Matthew D. Simon

University of Rochester — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

37h-index8.7kcitations108works4.12yr avg
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Research Topics

RNA modifications and cancer(56), RNA Research and Splicing(52), RNA and protein synthesis mechanisms(38), Genomics and Chromatin Dynamics(22), Cancer-related molecular mechanisms research(21)

Publications107 total

Balance between DNA repair, LINE1 suppression and lifespan in mice with SIRT6 Serine 10 phosphorylation site mutations
2026Open Access
JNK Phosphorylates SIRT6 to Stimulate DNA Double-Strand Break Repair in Response to Oxidative Stress by Recruiting PARP1 to DNA Breaks
Cell Reports·2026Open Access
Investigation of TRMT61B methyltransferase activity on mRNA and its effects on translation
2025Open Access
RNADecayCafe, a uniformly processed atlas of RNA half-life estimates across multiple human cell lines
2025· 2 citedOpen Access
MYOD represses gene expression from non-E-box motifs
Genes & Development·2025· 1 citedOpen Access
Expanding and improving analyses of nucleotide recoding RNA-seq experiments with the EZbakR suite
PLoS Computational Biology·2025· 6 citedOpen Access
RBM15-MKL1 fusion protein promotes leukemia via m6A methylation and Wnt pathway activation
Blood·2025· 5 citedOpen Access
Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis
Molecular Cell·2025· 7 cited
Uncovering the isoform-resolution kinetic landscape of nonsense-mediated mRNA decay with EZbakR
2025· 5 citedOpen Access
Transcription elongation factor ELOF1 is required for efficient somatic hypermutation and class switch recombination
Molecular Cell·2025· 5 cited
RBM15-MKL1 fusion protein promotes leukemia via m6A methylation and WNT pathway activation
2025· 1 citedOpen Access
E-box independent chromatin recruitment turns MYOD into a transcriptional repressor
2024· 2 citedOpen Access
Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis
2024Open Access
Expanding and improving analyses of nucleotide recoding RNA-seq experiments with the EZbakR suite
2024· 1 citedOpen Access
Transcription elongation factor ELOF1 is required for efficient somatic hypermutation and class switch recombination
2024· 1 citedOpen Access
Disulfide Tethering to Map Small Molecule Binding Sites Transcriptome-wide
ACS Chemical Biology·2024· 4 citedOpen Access
Phosphorylation of the nuclear poly(A) binding protein (PABPN1) during mitosis protects mRNA from hyperadenylation and maintains transcriptome dynamics
Nucleic Acids Research·2024· 5 citedOpen Access
Transcription elongation defects link oncogenic SF3B1 mutations to targetable alterations in chromatin landscape
Molecular Cell·2024· 29 citedOpen Access
Impaired Early Spliceosome Complex Assembly Underlies Gene Body Elongation Transcription Defect in SF3B1K700E
Blood·2023· 1 citedOpen Access
ALKBH5 modulates hematopoietic stem and progenitor cell energy metabolism through m6A modification-mediated RNA stability control
Cell Reports·2023· 38 citedOpen Access
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Frequent Co-authors

Joshua T. Zimmer(8), Erin E. Duffy(7), Jeremy A. Schofield(7), Robert E. Kingston(6), Michael Rutenberg-Schoenberg(5), William J. Lu-Culligan(4), Kevan M. Shokat(4), Daniele Canzio(4), Sarah A. Slavoff(4), Howard Y. Chang(3), Rui Fang(3), Lea Kiefer(3), Alec N. Sexton(3), Martin Machyna(3), Yang Luo(3), Huabing Li(2), Richard A. Flavell(2), Jason A. West(2), Michael Tolstorukov(2), Jin Wei(2)