Génomique Archives - Page 3 sur 4 - Canadian Centre for Computational Genomics

Disambiguating mixed-species of graft samples

As a Bioinformatician, often I get to work with PDX cancer samples. I’ve recently been reading about samples containing genome admixture, and was revisiting strategies that we commonly use for analyzing these biological data. Presented here is a summary of the existing software tools used for this purpose.

The ANCHOR pipeline

Emmanuel Gonzalez with another team member

ANCHOR is a high-resolution metagenomics pipeline, the result of a multi-disciplinary collaboration between C3G and researchers at Institut de recherche en biologie végétale (IRBV) at Université de Montreal. Published in 2019 in the journal Environmental Microbiology, the pipeline demonstrated unprecedented accuracy in its characterization of microbiome samples.

Characterizing the landscape of genetic drivers and their clinical impact

Recently published in [Nature Communications], this paper presents work by members of the C3G Toronto node that integrates genomic and transcriptomic analyses to assess the molecular and clinical features of infant glioma patients.

Fibromyalgia

This summer has also been very special for C3G’s metagenome specialist Emmanuel Gonzalez with a publication in Pain highlighting a strong potential link between the microbiome and fibromyalgia, a terrible and elusive disorder affecting a large fraction of the population.

GSoC 2019

flag with code symbol hoisted on the globe

Again this year, C3G was a Google Summer of Code organization. For people unfamiliar with it, GSoC is in Google’s own words: ” a global program that matches students up with open source, free software and technology-related organizations to write code and get paid to do it! ”

Altered differentiation is central to HIV-specific CD4

Another noteworthy publication to which C3G members contributed as authors was published in Nature Immunology this summer.

Methylation signatures investigations

Methylation signature close up of a DNA strand

The C3G Toronto node has also been involved in two projects to investigate methylation signatures for specific conditions.

GenPipes: an open-source framework

It started in June with the publication of our beloved GenPipes framework and set of NGS data analysis pipelines in GigaScience.

Covid-19 updates at C3G

While our host institutions (McGill University, SickKids Toronto) have put various measures in place to ensure the safety of our staff, our platform remains fully operational and available to support genomics research.

ForCasT

ForCas Tool (ForCasT) is a comprehensive tool for the design, evaluation and collection of CRISPR/Cas9 guide RNAs and primers. Using robust parameters, it generates guide RNAs for target loci, assesses their quality for any potential off-target effects and designs associated primers.