Danny Incarnato

SOLiD-MaP maps small molecule binding sites on RNA using photoproximity labeling, demonstrating target-selective labeling and mutational profiling to identify binding regions.

This study resolves high-resolution structures of the C. auris ribosome in complex with three inhibitors, revealing unique features that may inform antifungal therapy development.

This paper develops an optogenetic tool to reversibly control G1 progression in budding yeast and shows its utility in studying cell cycle dynamics.

The paper shows that dynamic RNA structures guide viral replication by enabling conformational changes necessary for protein binding and function.

FIRST-seq uses nanopore cDNA sequencing to profile RNA modifications and structures by analyzing RT errors, achieving single-nucleotide resolution without PCR or second-strand synthesis.

The paper shows that protein agglomerates in E. coli regulate cytoplasmic rheology, with diffusion inversely correlating with amino acid metabolism protein abundance.

The paper shows that 4-HNE increases SYT1 expression in macrophages, which inhibits phagocytosis of bacteria.

This study shows that 4-HNE suppresses IL-10 production in sepsis while leaving IL-6 and TNF- unaffected, through mechanisms involving HIF-1 and NF-κB signaling.

This study shows that butyrate increases global histone acetylation by preventing p300 recruitment to acetylated histones, rather than targeting specific genomic regions.

The paper maps RNA secondary structure ensembles in living E. coli cells, identifying conserved structural elements and cold shock-responsive RNA thermometers.

This paper introduces nucleotide dependency analysis to identify genomic functional elements, showing it outperforms existing methods in detecting regulatory elements and RNA structures.

The paper derives physicochemical rules for small molecule binding to RNA using extensive binding data and applies them to validate known RNA-targeting compounds and drugs.

This study identifies HNRNPM as a splicing factor critical for prostate cancer cell growth by regulating splicing fidelity and circRNA biogenesis, suggesting it as a therapeutic target.

The paper develops an RNA-based biosensor for fructose-1,6-bisphosphate that reports glycolytic flux in yeast cells using FACS-seq screening.

This study maps SARS-CoV-2 RNA structures at single-base resolution using SHAPE-MaP, identifies druggable pockets and conserved elements, and highlights targets for antisense therapeutics.