Recent Publications

• 1. Szikszai M
  2. Wise M
  3. Datta A
  4. Ward M
  5. Mathews DH
  Deep learning models for RNA secondary structure prediction (probably) do not generalise across families.; Bioinformatics (Oxford, England). 2022 Jun 24.
• 1. Kumar J
  2. Lackey L
  3. Waldern JM
  4. Dey A
  5. Mustoe AM
  6. Weeks K
  7. Mathews DH
  8. Laederach A
  Quantitative prediction of variant effects on alternative splicing in MAPT using endogenous pre-messenger RNA structure probing.; eLife; Vol 11. 2022 Jun 13.
• 1. Subbaiah KCV
  2. Wu J
  3. Tang WHW
  4. Yao P
  FAM114A1 influences cardiac pathological remodeling by regulating angiotensin II signaling.; JCI insight. 2022 Jun 07.
• 1. Cho H
  2. Abshire ET
  3. Popp MW
  4. Pröschel C
  5. Schwartz JL
  6. Yeo GW
  7. Maquat LE
  AKT constitutes a signal-promoted alternative exon-junction complex that regulates nonsense-mediated mRNA decay.; Molecular cell. 2022 Jun 03.
• 1. Dumont ME
  2. Konopka JB
  Comparison of Experimental Approaches Used to Determine the Structure and Function of the Class D G Protein-Coupled Yeast α-Factor Receptor.; Biomolecules; Vol 12(6). 2022 May 30.
• 1. Hao F
  2. Mishra L
  3. Jaya P
  4. Jones R
  5. Hayes JJ
  Identification and analysis of six phosphorylation sites within the Xenopus laevis H1.0 C-terminal domain indicate distinct effects on nucleosome structure.; Molecular & cellular proteomics : MCP. 2022 May 23.
• 1. Szabat M
  2. Prochota M
  3. Kierzek R
  4. Kierzek E
  5. Mathews DH
  A Test and Refinement of Folding Free Energy Nearest Neighbor Parameters for RNA Including N6-Methyladenosine.; Journal of molecular biology. 2022 May 16.
• 1. Casadio R
  2. Mathews DH
  3. Sternberg MJE
  Computational Resources for Molecular Biology 2022.; Journal of molecular biology. 2022 May 12.
• 1. Maquat L
  2. Johnson R
  3. Valadkhan S
  4. Carninci P
  Lessons from the functional characterization of lncRNAs: introduction to mammalian genome special issue.; Mammalian genome : official journal of the International Mammalian Genome Society. 2022 May 09.
• 1. Glasser E
  2. Maji D
  3. Biancon G
  4. Puthenpeedikakkal AMK
  5. Cavender CE
  6. Tebaldi T
  7. Jenkins JL
  8. Mathews DH
  9. Halene S
  10. Kielkopf CL
  Pre-mRNA splicing factor U2AF2 recognizes distinct conformations of nucleotide variants at the center of the pre-mRNA splice site signal.; Nucleic acids research. 2022 May 07.
• 1. Zuber J
  2. Schroeder SJ
  3. Sun H
  4. Turner DH
  5. Mathews DH
  Nearest neighbor rules for RNA helix folding thermodynamics: improved end effects.; Nucleic acids research. 2022 May 07.
• 1. Onukwufor JO
  2. Farooqi MA
  3. Vodičková A
  4. Koren SA
  5. Baldzizhar A
  6. Berry BJ
  7. Beutner G
  8. Porter GA
  9. Belousov V
  10. Grossfield A
  11. Wojtovich AP
  A reversible mitochondrial complex I thiol switch mediates hypoxic avoidance behavior in C. elegans.; Nature communications; Vol 13(1). 2022 May 03.
• 1. Luta EP
  2. Miller BL
  Development of Methods for Specific Capture of Biological Targets on Aluminum Substrates: Application to Bacillus subtilis Spore Detection as a Model for Anthrax.; Sensors (Basel, Switzerland); Vol 22(9). 2022 Apr 30.
• 1. Funk HM
  2. DiVita DJ
  3. Sizemore HE
  4. Wehrle K
  5. Miller CLW
  6. Fraley ME
  7. Mullins AK
  8. Guy AR
  9. Phizicky EM
  10. Guy MP
  Identification of a Trm732 Motif Required for 2'-O-methylation of the tRNA Anticodon Loop by Trm7.; ACS omega; Vol 7(16). 2022 Apr 26.
• 1. Getsy PM
  2. Young AP
  3. Grossfield A
  4. Seckler JM
  5. Wilson CG
  6. Gaston B
  7. Bates JN
  8. Lewis SJ
  D-Cysteine ethylester and D-cystine dimethylester reverse the deleterious effects of morphine on arterial blood-gas chemistry and Alveolar-arterial gradient in anesthetized rats.; Respiratory physiology & neurobiology. 2022 Apr 18.
• 1. Sur S
  2. Grossfield A
  Effects of Cholesterol on the mechanism of fengycin, a biofungicide.; Biophysical journal. 2022 Apr 14.
• 1. Brewer MG
  2. Monticelli SR
  3. Moran MC
  4. Miller BL
  5. Beck LA
  6. Ward BM
  Conditions That Simulate the Environment of Atopic Dermatitis Enhance Susceptibility of Human Keratinocytes to Vaccinia Virus.; Cells; Vol 11(8). 2022 Apr 14.
• 1. Walker EJ
  2. Bettinger JQ
  3. Welle KA
  4. Hryhorenko JR
  5. Molina Vargas AM
  6. O'Connell MR
  7. Ghaemmaghami S
  Protein folding stabilities are a major determinant of oxidation rates for buried methionine residues.; The Journal of biological chemistry. 2022 Mar 25.
• 1. Kierzek E
  2. Zhang X
  3. Watson RM
  4. Kennedy SD
  5. Szabat M
  6. Kierzek R
  7. Mathews DH
  Secondary structure prediction for RNA sequences including N6-methyladenosine.; Nature communications; Vol 13(1). 2022 Mar 11.
• 1. Szutkowska B
  2. Wieczorek K
  3. Kierzek R
  4. Zmora P
  5. Peterson JM
  6. Moss WN
  7. Mathews DH
  8. Kierzek E
  Secondary Structure of Influenza A Virus Genomic Segment 8 RNA Folded in a Cellular Environment.; International journal of molecular sciences; Vol 23(5). 2022 Feb 23.