A5001949562- Marine and coastal plant biology
- Marine Biology and Ecology Research
- Computational Drug Discovery Methods
- Genomics and Chromatin Dynamics
- RNA and protein synthesis mechanisms
- Pharmacogenetics and Drug Metabolism
- Renal and related cancers
- Coastal wetland ecosystem dynamics
- Insect and Arachnid Ecology and Behavior
- T-cell and Retrovirus Studies
- RNA Research and Splicing
- Chromosomal and Genetic Variations
- Genetic diversity and population structure
- Wildlife Ecology and Conservation
- Crustacean biology and ecology
- Gene Regulatory Network Analysis
- Viral Infectious Diseases and Gene Expression in Insects
- CRISPR and Genetic Engineering
- Species Distribution and Climate Change
- Ecology and biodiversity studies
- Parasite Biology and Host Interactions
- Evolution and Genetic Dynamics
- Genomics and Phylogenetic Studies
- Morphological variations and asymmetry
- Pluripotent Stem Cells Research
University of British Columbia
2020-2024
University of Toronto
2016-2022
Canadian Museum of Nature
2020
University of Calgary
2020
University of Ottawa
2020
Université de Montréal
2020
Bamfield Marine Sciences Centre
2011-2015
University of Alberta
2011-2015
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...
Most free-living barnacles are hermaphroditic, and eggs presumed to be fertilized either by pseudo-copulation or self-fertilization. Although the common northeast Pacific intertidal gooseneck barnacle, Pollicipes polymerus , is believed only cross-fertilize, some isolated individuals well outside penis range nonetheless bear eggs. They must therefore self-fertilize or—contrary all prior expectations about barnacle mating—obtain sperm from water. To test these alternative hypotheses, we...
Most of the human genome is thought to be non-functional, and includes large segments often referred as "dark matter" DNA. The also encodes hundreds putative poorly characterized transcription factors (TFs). We determined genomic binding locations 166 uncharacterized TFs in living cells. Nearly half them associated strongly with known regulatory regions such promoters enhancers, at conserved motif matches co-localizing each other. Surprisingly, other dark matter, largely unique sites, via...
KRAB C2H2 zinc finger proteins (KZNFs) are the largest and most diverse family of human transcription factors, likely due to diversifying selection driven by novel endogenous retroelements (EREs), but vast majority lack binding motifs or functional data. Two recent studies analyzed a KZNFs using either ChIP-seq (60 proteins) ChIP-exo (221 in same cell type (HEK293). The paper did not describe motifs, however. Thirty-nine represented both studies, enabling systematic comparison data sets...
Abstract Lions are widely known as charismatic predators that once roamed across the globe, but their populations have been greatly affected by environmental factors and human activities over last 150 yr. Of particular interest is Addis Ababa lion population, which has maintained in captivity at around 20 individuals for 75 yr, while many wild African become extinct. In order to understand molecular features of this unique we conducted a whole-genome sequencing study on 15 lions detected 4.5...
Abstract Sequences derived from the Long INterspersed Element-1 (L1) family of retrotransposons occupy at least 17% human genome, with 67 distinct subfamilies representing successive waves expansion and extinction in mammalian lineages. L1s contribute extensively to gene regulation, but their molecular history is difficult trace, because most are present only as truncated highly mutated fossils. Consequently, L1 entries current databases repeat sequences composed mainly short diagnostic...
Chemogenomic profiling is a powerful approach for understanding the genome-wide cellular response to small molecules. First developed in Saccharomyces cerevisiae, chemogenomic screens provide direct, unbiased identification of drug target candidates as well genes required resistance. While many laboratories have performed fitness assays, few been assessed reproducibility and accuracy. Here we analyze two largest independent yeast datasets comprising over 35 million gene-drug interactions...
Abstract Rotating forms of suspension culture allow cells to aggregate into spheroids, prevent the de-differentiating influence 2D culture, and, perhaps most importantly all, provide physiologically relevant, in vivo levels shear stress. technology has not been widely implemented, large part because vessels are prohibitively expensive, labor-intensive use, and difficult scale for industrial applications. Our solution addresses each these challenges a new vessel called cell spinpod. These...
Abstract BackgroundChemogenomic profiling is a powerful approach towards understanding the genome-wide cellular response to small molecules. Developed in Saccharomyces cerevisiae , chemogenomic screens provide direct, unbiased identification of drug target candidates as well genes required for resistance. While many laboratories have performed fitness assays, they not been assessed reproducibility and accuracy. Here we analyze two largest independent yeast datasets comprising over 35 million...