URMC / Biochemistry & Biophysics / Research / Recent Publications Recent Publications Kayedkhordeh MYamagami RBevilacqua PCMathews DH Inverse RNA Folding Workflow to Design and Test Ribozymes that Include Pseudoknots.; Methods in molecular biology (Clifton, N.J.); Vol 2167. 2021. Rambout XMaquat LE The nuclear cap-binding complex as choreographer of gene transcription and pre-mRNA processing.; Genes & development; Vol 34(17-18). 2020 Sep 01. De Zoysa TPhizicky EM Hypomodified tRNA in evolutionarily distant yeasts can trigger rapid tRNA decay to activate the general amino acid control response, but with different consequences.; PLoS genetics; Vol 16(8). 2020 Aug 25. Piekna-Przybylska DBambara RAMaggirwar SBDewhurst S G-quadruplex ligands targeting telomeres do not inhibit HIV promoter activity and cooperate with latency reversing agents in killing latently infected cells.; Cell cycle (Georgetown, Tex.). 2020 Aug 17. Zheng DCho HWang WRambout XTian BMaquat LE 3'READS+RIP defines differential Staufen1 binding to alternative 3'UTR isoforms and reveals structures and sequence motifs influencing binding and polysome association.; RNA (New York, N.Y.). 2020 Aug 12. Chen WFitzpatrick JMonroy-Trujillo JMSozio SMJaar BGEstrella MMSerrano JAnokhina VMiller BLMelamed MLBushinsky DAParekh RS Associations of Serum Calciprotein Particle Size and Transformation Time with Arterial Calcification, Arterial Stiffness, and Mortality in Incident Hemodialysis Patients.; American journal of kidney diseases : the official journal of the National Kidney Foundation. 2020 Aug 12. Popp MWCho HMaquat LE Viral subversion of nonsense-mediated mRNA decay.; RNA (New York, N.Y.). 2020 Jul 22. Wu JSubbaiah KCVXie LHJiang FKhor ESMickelsen DMMyers JRTang WWYao P Glutamyl-Prolyl-tRNA Synthetase Regulates Proline-Rich Pro-fibrotic Protein Synthesis During Cardiac Fibrosis.; Circulation research. 2020 Jul 01. Zhang HZhang LMathews DHHuang L LinearPartition: linear-time approximation of RNA folding partition function and base-pairing probabilities.; Bioinformatics (Oxford, England); Vol 36(Supplement_1). 2020 Jul 01. Schroeder GMDutta DCavender CEJenkins JLPritchett EMBaker CDAshton JMMathews DHWedekind JE Analysis of a preQ1-I riboswitch in effector-free and bound states reveals a metabolite-programmed nucleobase-stacking spine that controls gene regulation.; Nucleic acids research. 2020 Jun 29. Ermolenko DNMathews DH Making ends meet: New functions of mRNA secondary structure.; Wiley interdisciplinary reviews. RNA. 2020 Jun 29. Morais PAdachi HYu YT Suppression of Nonsense Mutations by New Emerging Technologies.; International journal of molecular sciences; Vol 21(12). 2020 Jun 20. Wakabayashi HWarnasooriya CErmolenko DN Extending the Spacing between the Shine-Dalgarno Sequence and P-Site Codon Reduces the Rate of mRNA Translocation.; Journal of molecular biology. 2020 Jun 13. Warnasooriya CFeeney CFLaird KMErmolenko DNKielkopf CL A splice site-sensing conformational switch in U2AF2 is modulated by U2AF1 and its recurrent myelodysplasia-associated mutation.; Nucleic acids research; Vol 48(10). 2020 Jun 04. Kielkopf CLBauer WUrbatsch IL Expression of Cloned Genes Using the Baculovirus Expression System.; Cold Spring Harbor protocols; Vol 2020(6). 2020 Jun 01. Kielkopf CLBauer WUrbatsch IL Purification of Polyhistidine-Tagged Proteins by Immobilized Metal Affinity Chromatography.; Cold Spring Harbor protocols; Vol 2020(6). 2020 Jun 01. Kielkopf CLBauer WUrbatsch IL Purification of Fusion Proteins by Affinity Chromatography on Glutathione Resin.; Cold Spring Harbor protocols; Vol 2020(6). 2020 Jun 01. Adachi HYu YT Pseudouridine-mediated stop codon read-through in S. cerevisiae is sequence context-independent.; RNA (New York, N.Y.). 2020 May 20. Bao CLoerch SLing CKorostelev AAGrigorieff NErmolenko DN mRNA stem-loops can pause the ribosome by hindering A-site tRNA binding.; eLife; Vol 9. 2020 May 19. Kim HNLangley MRSimon WLYoon HKleppe LLanza IRLeBrasseur NKMatveyenko AScarisbrick IA A Western diet impairs CNS energy homeostasis and recovery after spinal cord injury: Link to astrocyte metabolism.; Neurobiology of disease; Vol 141. 2020 May 04.