URMC / Biochemistry & Biophysics / Research / Recent Publications

Recent Publications

1. Pan Y
2. Kierzek E
3. Kierzek R
4. Mathews DH
5. Yu YT
A Ψ-Ψ codon-anticodon pairing in nonsense suppression and translational recoding.; Nature chemical biology. 2025 Sep 12.
1. Land H
Beyond the exam room: skin health as a window into rural health equity.; Canadian medical education journal; Vol 16(4), pp. 77-78. 2025 Sep 10.
1. Burchett JB
2. Ambeskovic A
3. Ford M
4. Naccarato JC
5. Cazarin J
6. Hecht F
7. Hulver M
8. He X
9. Munger JC
10. Vertino PM
11. Harris IS
12. Mello SS
13. Altman BJ
MYC and Epithelial to Mesenchymal Transition (EMT) Independently Predict Circadian Rhythm Disruption in Lung Adenocarcinoma.; bioRxiv : the preprint server for biology. 2025 Aug 21.
1. Cognetti JS
2. Miller BL
Real-Time, Continuous Monitoring of Tissue Chips as an Emerging Opportunity for Biosensing.; Sensors (Basel, Switzerland); Vol 25(16). 2025 Aug 19.
1. Baliga UK
2. Yang L
3. Ivanov A
4. Schwartz JL
5. Jiang F
6. Khor ES
7. Das D
8. Wainwright L
9. Yao P
Translational Control in Cardiac Pathophysiology and Therapeutic Development: When mRNA Meets the Heart.; International journal of molecular sciences; Vol 26(16). 2025 Aug 14.
1. Luchsinger C
2. Dai AZ
3. Yalamanchili H
4. Balakrishnan A
5. Huang KL
6. Bertelli C
7. Cui B
8. Lorenzo-Redondo R
9. Wagner EJ
10. Diaz-Griffero F
HIV-1 Infection Regulates Gene Expression by Altering Alternative Polyadenylation Through CPSF6 and CPSF5 Delocalization.; bioRxiv : the preprint server for biology. 2025 Aug 07.
1. Wakabayashi H
2. Zhu M
3. Grayhack EJ
4. Mathews DH
5. Ermolenko DN
40S ribosomal subunits scan mRNA for the start codon by one-dimensional diffusion.; RNA (New York, N.Y.). 2025 Jul 31.
1. Mittal A
2. Mathews DH
AlignmentFold and AlignmentPartition: Improving the align-then-fold approach for RNA secondary structure prediction.; bioRxiv : the preprint server for biology. 2025 Jul 28.
1. Butt JN
2. Steiner DJ
3. Bryan MR
4. Mann KE
5. Miller BL
A Dual-Readout Photonic Sensor for Simultaneous Measurement of Enzyme Activity and Concentration.; ACS sensors. 2025 Jul 24.
1. Kurosaki T
2. Cho H
3. Abshire ET
4. Pröschel C
5. Mitsutomi S
6. Sato H
7. Simko EAJ
8. Fraser CS
9. Sakano H
10. Maquat LE
FMRP drives mRNP targets into translationally silenced complexes.; Molecular cell. 2025 Jul 08.
1. Klose AM
2. Katz JD
3. Boni R
4. Nelson D
5. Hassard B
6. Miller BL
Lambda Theta Reflectometry: A New Technique for Measuring Optical Film Thickness in Planar Protein Arrays.; ACS sensors. 2025 Jul 02.
1. Dai N
2. Zhou T
3. Tang WY
4. Mathews DH
5. Huang L
EnsembleDesign: messenger RNA design minimizing ensemble free energy via probabilistic lattice parsing.; Bioinformatics (Oxford, England); Vol 41(Supplement_1), pp. i391-i400. 2025 Jul 01.
1. McMahon M
2. Maquat LE
Corrigendum: Exploring the therapeutic potential of modulating nonsense-mediated mRNA decay.; RNA (New York, N.Y.); Vol 31(7), pp. 1028. 2025 Jun 16.
1. Waild N
2. Ciesla J
3. Schafer X
4. Munger J
Cellular antibody affinity-based CRISPR Screening identifies JUNB as a broadly acting anti-viral factor.; bioRxiv : the preprint server for biology. 2025 Jun 13.
1. Das A
2. Ivanov AV
3. Wakabayashi H
4. Grove AK
5. Ermolenko DN
Observing intersubunit dynamics in single yeast ribosomes.; bioRxiv : the preprint server for biology. 2025 Jun 08.
1. Walunjkar N
2. Lai TY
3. Akhter N
4. Miller JH
5. Bettinger JQ
6. Marcus E
7. Phizicky EM
8. Ghaemmaghami S
9. Fay JC
Pervasive divergence in protein thermostability is mediated by both structural changes and cellular environments.; Molecular biology and evolution. 2025 Jun 06.
1. Hedaya OM
2. Jiang F
3. Baliga U
4. Ivanov A
5. Chen S
6. Schwartz JL
7. Kawakami Y
8. Yan C
9. Yao P
Upstream open reading frame inactivation augments GATA4 translation and cardiomyocyte hypertrophy in mice.; bioRxiv : the preprint server for biology. 2025 May 18.
1. Mathews DH
2. Casadio R
3. Sternberg MJE
Computational Resources for Molecular Biology 2025.; Journal of molecular biology. 2025 May 15.
1. Sharma S
2. Rodems BJ
3. Baker CD
4. Kaszuba CM
5. Franco EI
6. Smith BR
7. Ito T
8. Swovick K
9. Welle K
10. Zhang Y
11. Rock P
12. Chaves FA
13. Ghaemmaghami S
14. Calvi LM
15. Ganguly A
16. Burack WR
17. Becker MW
18. Liesveld JL
19. Brookes PS
20. Munger JC
21. Jordan CT
22. Ashton JM
23. Bajaj J
Taurine from tumour niche drives glycolysis to promote leukaemogenesis.; Nature. 2025 May 14.
1. Waldern JM
2. Taylor C
3. Giannetti CA
4. Irving PS
5. Allen SR
6. Zhu M
7. Backofen R
8. Mathews DH
9. Weeks KM
10. Laederach A
Structural determinants of inverted Alu-mediated backsplicing revealed by -MaP and -JuMP.; Nucleic acids research; Vol 53(9). 2025 May 10.