Training School in Madrid, Spain
Summer Training School (2018) BM1406
“Bioinformatics for Quantitative Genomics”
Venue: CNB-CSIC, Madrid, Spain
Dates: 3-6 july, 2018
Seats: Max. 15 students*
Contact: oliveros@cnb.csic.es
*Important: Students should bring their own laptop with, at least, 4 GB of RAM memory and a recent 64-bit operative system (Windows, Mac OS X or Linux). During the course, several software tools will be installed (administrative privileges will be necessary).
Course Description
The "Bioinformatics for Quantitative Genomics" training school to be organized in connection with COST BM1406 aims to introduce early career scientists and interested PIs into bioinformatics for effective analysis of high-throughput genomics and transcriptomics data. The case studies or examples in lectures will be presented in the context of ion channels in immune cells and/or cancer.
Day 1
09:30 - 10:00 Welcome and Presentation
Juan C. Oliveros, PhD. Centro Nacional de Biotecnología (CNB-CSIC). Bioinformatics for Genomics and Proteomics. Madrid, Spain
10:00 - 11:30 Basic commands and file formats
Juan A. García-Martín, PhD. Centro Nacional de Biotecnología (CNB-CSIC). Bioinformatics for Genomics and Proteomics. Madrid, Spain
-COFFEE BREAK-
12:00 - 13:30 Introduction to R language
Juan A. García-Martín
-LUNCH-
15:30 - 17:00 Genomic alignment of short-reads
Rafael Torres-Pérez, MsC. Centro Nacional de Biotecnología (CNB-CSIC). Bioinformatics for Genomics and Proteomics. Madrid, Spain
Day 2
09:30 - 11:30 RNA-seq: comparative analysis with biological replicates (PART I)
Juan C. Oliveros
-COFFEE BREAK-
12:00 - 13:30 RNA-seq: comparative analysis with biological replicates (PART II)
Juan C. Oliveros
-LUNCH-
15:30 - 17:00 Functional annotation of gene list
Rafael Torres-Pérez
Day 3
09:30 - 11:30 Clustering of gene expression profiles
Ozlen Konu, PhD. Bilkent University. Department of Molecular Biology and Genetics. Ankara, Turkey
-COFFEE BREAK-
12:00 - 13:30 Quantitative analysis of microRNAs
Ozlen Konu
-LUNCH-
15:30 - 17:00 Integration of mRNA and microRNA expression results
Ozlen Konu, Ayse G. Keskus
Day 4
09:30 - 11:30 Bioinformatics for CRISPR-based projects
Juan C. Oliveros
-COFFEE BREAK-
12:00 - 13:30 General discussion and closing remarks
