Research assistant - Bioinformatics

Institution/Company:
Douglas Research Centre - McGill University
Location:
Montreal, QC, Canada
Job Type:
  • Staff
Degree Level Required:
Masters, 2-4 years experience
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Research assistant - Bioinformatics

We study various aspects of the function genome by generating whole genome/transcriptome datasets which include but are not limited to; RNA-seq DNA and RNA methylation, using conversion-based sequencing (bisulfite or APOBEC) or ChIP-seq approaches. As part of the applicant’s work, they will be expected to process next-generation sequencing (NGS) data, from raw reads to final output, using the appropriate bioinformatic tools and pipelines on high-performance computer clusters. The applicant will work alongside students on projects focusing on the functional genomics of major depression.

Responsibilities:

Analyzing NGS methylation datasets from start to finish, carrying quality control checks on the sequenced libraries, identifying and removing sequencing biases, aligning reads to the genome, extracting relevant methylation metrics (signal, percentage, position, context, motif, etc.), and conducting downstream statistical analyses.

Synthesize the results and clearly communicate and transfer the data to other lab members. Analyses are often conducted in the context of students’ projects; it is of the upmost importance that students understand what has been done to the data and what to be mindful of when continuing the work.

The applicant is expected to manage the data they generate and its backup. Keeping a detailed log of how analyses were carried out in order to facilitate transparency and reproducibility of the results. They are also expected to manage their own time according to the various deadlines of the projects they are working on.

Qualifications:

• Good understanding of biochemistry is necessary. • Previous experience in epigenetics is an asset. • Fluency in either French or English, as well as being at least conversational in the other is required. • Good communication and people skills. • Good time management and organizational skills. • Creative problem-solving. General computer abilities: • Experienced user of UNIX and working on Linux environments through command line. (At least 5 years experience) • Proficiency in Bash and at least one of the following scripting languages (Perl, Python, Ruby). • Knowledge of R and bioconductor is preferred. Knowledge of other programming languages is a plus • Good understanding of statistics is preferred. • Experience working with large datasets is required • Experience with the Compute Canada high-performance clusters is an asset. Bioinformatic abilities: • Experience with analyzing NGS data is required • Familiarity with sequencing reads cleaning and trimming tools. • Experience with sequence aligners is required (specifically bowtie2 and STAR). • Experience with bismark is an advantage. • Experience working with ChIP-seq data would be ideal o Relevant tools and software: MACS2, ExomePeaks, HOMER • Familiarity with the large -OMICs databases (ei. NCBI, ENSEMBL, UCSC) • Knowledge of machine learning is welcome but not necessary

MSc in Bioinformatics (or relevant field) OR BSc in Bioinformatics (or relevant field) with at least 9 months of research experience (internship or otherwise)

  • How to Apply

    To apply for this position, please email your letter of motivation and CV.