David H Mathews
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Explore the profile of David H Mathews including associated specialties, affiliations and a list of published articles.
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159
Citations
7004
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Recent Articles
1.
Stegemann F, Marcus E, Neupert S, Ostrowski S, Mathews D, Phizicky E
RNA
. 2025 Jan;
PMID: 39848696
The pseudouridylase Pus1 catalyzes pseudouridine (Ψ) formation at multiple uridine residues in tRNAs, and in some snRNAs and mRNAs. Although Pus1 is highly conserved, and mutations are associated with human...
2.
Wakabayashi H, Zhu M, Grayhack E, Mathews D, Ermolenko D
bioRxiv
. 2025 Jan;
PMID: 39803544
During eukaryotic translation initiation, the small (40S) ribosomal subunit is recruited to the 5' cap and subsequently scans the 5' untranslated region (5' UTR) of mRNA in search of the...
3.
Tang W, Dai N, Zhou T, Mathews D, Huang L
ArXiv
. 2024 Dec;
PMID: 39713799
The task of RNA design given a target structure aims to find a sequence that can fold into that structure. It is a computationally hard problem where some version(s) have...
4.
Berger K, Puthenpeedikakkal A, Mathews D, Fu D
bioRxiv
. 2024 Nov;
PMID: 39605410
All tRNAs undergo a series of chemical modifications to fold and function correctly. In mammals, the C32 nucleotide in the anticodon loop of tRNA-Arg-CCU and UCU is methylated to form...
5.
Reed C, Kennedy S, Horowitz R, Keedakkatt Puthenpeedikakkal A, Stern H, Mathews D
J Phys Chem B
. 2024 Nov;
128(47):11634-11643.
PMID: 39560366
Cyclometalated iridium(III) complexes are increasingly being developed for application in G-quadruplex (GQ) nucleic acid biosensors. We monitored the interactions of a GQ structure with an iridium(III) complex by nuclear magnetic...
6.
Mittal A, Ali S, Mathews D
Curr Protoc
. 2024 Nov;
4(11):e70054.
PMID: 39540715
The structures of many non-coding RNAs (ncRNA) are conserved by evolution to a greater extent than their sequences. By predicting the conserved structure of two or more homologous sequences, the...
7.
Zhu M, Zuber J, Tan Z, Sharma G, Mathews D
bioRxiv
. 2024 Oct;
PMID: 39464058
Motivation: RNA structure is essential for the function of many non-coding RNAs. Using multiple homologous sequences, which share structure and function, secondary structure can be predicted with much higher accuracy...
8.
Courtney E, Datta A, Mathews D, Ward M
J Mol Biol
. 2024 Oct;
437(3):168819.
PMID: 39427984
Determining RNA secondary structure is a core problem in computational biology. Fast algorithms for predicting secondary structure are fundamental to this task. We describe a modified formulation of the Zuker-Stiegler...
9.
Srivastava Y, Akinyemi O, Rohe T, Pritchett E, Baker C, Sharma A, et al.
Nucleic Acids Res
. 2024 Oct;
52(21):13152-13173.
PMID: 39413212
Riboswitches are structured RNAs that sense small molecules to control expression. Prequeuosine1 (preQ1)-sensing riboswitches comprise three classes (I, II and III) that adopt distinct folds. Despite this difference, class II...
10.
Oberstrass L, Tants J, Lichtenthaeler C, Ali S, Koch L, Mathews D, et al.
Angew Chem Int Ed Engl
. 2024 Sep;
63(50):e202412596.
PMID: 39344866
The cellular levels of mRNAs are controlled post-transcriptionally by cis-regulatory elements located in the 3'-untranslated region. These linear or structured elements are recognized by RNA-binding proteins (RBPs) to modulate mRNA...