Statistical Methods for mRNA-Seq and ChIP-seq

A short course on Statistical Methods for mRNA-Seq and ChIP-seq using Bioconductor.

The short course will provide an overview of statistical methods and software for the analysis of next generation sequencing (NGS) data, with emphasis on transcriptome analysis (mRNA-Seq) and the study of DNA-protein interactions (ChIP-Seq). The morning lectures on statistical methodology will be followed by afternoon lab sessions demonstrating the application of the methodology to mRNA-Seq and ChIP-Seq data using R software packages from the Bioconductor Project (www.bioconductor.org).

The course will be taught by Bioconductor developeprs from the Division of Biostatistics, School of Public Health, University of California, Berkeley and has been organized in collaboration with the Department of Bioinformatics of the CIPF. The course is especially suited to bioinformaticists and advanced users of bioinformatic tools interested in dealing with NGS data. It is also strongly recommended to personnel in charge of data analysis in core facilities implementing NGS.

The course will be held in the teaching facilities located in the premises of the CIPF.

 

Course Web Page

You will find all materials for the course here: http://www.stat.berkeley.edu/~biolab/Courses/CIPF10/ 


Venue

Centro de Investigacion Principe Felipe (CIPF), Valencia, Spain

 

Dates and Time Schedule

Course:

  • 8th to 10th November, 2010.  

Times:

  • Morning session: from 10:30 to 13:30
  • Lunch: from 13:30 to 15:00 will be held at CIPF cafeteria
  • Afternoon sesion: from 15:00 to 18:00

Gala Dinner

  • Will be held on Tuesday 9th at 9:30
  • Find the restaurant location and information in their web page: http://www.diblu.net/


Program

  • Introduction to high-throughput sequencing
  • Experimental design
  • Pre-processing: Image analysis, base-calling, read-mapping
  • Exploratory data analysis
  • Normalization and expression quantitation
  • Differential expression
  • Inference of isoform expression
  • Introduction to ChIP-seq
  • Statistical aspects of peak-finding
  • Statistical software

 

Teachers:

Laurent Jacob

Oleg Mayba

University of California, Berkeley.

 

Organisers:

Sandrine Dudoit

Joaquin Dopazo

 

Fees and on-line registration:

Registration fee: 500 €. The price includes meals and coffees at the course location, as well as the gala dinner.

 

Payment deadline:October 30th

 

 

Bank transfer payment (recommended)

Bank transfer to the bank account below (transfers from outside Spain will need SWITF or IBAN codes)

Bank Name: BANCAJA
Account Holder: Fundacion de la Comunidad Valenciana Centro de Investigacion Principe Felipe.
Bank Address: C/Doctor Moliner, 2. 46010-VALENCIA
Account: 2077 0024 04 3103006610
SWITF/BIC Code: CVALESVVXXX
IBAN Code: ES 56 2077 0024 04 3103006610
Concept: statistical methods course + YOUR NAME

 

You can pay by credit card here: http://bioinfo.cipf.es/pay.php

 

Contact

You can mail acucchiatcipf [dot] es for any question about the course.

 

REGISTRATION FOR THIS COURSE IS NOW CLOSED

But you can sign in our waiting list here.

 

 

Date: 
Mon, 08/11/2010 (All day) - Wed, 10/11/2010 (All day)
Place: 
Centro de Investigación Príncipe Felipe , Valencia, Spain