A5048776681- CRISPR and Genetic Engineering
- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- Bacterial Genetics and Biotechnology
- RNA modifications and cancer
- Lipid metabolism and biosynthesis
- Gene Regulatory Network Analysis
- Ubiquitin and proteasome pathways
- Single-cell and spatial transcriptomics
Boston University
2022
University of Washington
2022
Seattle University
2022
Abstract Background 3′-end processing by cleavage and polyadenylation is an important finely tuned regulatory process during mRNA maturation. Numerous genetic variants are known to cause or contribute human disorders disrupting the cis-regulatory code of signals. Yet, due complexity this code, variant interpretation remains challenging. Results We introduce a residual neural network model, APARENT2 , that can infer 3′-cleavage from DNA sequence more accurately than any previous model. This...
CRISPR-Cas transcriptional tools have been widely applied for programmable regulation of complex biological networks. In comparison to eukaryotic systems, bacterial CRISPR activation (CRISPRa) has stringent target site requirements effective gene activation. While genes may not always an NGG protospacer adjacent motif (PAM) at the appropriate position, PAM-flexible dCas9 variants can expand range targetable sites. Here we systematically evaluate a panel their ability activate genes. We...
Abstract Living cells perform sophisticated computations that guide them toward discrete states. Synthetic genetic circuits are powerful tools for programing these computations, where transcription-regulatory networks and DNA recombination the two dominant paradigms implementing systems. While each strategy exhibits unique strengths weaknesses, integrating both into one seamless design framework would enable advanced gene circuit designs intractable with either approach alone. Here, we...
Abstract CRISPR-Cas transcriptional tools have been widely applied for programmable regulation of complex biological networks. In comparison to eukaryotic systems, bacterial CRISPR activation (CRISPRa) has stringent target site requirements effective gene activation. While genes may not always an NGG PAM at the appropriate position, PAM-flexible dCas9 variants can expand range targetable sites. Here we systematically evaluate a panel their ability activate genes. We observe that dxCas9-NG...