A5021081745- RNA modifications and cancer
- Cancer-related molecular mechanisms research
- ATP Synthase and ATPases Research
- RNA Research and Splicing
- Cancer-related gene regulation
- Mosquito-borne diseases and control
- Insect symbiosis and bacterial influences
- Viral Infections and Vectors
- Evolution and Genetic Dynamics
- RNA regulation and disease
- vaccines and immunoinformatics approaches
- RNA and protein synthesis mechanisms
- Ubiquitin and proteasome pathways
- Genomics and Phylogenetic Studies
Weill Cornell Medicine
2020-2023
Genome Institute of Singapore
2018-2023
Cornell University
2020-2023
Abstract Glioblastoma is a universally lethal cancer driven by glioblastoma stem cells (GSC). Here, we interrogated N6-methyladenosine (m6A) mRNA modifications in GSCs methyl RNA immunoprecipitation followed sequencing and transcriptome analysis, finding transcripts marked m6A often upregulated compared with normal neural (NSC). Interrogating regulators, displayed preferential expression, as well vitro vivo dependency, of the reader YTHDF2, contrast to NSCs. Although YTHDF2 has been reported...
Abstract Dengue (DENV) and Zika (ZIKV) viruses are clinically important members of the Flaviviridae family with an 11 kb positive strand RNA genome that folds to enable virus function. Here, we perform structure interaction mapping on four DENV ZIKV strains inside virions in infected cells. Comparative analysis SHAPE reactivities across serotypes nominates potentially functional regions highly structured, conserved, contain low synonymous mutation rates. Interaction by SPLASH identifies many...
N 6 -methyladenosine (m A) is a highly prevalent mRNA modification that promotes degradation of transcripts encoding proteins have roles in cell development, differentiation, and other pathways. METTL3 the major methyltransferase catalyzes formation m A mRNA. As 30% to 80% can remain after depletion by CRISPR/Cas9-based methods, enzymes are thought catalyze sizable fraction A. Here, we reexamined source transcriptome. We characterized mouse embryonic stem lines continue their Mettl3...
Multicellular life requires altruistic cooperation between cells. The adaptive immune system is a notable exception, wherein germinal center B cells compete vigorously for limiting positive selection signals. Studying primary human lymphomas and developing new mouse models, we found that mutations affecting BTG1 disrupt critical gatekeeper mechanism strictly limits cell fitness during antibody affinity maturation. This converted into supercompetitors rapidly outstrip their normal...
Abstract Background Identifying host factors is key to understanding RNA virus pathogenicity. Besides proteins, RNAs can interact with genomes impact replication. Results Here, we use proximity ligation sequencing identify virus-host interactions for four strains of Zika (ZIKV) and one strain dengue (DENV-1) in human cells. We find hundreds coding non-coding that bind DENV ZIKV viruses. Host tend single-stranded regions along the according hybridization energetics. Compared SARS-CoV-2...
ABSTRACT N 6 -methyladenosine (m A) is a highly prevalent mRNA modification which promotes degradation of transcripts encoding proteins that have roles in cell development, differentiation, and other pathways. METTL3 the major methyltransferase catalyzes formation m A mRNA. As 30–80% can remain after depletion by CRISPR/Cas9-based methods, enzymes are thought to catalyze sizable fraction A. Here, we re-examined source transcriptome. We characterized mouse embryonic stem lines continue their...
ABSTRACT Stress granules are biomolecular condensates composed of protein and mRNA. Long mRNAs enriched in stress granules, which is thought to reflect the ability long form multiple RNA-RNA interactions with other mRNAs. thus be critical for granule formation. granule-enriched also often contain N 6 -methyladenosine (m A) residues. YTHDF proteins bind m A, creating mRNA-protein complexes that partition into granules. Here we determine basis length-dependent enrichment We show depletion A...
Abstract Dengue and Zika are clinically important members of the Flaviviridae family that utilizes an 11kb positive strand RNA for genome regulation. While structures have been mapped primarily in UTRs, much remains to be learnt about how rest folds enable function. Here, we performed secondary structure pair-wise interaction mapping on four dengue serotypes strains their native virus particles infected cells. Comparative analysis SHAPE reactivities across nominated potentially functional...
<div>Abstract<p>Glioblastoma is a universally lethal cancer driven by glioblastoma stem cells (GSC). Here, we interrogated <i>N</i><sup>6</sup>-methyladenosine (m6A) mRNA modifications in GSCs methyl RNA immunoprecipitation followed sequencing and transcriptome analysis, finding transcripts marked m6A often upregulated compared with normal neural (NSC). Interrogating regulators, displayed preferential expression, as well <i>in vitro</i>...
<p>Supplementary figures and legends</p>
<p>Supplementary figures and legends</p>
<div>Abstract<p>Glioblastoma is a universally lethal cancer driven by glioblastoma stem cells (GSC). Here, we interrogated <i>N</i><sup>6</sup>-methyladenosine (m6A) mRNA modifications in GSCs methyl RNA immunoprecipitation followed sequencing and transcriptome analysis, finding transcripts marked m6A often upregulated compared with normal neural (NSC). Interrogating regulators, displayed preferential expression, as well <i>in vitro</i>...
Identifying host factors is key to understanding RNA virus pathogenicity. Besides proteins, RNAs can interact with genomes impact replication. Here, we used proximity ligation sequencing identify virus-host interactions for four strains of Zika (ZIKV) and one strain dengue (DENV-1) in human cells. We found hundreds coding non-coding that bind DENV ZIKV viruses. Host tend single-stranded regions along the binding primarily driven by hybridization energetics. observed interacting be...