Recent Publications

• 1. Cavender CE
  2. Schroeder GM
  3. Mathews DH
  4. Wedekind JE
  Isothermal Titration Calorimetry Analysis of a Cooperative Riboswitch Using an Interdependent-Sites Binding Model.; Methods in molecular biology (Clifton, N.J.); Vol 2568, pp. 53-73. 2023.
• 1. McMurray HR
  2. Stern HA
  3. Ambeskovic A
  4. Land H
  5. McCall MN
  Protocol to use TopNet for gene regulatory network modeling using gene expression data from perturbation experiments.; STAR protocols; Vol 3(4), pp. 101737. 2022 Sep 30.
• 1. Bhat JA
  2. Balliano AJ
  3. Hayes JJ
  Histone protein surface accessibility dictates direction of RSC-dependent nucleosome mobilization.; Nucleic acids research. 2022 Sep 26.
• 1. Mammola S
  2. Malumbres-Olarte J
  3. Arabesky V
  4. Barrales-Alcalá DA
  5. Barrion-Dupo AL
  6. Benamú MA
  7. Bird TL
  8. Bogomolova M
  9. Cardoso P
  10. Chatzaki M
  11. Cheng RC
  12. Chu TA
  13. Classen-Rodríguez LM
  14. Čupić I
  15. Dhiya'ulhaq NU
  16. Drapeau Picard AP
  17. El-Hennawy HK
  18. Elverici M
  19. Fukushima CS
  20. Ganem Z
  21. Gavish-Regev E
  22. Gonnye NT
  23. Hacala A
  24. Haddad CR
  25. Hesselberg T
  26. Tian Ho TA
  27. Into T
  28. Isaia M
  29. Jayaraman D
  30. Karuaera N
  31. Khalap R
  32. Khalap K
  33. Kim D
  34. Korhonen T
  35. Kralj-Fišer S
  36. Land H
  37. Lin SW
  38. Loboda S
  39. Lowe E
  40. Lubin Y
  41. Martínez A
  42. Mbo Z
  43. Miličić M
  44. Kioko GM
  45. Nanni V
  46. Norma-Rashid Y
  47. Nwankwo D
  48. Painting CJ
  49. Pang A
  50. Pantini P
  51. Pavlek M
  52. Pearce R
  53. Petcharad B
  54. Pétillon J
  55. Raberahona OC
  56. Russo P
  57. Saarinen JA
  58. Segura-Hernández L
  59. Sentenská L
  60. Uhl G
  61. Walker L
  62. Warui CM
  63. Wiśniewski K
  64. Zamani A
  65. Chuang A
  66. Scott C
  The global spread of misinformation on spiders.; Current biology : CB; Vol 32(16), pp. R871-R873. 2022 Aug 22.
• 1. Seckler JM
  2. Robinson EN
  3. Lewis SJ
  4. Grossfield A
  Surveying non-visual arrestins reveals allosteric interactions between functional sites.; Proteins. 2022 Aug 21.
• 1. Joseph Davis Burris B
  2. Moises Molina Vargas A
  3. Park BJ
  4. O'Connell MR
  Optimization of specific RNA knockdown in mammalian cells with CRISPR-Cas13.; Methods (San Diego, Calif.). 2022 Aug 17.
• 1. Tasak M
  2. Phizicky EM
  Initiator tRNA lacking 1-methyladenosine is targeted by the rapid tRNA decay path way in evolutionarily distant yeast species.; PLoS genetics; Vol 18(7), pp. e1010215. 2022 Jul 28.
• 1. Getsy PM
  2. Young AP
  3. Bates JN
  4. Baby SM
  5. Seckler JM
  6. Grossfield A
  7. Hsieh YH
  8. Lewis THJ
  9. Jenkins MW
  10. Gaston B
  11. Lewis SJ
  S-nitroso-L-cysteine stereoselectively blunts the adverse effects of morphine on breathing and arterial blood gas chemistry while promoting analgesia.; Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie; Vol 153, pp. 113436. 2022 Jul 26.
• 1. Ciesla J
  2. Moreno I
  3. Munger J
  TNFα-induced metabolic reprogramming drives an intrinsic anti-viral state.; PLoS pathogens; Vol 18(7), pp. e1010722. 2022 Jul 14.
• 1. Galardi JW
  2. Bela VN
  3. Jeffery N
  4. He X
  5. Glasser E
  6. Loerch S
  7. Jenkins JL
  8. Pulvino MJ
  9. Boutz PL
  10. Kielkopf CL
  A UHM - ULM interface with unusual structural features contributes to U2AF2 and SF3B1 association for pre-mRNA splicing.; The Journal of biological chemistry. 2022 Jun 30.
• 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.