URMC / Biochemistry & Biophysics / Research / Recent Publications Recent Publications Zhao JKennedy SDBerger KDTurner DH Nuclear Magnetic Resonance of Single-Stranded RNAs and DNAs of CAAU and UCAAUC as Benchmarks for Molecular Dynamics Simulations.; Journal of chemical theory and computation. 2020 Feb 17. Marr LClark DJHayes JJ A method for assessing histone surface accessibility genome-wide.; Methods (San Diego, Calif.). 2019 Dec 09. Maji DGrossfield AMKielkopf CL Structures of SF3b1 reveal a dynamic Achilles heel of spliceosome assembly: Implications for cancer-associated abnormalities and drug discovery.; Biochimica et biophysica acta. Gene regulatory mechanisms. 2019 Nov 07. Bonn-Breach RGu YJenkins JFasan RWedekind J Structure of Sonic Hedgehog protein in complex with zinc(II) and magnesium(II) reveals ion-coordination plasticity relevant to peptide drug design.; Acta crystallographica. Section D, Structural biology; Vol 75(Pt 11). 2019 Nov 01. Kumpina IBrodyagin NMacKay JAKennedy SDKatkevics MRozners E Synthesis and RNA-Binding Properties of Extended Nucleobases for Triplex-Forming Peptide Nucleic Acids.; The Journal of organic chemistry; Vol 84(21). 2019 Nov 01. Farrar CSRouin GTMiller BLRaeman CHMooney NAHocking DC A Matricryptic Conformation of the Integrin-Binding Domain of Fibronectin Regulates Platelet-Derived Growth Factor-Induced Intracellular Calcium Release.; Cells; Vol 8(11). 2019 Oct 30. Dutta DWedekind JE Nucleobase mutants of a bacterial preQ1-II riboswitch that uncouple metabolite sensing from gene regulation.; The Journal of biological chemistry. 2019 Oct 28. Payea MJHauke ACDe Zoysa TPhizicky EM Mutations in the anticodon stem of tRNA cause accumulation and Met22-dependent decay of pre-tRNA in yeast.; RNA (New York, N.Y.). 2019 Oct 16. Goodwin CMSchafer XMunger J UL26 attenuates IKKβ-mediated induction of ISG expression and enhanced protein ISGylation during HCMV infection.; Journal of virology. 2019 Sep 18. Sparks RPArango ASStarr MLAboff ZLHurst LRRivera-Kohr DAZhang CHarden KAJenkins JLGuida WCTajkhorshid EFratti RA A small-molecule competitive inhibitor of phosphatidic acid binding by the AAA+ protein NSF/Sec18 blocks the SNARE-priming stage of vacuole fusion.; The Journal of biological chemistry. 2019 Sep 12. Tuladhar RYeu YTyler Piazza JTan ZRene Clemenceau JWu XBarrett QHerbert JMathews DHKim JHyun Hwang TLum L CRISPR-Cas9-based mutagenesis frequently provokes on-target mRNA misregulation.; Nature communications; Vol 10(1). 2019 Sep 06. Brewer MGAnderson EAPandya RPDe Benedetto AYoshida THilimire TAMartinez-Sobrido LBeck LAMiller BL Peptides Derived from the Tight Junction Protein, Claudin-1, Disrupt Skin Barrier and Promote Responsiveness to an Epicutaneous Vaccine.; The Journal of investigative dermatology. 2019 Aug 02. Meade NKing MMunger JWalsh D mTOR Dysregulation by Vaccinia Virus F17 Controls Multiple Processes with Varying Roles in Infection.; Journal of virology; Vol 93(15). 2019 Aug 01. Huang LZhang HDeng DZhao KLiu KHendrix DAMathews DH LinearFold: linear-time approximate RNA folding by 5'-to-3' dynamic programming and beam search.; Bioinformatics (Oxford, England); Vol 35(14). 2019 Jul 15. Tucker CBhattacharya SWakabayashi HBellaousov SKravets AWelle SLMyers JHayes JJBulger MRustchenko E Author Correction: Transcriptional Regulation on Aneuploid Chromosomes in Diverse Candida albicans Mutants.; Scientific reports; Vol 9(1). 2019 Jul 05. Ramos JHan LLi YHagelskamp FKellner SMAlkuraya FSPhizicky EMFu D Formation of tRNA wobble inosine in humans is disrupted by a millennia-old mutation causing intellectual disability.; Molecular and cellular biology. 2019 Jul 01. Zhang HMiller BL Immunosensor-based label-free and multiplex detection of influenza viruses: State of the art.; Biosensors & bioelectronics; Vol 141. 2019 Jun 25. Kurosaki TPopp MWMaquat LE Publisher Correction: Quality and quantity control of gene expression by nonsense-mediated mRNA decay.; Nature reviews. Molecular cell biology; Vol 20(6). 2019 Jun. Mathews DH How to benchmark RNA secondary structure prediction accuracy.; Methods (San Diego, Calif.); Vol 162-163. 2019 Jun 01. Zuber JMathews DH Estimating uncertainty in predicted folding free energy changes of RNA secondary structures.; RNA (New York, N.Y.); Vol 25(6). 2019 Jun.