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Stage: Analysis of single-nuclei RNA sequencing datasets

Groep
Type
Internship
Locatie
Amsterdam
Omschrijving
In this internship, you will use R or Python to identify rare cell types in single-cell RNAseq datasets.
FTE
Fulltime
Periode
6-12 months
Dagelijkse begeleiding
Giorgia Tosoni
Senior Tutor


Omschrijving

Description
The Neurogenesis and Neurodegeneration laboratory led by Dr. 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 ([email protected]) or Dr. Evgenia Salta ([email protected]).

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 [email protected], with reference “internship”. Evaluation of candidates will begin immediately and will continue until the vacancy is filled.