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. Chavali SSCavender CEMathews DHWedekind JE Arginine Forks Are a Widespread Motif to Recognize Phosphate Backbones and Guanine Nucleobases in the RNA Major Groove.; Journal of the American Chemical Society. 2020 Nov 10. Sparks RPArango ASJenkins JLGuida WCTajkhorshid ESparks CESparks JDFratti RA An Allosteric Binding Site on Sortilin Regulates the Trafficking of VLDL, PCSK9, and LDLR in Hepatocytes.; Biochemistry. 2020 Nov 05. Hao FMurphy KJKujirai TKamo NKato JKoyama MOkamato AHayashi GKurumizaka HHayes JJ Acetylation-modulated communication between the H3 N-terminal tail domain and the intrinsically disordered H1 C-terminal domain.; Nucleic acids research. 2020 Oct 30. Romo TDGrossfield AMarkelz AG Persistent Protein Motions in a Rugged Energy Landscape Revealed by Normal Mode Ensemble Analysis.; Journal of chemical information and modeling. 2020 Oct 26. Chavali SSMali SMJenkins JLFasan RWedekind JE Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors.; The Journal of biological chemistry. 2020 Oct 13. Klose AMMiller BL A Stable Biotin-Streptavidin Surface Enables Multiplex, Label-Free Protein Detection by Aptamer and Aptamer-Protein Arrays Using Arrayed Imaging Reflectometry.; Sensors (Basel, Switzerland); Vol 20(20). 2020 Oct 10. Maji DGlasser EHenderson SGalardi JPulvino MJJenkins JLKielkopf CL Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing.; The Journal of biological chemistry. 2020 Oct 05. Rambout XMaquat LE NCBP3: A Multifaceted Adaptive Regulator of Gene Expression.; Trends in biochemical sciences. 2020 Oct 05. Steiner DJCognetti JSLuta EPKlose AMBucukovski JBryan MRSchmuke JJNguyen-Contant PSangster MYTopham DJMiller BL Array-based analysis of SARS-CoV-2, other coronaviruses, and influenza antibodies in convalescent COVID-19 patients.; Biosensors & bioelectronics; Vol 169. 2020 Sep 21. 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.