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May 21 2024


10:00 am - 5:15 pm

Formats (virtual, in person, hybrid)


Single Cell Analysis Boot Camp

The Single Cell Analysis Boot Camp is a two-day intensive training of seminars and hands-on analytical sessions to launch students on a path towards mastery of scRNASeq data analysis methods used in health studies.

This two-day intensive boot camp is designed as a flipped classroom setup with several pre-recorded lectures for attendees to watch prior to each training, with live training times designed for hands-on labs and answering questions. Emphasis will be given to single cell data collection and basic analysis, along with in-depth sessions on advanced methods for phenotyping single cell populations using systems-biology approaches. Led by a team who have invented several of the methods used in network biology and single-cell transcriptome analysis, we demonstrate how to use network models to convert gene expression profiles into protein activity profiles, and how to transfer knowledge between established bulk datasets and novel single-cell data. We expect that, during this hands-on workshop, participants will acquire enough knowledge to plan and perform scRNAseq analyses.

By the end of the workshop, participants will be familiar with the following topics:

  • Gene Expression Analysis of scRNA data (pre-processing, quality control, filtering, normalization)
  • Cluster Analysis
  • Cell Type Identification
  • Regulatory Network Analysis
  • Master Regulator Analysis

Audience and Requirements

Investigators from any institution and from all career stages are welcome to attend, and we particularly encourage trainees and early-stage investigators to participate. There are four requirements to attend this training:

  1. Each participant must have an introductory background in statistics.
  2. Each participant must be familiar with R.
  3. Each participant must have a free, basic RStudio Cloud account prior to the first day of the workshop.


Boot Camp Director: Lorenzo Tomassoni, PhD, Postdoctoral Research Scientist, Department of Systems Biology, Columbia University.

Ester Calvo Fernández, PhD Candidate, Departments of Pathology and Cell Biology and Systems Biology, Columbia University.

Aleksandar Obradovic, MD/PhD Candidate, Columbia University.

Alessandro Vasciaveo, PhD, Associate Research Scientist, Columbia University.

Luca Zanella, Staff Associate, Columbia University.

Keynote Speaker: Peter Sims, PhD, Systems Biology, Columbia University


Capacity is limited. Paid registration is required to attend.

Additional Training Information

Event Contact Information:
Single Cell Analysis Boot Camp