3DAROC21 - 3C-based data analysis and 3D reconstruction of chromatin folding

gtpb

Course Description

3C-based methods, such as Hi-C, produce a huge amount of raw data as pairs of DNA reads that are in close spatial proximity in the cell nucleus. Overall, those interaction matrices have been used to study how the genome folds within the nucleus, which is one of the most fascinating problems in modern biology. The rigorous analysis of those paired-reads using computational tools has been essential to fully exploit the experimental technique, and to study how the genome is folded in space. Currently, there is a clear expansion on the wealth of data on genome structure with the availability of many datasets of Hi-C experiments down to 1Kb resolution.

In this course, participants will learn to use TADbit, a software designed and developed to manage all dimensionalities of the Hi-C data:

  1. 1D - Map paired-end sequences to generate Hi-C interaction matrices 
  2. 2D - Normalize matrices and identify constitutive domains (TADs, compartments)
  3. 3D - Generate populations of structures which satisfy the Hi-C interaction matrices
  4. 4D - Compare samples at different time points

 

Target Audience

- Experimental researchers and bioinformaticians at the graduate and post-graduate levels

 

Important Dates

Deadline for applications: Sep 24th 2021

Course date: Oct 4th to Oct 6th 2021

 

Candidates with an adequate profile will be accepted until we reach 20 participants. Decisions will be communicated by Sep 24th.

 

Sponsorship

Presently, GTPB receives support from:

The support allows us to waive 50% of the course fee to accepted candidates that reside or work in the Oeiras council.

 

Date
-
Address

Instituto Gulbenkian da Ciência
Portugal

Event Type
Workshops and courses