Research and Interests
Dr. Filion tackles the question of how the regulatory genome co-ordinates the coding genome. By applying novel molecular and computational sequencing techniques, his research especially focuses on how chromatin influences genome transcription (‘invasion landscapes’), and how it shapes the genome sequence in the course of evolution (‘chromatin print’). This will contribute to a greater understanding on how gene regulation and its organization tie in with each other in different cellular contexts and physiological conditions.
Expertise and Capabilities
Filion’s team uses and develops novel molecular and computational sequencing technologies to address key fundamental questions related to genome transcription and regulation using Drosophila cells as model system:
- Thousand Reporters in Parallel (TRiP) Technology
Combining three different technologies: barcoding PCR, Sleeping Beauty transposition, and high throughput sequencing, the TRiP Technology adapted by the group places a gene in a new chromatin context at random and measures the impact on its transcription in a genome-wide and high-throughput manner. TRiP allows researchers to map regions where a gene can invade the local chromatin and maintain its expression level, and regions where the local chromatin shuts down its expression (‘position effects’). Because of its flexibility, the method can be used to probe the influence of chromatin context on a variety of molecular processes in any transfectable cell line.
Starcode is a novel, open source, DNA sequence clustering software developed by the group to correct sequencing errors, particularly the ones arising when sequencing reads from an unknown reference, such as random DNA barcodes. Starcode can be applied to many purposes in the field of biology such as DNA/RNA motif recovery, barcode clustering and sequencing error recovery.
To know more about the group, please click here.