Postdoc position in computational immunology and microbiome

The Spitzer lab and the Fragiadakis Lab (Data Science CoLab) at UCSF are collaborating on a funded project exploring human microbiome-immune interactions at the systems-level. We are hiring a computationally-focused postdoc or PhD-level research scientist interested in analyzing high-dimensional immune system and microbiome data, with a focus on developing computational and statistical methods for interrogating and integrating high-dimensional immune system and microbiome data. The work will be conducted in an established team, in coordination with senior postdoctoral researcher Joel Babdor Best candidates would have extensive experience working with either microbiome data (metagenomics, 16S) and/or single-cell immune system data (single-cell RNAseq, CyTOF) and/or metabolomic data, with an interest in working with new data types. Experience with data management, multi-modal datasets, and machine learning/statistics is preferred, along with a willingness to work collaboratively, teaching and learning from wet-lab biologists. Position is based at UCSF Parnassus campus.

Interested candidates please contact Gabi Fragiadakis ([email protected]) or Matt Spitzer ([email protected]).

Required qualifications

  • PhD in computational biology, bioinformatics, or similar, or PhD in biology field with substantial computational component in thesis work
  • Extensive experience working with high-dimensional biological data and large data sets
  • Experience working with some subset of the following: single-cell sequencing data (scRNAseq, CITEseq, etc), metagenomic sequencing,16S amplicon sequencing, CyTOF or high-dimensional flow cytometry, proteomics, metabolomics
  • Advanced skills in R, python, or similar
  • An interest and aptitude for learning to work with new data types and multi-modal analysis
  • Version control (git), command line tools, pipeline use/development
  • Strong abilities in working as a part of a team and collaboration
  • Strong skills in communicating results and documentation

Preferred qualifications

  • Background in systems immunology and/or microbiome analysis
  • Experience working with clinical/demographic data
  • Experience developing methods for analyzing high-dimensional and multi-modal biological data
  • Ability to write standalone packages/libraries for use in future projects/ biological community