Omics Data Integration – Tbilisi 2018

Omics Data Integration – Tbilisi 2018

26 – 27 November 2018

Description

Omics Data Integration – Tbilisi 2018 is a two-day, intensive course on the analysis of multi-omics data. An international panel of instructors will provide practical examples about how to analyze, visualize and integrate high-throughput biological data using the R Statistical Software. Transcriptomics (RNA-seq), methylation (Methy-seq) and chromatin accessibility (ATAC-seq) data will be the focus of the course. 

The course offers several hands-on sessions, where attendees will be guided in solving real data-analysis challenges. At the end of the program the participants will be able to perform basic analyses on single omics data, and they will know the main strategies for performing integrative analyses on the considered omics types.

Omics technologies allow to investigate cellular mechanisms that are at the basis of all biological processes. Omics data have profoundly changed biology and biomedicine, fostering novel areas of research such as precision medicine.

Registration is now close. Send an email to contact@espurna2k.org to inquire about availability

Instructors

  • David Gómez Cabrero, Head of the Translation Bioinformatics Unit, Navarrabiomed, Pamplona, Spain.

David Gómez-Cabrero
has a Ph.D. in Mathematics and extensive training in quantitative
sciences (Bachelor of Mathematics, Bachelor of Science and Statistics,
Third Cycle of Operational Research). During his first years in
biomedical research, he studied two years in the Faculty of Medicine and
participated in several research projects related to Computational
Neuroscience. Since 2009, he has specialised in bioinformatics and data
integration analysis, first as a post-doctorate and eventually as
Assistant Professor at Karolinska Institutet (Sweden), and secondly as
Senior Lecturer at King’s College London (United Kingdom). He
collaborates with clinical groups that investigate multiple sclerosis,
rheumatoid arthritis, COPD and cancer among other diseases.

  • Núria Planell Picola, Bioinformatician, Translation Bioinformatics Unit, Navarrabiomed, Pamplona, Spain.

Núria Planell is
from Sant Quirze del Vallés, Catalonia (Spain). She graduated in
Biotechnology from the University of Vic in June 2008 and started her
scientific career as a bioinformatician at the Inflammatory Bowel
Disease team in the IDIBAPS-Hospital Clinic of Barcelona. In 2015 she
obtained her MSc in Biostatistics and Bioinformatics from Polytechnic
University of Catalonia (UPC-UB) and she got a PhD in Medicine and
translational research from the University of Barcelona (UB) on July
2018, focused on the transcriptional analysis of Ulcerative Colitis. She
recently joined the TransBio group to focus her research on omics data
analysis and integration.

  • Vincenzo Lagani, Associate Professor in Bioinformatics, Ilia State University, Tbilisi, Georgia.

Vincenzo Lagani obtained his PhD in Operations Research in 2009 from the Universiy of Calabria, Cosenza, Italy. After then he spent nine years as post-doctoral and contractual researcher in the Foundation for Research and Technology – Hellas and the University of Crete, two of the main scientific centres in Greece according to Nature Index. During this period he specialized on bioinformatics, data analysis and machine learning, working in several international projects with topics ranging from biomarker discovery in lung cancer and mesothelioma,  integration of omics data, and the analysis of mass-cytometry single-cell data. Since April 2018 he is associate professor in bioinformatics at the Ilia State University, Tbilisi, Georgia.

Schedule

Requirements

The following prerequisites are recommended.

  • Knowledge of basic cellular processes: RNA transcription and epigenetics mechanisms.  Preliminary material will be made available before the course for attendees without background in biology.
  • Basic experience in programming, preferably in the R language. Participants without programming skills will be able to understand the concepts and ideas presented in the course. To profit the most out of the hands-on sessions, participants without experience in programming should consider learning the basic of the R language: a four-hour course about R is offered for free in DataCamp.
  • Participants should bring their own laptop.

Omics Data Integration – Tbilisi 2018 as a Mirror Event

The Omics Data Integration – Tbilisi 2018 course is the mirror event of the STATegra Summer School on NGS and Data Integration held in Navarrabiomed between the 24th and 28th of September 2018.

The idea behind Espurna2K mirror events is to replicate high-level educational initiatives in locations that are outside the circuits where such initiatives are usually held. The scope of mirror events is to maximize the dissemination of knowledge, sparkling virtuous processes that should produce self-sustainable communities of interest on highly specialized topics.

Material to review before the course

In order to fully exploit the available time during the two days of the event, all participants must review the following material before the start of the course. These lectures were recorded during the original STATegra summer school:

  • RNA-seq analysis: youtube link.
  • ATAC-seq analysis: youtube link.
  • OmicsPCA: youtube link.
  • MetaAnalysis: youtube link.
  • Non-parametric Combination: youtube link.

Software and data for the course

During the hands-on session we will use R and R Studio, along with a number of CRAN and Bioconductor packages. All participants are expected to install the required software and to download the material for the hands-on sessions before the beginning of the course.

  1. Install R: download 
  2. Install R Studio: download
  3. Install the required packages by running the script available from this link
  4. Download the data and material for the hands-on sessions from this link