A5032311125- RNA and protein synthesis mechanisms
- T-cell and Retrovirus Studies
- Chromosomal and Genetic Variations
- CRISPR and Genetic Engineering
- Genomics and Chromatin Dynamics
- Child Development and Digital Technology
- Neuroendocrine regulation and behavior
- Epigenetics and DNA Methylation
- Genomics and Phylogenetic Studies
- RNA modifications and cancer
University of Toronto
2021-2024
Hospital for Sick Children
2021
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...
SUMMARY We describe an effort (“Codebook”) to determine the sequence specificity of 332 putative and largely uncharacterized human transcription factors (TFs), as well 61 control TFs. Nearly 5,000 independent experiments across multiple in vitro vivo assays produced motifs for just over half TFs analyzed (177, or 53%), which most are unique a single TF. The data highlight extensive contribution transposable elements TF evolution, both cis trans , identify tens thousands conserved, base-level...
The human transcription factor (TF) CGGBP1 (CGG-binding protein) is conserved only in amniotes and believed to derive from the zf-BED Hermes transposase DNA-binding domains (DBDs) of a hAT DNA transposon. Here, we show that sequence-specific proteins with this bipartite domain structure have resulted dozens independent domestications different eukaryotic lineages. CGGBPs display wide range sequence specificity, usually including preferences for CGG or CGC trinucleotides, whereas some bind...
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...