice CM, Yuan M, Naqvi S, Lee MK, Vandermeulen D, Szabo-Rogers HL, Romitti PA, Boyadjiev SA, Marazita ML, Shaffer JR, Shriver MD, Wysocka J, Walsh S, Weinberg SM, Claes P. Nat Commun. 2023 Nov 16;14(1):7436. doi: 10.1038/s41467-023-43237-8. PMID: 37973980 Free PMC article. Review. [PubMed]

4-Hydroxynonenal impairs miRNA maturation in heart failure via Dicer post-translational modification.

Kiyuna LA, Candido DS, Bechara LRG, Jesus ICG, Ramalho LS, Krum B, Albuquerque RP, Campos JC, Bozi LHM, Zambelli VO, Alves AN, Campolo N, Mastrogiovanni M, Bartesaghi S, Leyva A, Durán R, Radi R, Arantes GM, Cunha-Neto E, Mori MA, Chen CH, Yang W, Mochly-Rosen D, MacRae IJ, Ferreira LRP, Ferreira JCB. [PubMed]

ALDH2 dysfunction and alcohol cooperate in cancer stem cell enrichment.

Flashner S, Shimonosono M, Tomita Y, Matsuura N, Ohashi S, Muto M, Klein-Szanto AJ, Diehl JA, Chen CH, Mochly-Rosen D, Weinberg KI, Nakagawa H. Carcinogenesis. 2023 Nov 18:bgad085. doi: 10.1093/carcin/bgad085. Online ahead of print. PMID: 37978873 [PubMed]

Corrigendum to “Drp1/Fis1 interaction mediates mitochondrial dysfunction in septic cardiomyopathy” [Journal: Molecular of and Cellular Cardiology (2019) May 130;160-169].

Haileselassie B, Mukherjee R, Joshi AU, Napier BA, Massis LM, Ostberg NP, Queliconi BB, Monack D, Bernstein D, Mochly-Rosen D. J Mol Cell Cardiol. 2023 Nov 23:S0022-2828(23)00180-3. doi: 10.1016/j.yjmcc.2023.11.004. Online ahead of print. PMID: 38000978 No abstract available. [PubMed]

Beta-2 adrenergic receptor agonism alters astrocyte phagocytic activity and has potential applications to psychiatric disease.

Bowen ER, DiGiacomo P, Fraser HP, Guttenplan K, Smith BAH, Heberling ML, Vidano L, Shah N, Shamloo M, Wilson JL, Grimes KV. Discov Ment Health. 2023 Nov 30;3(1):27. doi: 10.1007/s44192-023-00050-5. PMID: 38036718 Free PMC article. [PubMed]

Implication of the cooking oil-peroxidation product “hydroxynonenal” for Alzheimer’s disease.

Yamashima T, Seike T, Mochly-Rosen D, Chen CH, Kikuchi M, Mizukoshi E. Front Aging Neurosci. 2023 Aug 25;15:1211141. doi: 10.3389/fnagi.2023.1211141. eCollection 2023. PMID: 37693644 Free PMC article. Review. [PubMed]

Impact of common ALDH2 inactivating mutation and alcohol consumption on Alzheimer’s disease.

Seike T, Chen CH, Mochly-Rosen D. Front Aging Neurosci. 2023 Aug 24;15:1223977. doi: 10.3389/fnagi.2023.1223977. eCollection 2023. PMID: 37693648 Free PMC article. Review. [PubMed]

Antisense Oligonucleotide Activation via Enzymatic Antibiotic Resistance Mechanism.

Darrah KE, Albright S, Kumbhare R, Tsang M, Chen JK, Deiters A. ACS Chem Biol. 2023 Oct 20;18(10):2176-2182. doi: 10.1021/acschembio.3c00027. Epub 2023 Jun 16. PMID: 37326511 Free PMC article. [PubMed]

Defining the condensate landscape of fusion oncoproteins.

Tripathi S, Shirnekhi HK, Gorman SD, Chandra B, Baggett DW, Park CG, Somjee R, Lang B, Hosseini SMH, Pioso BJ, Li Y, Iacobucci I, Gao Q, Edmonson MN, Rice SV, Zhou X, Bollinger J, Mitrea DM, White MR, McGrail DJ, Jarosz DF, Yi SS, Babu MM, Mullighan CG, Zhang J, Sahni N, Kriwacki RW. Nat Commun. 2023 Sep 28;14(1):6008. doi: 10.1038/s41467-023-41655-2. PMID: 37770423 Free PMC article.

A common East-Asian ALDH2 mutation causes metabolic disorders and the therapeutic effect of ALDH2 activators.

Chang YC, Lee HL, Yang W, Hsieh ML, Liu CC, Lee TY, Huang JY, Nong JY, Li FA, Chuang HL, Ding ZZ, Su WL, Chueh LY, Tsai YT, Chen CH, Mochly-Rosen D, Chuang LM. Nat Commun. 2023 Sep 25;14(1):5971. doi: 10.1038/s41467-023-41570-6. PMID: 37749090 Free PMC article. [PubMed]

Structural mechanisms of the mTOR pathway.

Linde-Garelli KY, Rogala KB. Curr Opin Struct Biol. 2023 Oct; 82:102663. doi: 10.1016/j.sbi.2023.102663. Epub 2023 Aug 10. PMID: 37572585. [PubMed]

Targeting an allosteric site in dynamin-related protein 1 to inhibit Fis1-mediated mitochondrial dysfunction.

Rios L, Pokhrel S, Li SJ, Heo G, Haileselassie B, Mochly-Rosen D. Nat Commun. 2023 Jul 19;14(1):4356. doi: 10.1038/s41467-023-40043-0. PMID: 37468472 Free PMC article. [PubMed]

Ultrafast distant wound response is essential for whole-body regeneration.

Fan Y, Chai C, Li P, Zou X, Ferrell JE Jr, Wang B. Cell. 2023 Jul 16:S0092-8674(23)00695-5. doi: 10.1016/j.cell.2023.06.019. Online ahead of print. PMID: 37480850 [PubMed]

Structural elements promote architectural stripe formation and facilitate ultra-long-range gene regulation at a human disease locus.

Chen LF, Long HK, Park M, Swigut T, Boettiger AN, Wysocka J. Mol Cell. 2023 May 4;83(9):1446-1461.e6. doi: 10.1016/j.molcel.2023.03.009. Epub 2023 Mar 29. PMID: 36996812 [PubMed]

Co-transcriptional genome surveillance by HUSH is coupled to termination machinery.

Spencley AL, Bar S, Swigut T, Flynn RA, Lee CH, Chen LF, Bassik MC, Wysocka J. Mol Cell. 2023 May 18;83(10):1623-1639.e8. doi: 10.1016/j.molcel.2023.04.014. Epub 2023 May 9. PMID: 37164018 [PubMed]

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]