A5102837838- RNA modifications and cancer
- RNA Research and Splicing
- Bioinformatics and Genomic Networks
- RNA and protein synthesis mechanisms
- Genomics and Chromatin Dynamics
- Microbial Metabolic Engineering and Bioproduction
- Epigenetics and DNA Methylation
- Fungal and yeast genetics research
- Protein Structure and Dynamics
- Viral-associated cancers and disorders
- Cancer-related gene regulation
- Ubiquitin and proteasome pathways
- Advanced Proteomics Techniques and Applications
- Viral Infectious Diseases and Gene Expression in Insects
- Cytomegalovirus and herpesvirus research
- Bacterial Genetics and Biotechnology
- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- interferon and immune responses
- Monoclonal and Polyclonal Antibodies Research
- Evolution and Genetic Dynamics
- CRISPR and Genetic Engineering
- Cancer-related molecular mechanisms research
- SARS-CoV-2 and COVID-19 Research
- Herpesvirus Infections and Treatments
University of Toronto
2015-2024
Canada Research Chairs
2004-2022
University of New Brunswick
2004-2022
Donnelly College
2021
University of Regina
2014
Hospital for Sick Children
2008-2011
SickKids Foundation
2008-2010
In-Q-Tel
2010
McGill University
2004
Memorial Sloan Kettering Cancer Center
2004
A genetic interaction network containing approximately 1000 genes and 4000 interactions was mapped by crossing mutations in 132 different query into a set of 4700 viable gene yeast deletion mutants scoring the double mutant progeny for fitness defects. Network connectivity predictive function because often occurred among functionally related genes, similar patterns tended to identify components same pathway. The exhibited dense local neighborhoods; therefore, position on partially is other...
We have developed an approach using Bayesian networks to predict protein-protein interactions genome-wide in yeast. Our method naturally weights and combines into reliable predictions genomic features only weakly associated with interaction (e.g., messenger RNAcoexpression, coessentiality, colocalization). In addition de novo predictions, it can integrate often noisy, experimental data sets. observe that at given levels of sensitivity, our are more accurate than the existing high-throughput...
One-third of the 4,225 protein-coding genes Escherichia coli K-12 remain functionally unannotated (orphans). Many map to distant clades such as Archaea, suggesting involvement in basic prokaryotic traits, whereas others appear restricted E. coli, including pathogenic strains. To elucidate orphans' biological roles, we performed an extensive proteomic survey using affinity-tagged strains and generated comprehensive genomic context inferences derive a high-confidence compendium for virtually...
Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) and the associated proteins (Cas) comprise a system of adaptive immunity against viruses plasmids in prokaryotes. Cas1 is CRISPR-associated protein that common to all CRISPR-containing prokaryotes but its function remains obscure. Here we show purified Escherichia coli (YgbT) exhibits nuclease activity single-stranded branched DNAs including Holliday junctions, replication forks 5'-flaps. The crystal structure YgbT...
Large-scale quantitative analysis of transcriptional co-expression has been used to dissect regulatory networks and predict the functions new genes discovered by genome sequencing in model organisms such as yeast. Although idea that tissue-specific expression is indicative gene function mammals widely accepted, it not objectively tested nor compared with related but distinct strategy correlating a means function.
Molecular chaperones are known to be involved in many cellular functions, however, a detailed and comprehensive overview of the interactions between their cofactors substrates is still absent. Systematic analysis physical TAP-tag based protein-protein all 63 Saccharomyces cerevisiae has been carried out. These include seven small heat-shock proteins, three members AAA+ family, eight CCT/TRiC complex, six prefoldin/GimC 22 Hsp40s, 1 Hsp60, 14 Hsp70s, 2 Hsp90s. Our provides clear distinction...
Abstract Background Identification of protein interaction networks has received considerable attention in the post-genomic era. The currently available biochemical approaches used to detect protein-protein interactions are all time and labour intensive. Consequently there is a growing need for development computational tools that capable effectively identifying such interactions. Results Here we explain implementation novel Protein-Protein Interaction Prediction Engine termed PIPE. This tool...
C2H2 zinc finger proteins represent the largest and most enigmatic class of human transcription factors. Their C2H2-ZF arrays are highly variable, indicating that will have unique DNA binding motifs. However, motifs not been directly determined. In addition, little is known about whether or how these regulate transcription. Most ∼700 also contain at least one KRAB, SCAN, BTB, SET domain, suggesting they may common interacting partners and/or effector functions. Here, we report a multifaceted...