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Thu 16 Mar - Fri 17 Mar 2017
09:30 - 17:00

Venue: Bioinformatics Training Room, Craik-Marshall Building, Downing Site

Provided by: Bioinformatics


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Analysis of single cell RNA-seq data
PrerequisitesNew

Thu 16 Mar - Fri 17 Mar 2017

Description

Recent technological advances have made it possible to obtain genome-wide transcriptome data from single cells using high-throughput sequencing (scRNA-seq). Even though scRNA-seq makes it possible to address problems that are intractable with bulk RNA-seq data, analysing scRNA-seq is also more challenging.

In this course we will be surveying the existing problems as well as the available computational and statistical frameworks available for the analysis of scRNA-seq.

The course website providing links to the course materials can be found here.

Please note that if you are not eligible for a University of Cambridge Raven account you will need to book by linking here.

Target audience
  • Graduate students, Postdocs and Staff members from the University of Cambridge, Affiliated Institutions and other external Institutions or individuals
  • Please be aware that these courses are only free for University of Cambridge students. All other participants will be charged a registration fee in some form. Registration fees and further details regarding the charging policy are available here
  • Further details regarding eligibility criteria are available here
Prerequisites
Sessions

Number of sessions: 2

# Date Time Venue Trainers
1 Thu 16 Mar 2017   09:30 - 17:00 09:30 - 17:00 Bioinformatics Training Room, Craik-Marshall Building, Downing Site map Vladimir Kiselev,  Martin Hemberg,  Tallulah Andrews
2 Fri 17 Mar 2017   09:30 - 17:00 09:30 - 17:00 Bioinformatics Training Room, Craik-Marshall Building, Downing Site map Vladimir Kiselev,  Martin Hemberg,  Tallulah Andrews
Topics covered

Bioinformatics, Data handling, Data mining, Data visualisation, Functional genomics, Transcriptomics

Objectives

After this course you should be able to:

  • Normalise scRNA-seq data using the scater package
  • Visualise the data and apply dimensionality reduction
  • Use available tools for analysing differential expression
  • Use available methods for clustering
  • Use available methods for pseudo-time alignment
Aims

During this course you will learn about:

  • Normalization and correction for batch effects
  • Identification of differentially expressed genes
  • Unsupervised hard and soft clustering of cells
Format

Presentation and demonstrations

Registration Fees
  • Free for University of Cambridge students
  • £ 50/day for all University of Cambridge staff, including postdocs, and participants from Affiliated Institutions. Please note that these charges are recovered by us at the Institutional level
  • It remains the participant's responsibility to acquire prior approval from the relevant group leader, line manager or budget holder to attend the course. It is requested that people booking only do so with the agreement of the relevant party as costs will be charged back to your Lab Head or Group Supervisor.
  • £ 50/day for all other academic participants from external Institutions and charitable organizations. These charges must be paid at registration
  • £ 100/day for all Industry participants. These charges must be paid at registration
  • Further details regarding the charging policy are available here
Duration

2 days

Frequency

A number of times per year

Related courses
Theme
Specialized Training

Booking / availability