Analysis of single-nuclei RNA sequencing datasets

The Neurogenesis and Neurodegeneration laboratory led by Evgenia Salta employs transcriptomics and other molecular and imaging approaches to map the cellular and molecular complexity of the adult hippocampal neurogenic niche and dissect the biological pathways that are deregulated in Alzheimer’s disease. We are currently generating a large dataset containing information on the transcriptomic (10X snRNA-seq) of adult brain. We are offering a computational neuroscience student internship to assist with data analysis using the R/Python programming language.

What are you going to do

• QC and filtering of scRNA-seq datasets.
• Batch correction and integration of different datasets.
• Develop an automated detection method of rare cell populations.
• Generate a well-documented pipeline that can be shared on GitHub.
• Use this pipeline for detection of rare cell types, differential gene expression analysis, compositional analysis, trajectory analysis, and network analysis.

Your skills, qualities and experience

• Interest in computational neuroscience.
• Good knowledge of statistics.
• Proficient in the R/Python programming language.
• Experience with scRNA/snRNA-seq data analysis (preferably).
• Highly organized working style.
• Team player.
• Fluent in English

Appointment

The internship is for a period of 6-12 months.

Information

For additional information please contact Giorgia Tosoni (g.tosoni@nin.knaw.nl) or Dr. Evgenia Salta (e.salta@nin.knaw.nl).

Application and deadline

Applicants are requested to write a short letter in which they motivate their application, accompanied by a curriculum vitae and one or two recommendation letters. Applicants should send this in a single PDF file by email, to g.tosoni@nin.knaw.nl, with reference “internship”.

Evaluation of candidates will begin immediately and will continue until the vacancy is filled.