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<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
<html lang="en-US" xml:lang="en-US" xmlns="http://www.w3.org/1999/xhtml">
<head>
<link rel="stylesheet" type="text/css" href="http://gtpb.igc.gulbenkian.pt/bicourses/GTPB2015style.css">
</link>
<title>
GTPB: PM16 - Precision Medicine - Home
</title>
</head>
<body>
<!-- GTPB header -->
<table width="910" align="center" >
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<img src="../images/GTPB2015logo.png" width="890" align="center" >
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</table>
<table width="910" align="center" >
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<br />
<font size="6" color="#006400"><b>PM16</b></font>
<br />
<h1>Precision medicine</h1>
NGS variant analysis and interpretation for translational research
<br>
<b><a href="./../posters/PM16.pdf">Downloadable poster in PDF</a><b><br>
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</table>
<table width="910" align="center">
<font size="2">
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<p><b> IMPORTANT DATES</b> for this Course
<br /> Deadline for applications:<b> Sept 19th 2016</b>
<br /> Course dates:<b> Sept 27th - Sept 30th 2016
</p>
<p><b>Candidates with adequate profile will be accepted in the next 72 hours after the application until we reach 20 participants.
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<table width="910" align="center">
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<h2>Instructors:</h2>
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<img border="0" style="margin:4px" src="../images/Fatima_alShahrour.jpg" width="91" align="left"></img>
<font size="2"><p align="justify">
<b>Fátima Al-Shahrour</b> obtained her PhD from Universidad Autónoma de Madrid (UAM) in 2006. During her PhD she worked at the Bioinformatics Unit
at Spanish National Cancer Research Center (CNIO, Madrid, Spain) and Centro de Investigaciones Príncipe Valencia (Valencia, Spain). During this period,
her research work dealt with the development of new Bioinformatics tools for microarray gene expression analysis, with a particular focus on computational
methods for the functional interpretation of high-throughput experiments. In 2007, she joined the Computational Biology and Bioinformatics group at Cancer
Program at Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard (Cambridge, USA). In 2008, she got a staff position at Broad Institute
of MIT and Harvard as a Computational Biologist. During this period, her research was focused on the study the biology and treatment of cancer under a genomic
perspective using hematopoiesis as a model system. In 2012 she joined the Spanish National Cancer Research Centre (CNIO) to lead the Translational Bioinformatics
Unit (TBU) in the Clinical Research Programme.<br>
TBU's major research activity is focused on the development of new computational methodologies to perform genomic analysis of cancer patients' data, in order
to identify new biomarkers and mechanisms of drug response. The main goal is to translate this knowledge into effective treatments for cancer patients. Since 2013,
we extensively collaborate with Hospitals to analyze next-generation sequencing data from patients' tumors. During this period, we have applied our analytical pipeline
for the categorization and interpretation of patient's tumors and match them to effective drugs or treatments based on their genomic alterations.
</p>
<b>Affiliation: Centro Nacional de Investigaciones Oncológicas, Madrid, ES</b>
</td></tr>
<tr><td >
<img border="0" style="margin:4px" src="../images/Javier_Perales.jpg" width="91" align="left"></img>
<font size="2"><p align="justify">
<b>
Javier Perales </b> is a PhD student working under the supervision of Fátima Al-Shahrour & Alfonso Valencia, at the Spanish National Cancer Research Centre.
During his education, he has acquired knowledge in Molecular Biology, Genetics and Computational Biology. His research activity is focused on the genomic characterization
of patient tumours by Next-Generation Sequencing technologies. He is interested on the development and integration of computational approaches for cancer genomics data in
order to improve our understanding about the individual patient's disease.
</p>
<b>Affiliation: Centro Nacional de Investigaciones Oncológicas, Madrid, ES</b>
</td></tr>
<tr><td >
<img border="0" style="margin:4px" src="../images/Elena_Pineiro.jpg" width="91" align="left"></img>
<font size="2"><p align="justify">
<b>Elena Piñeiro </b> is a Bioinformatician working in the Translational Bioinformatics Unit of the CNIO, inside the Clinical Research Programme and Structural Biology
and Biocomputing Programme. Her work is mainly focused on the elaboration of pipelines for the analysis and prioritization of genomic variations obtained through NGS
technologies and in the construction of a methodology for the personalized drug assignation according to the particular genomic profile of each patient.
</p>
<b>Affiliation: Centro Nacional de Investigaciones Oncológicas, Madrid, ES</b>
</td></tr>
<tr><td>
<h1>Course Description</h1>
The implementation of cancer genomics into the clinic is becoming a reality. Personalized medicine or Precision medicine as other authors refers, uses molecular data of a
specific patient to guide clinical decisions such as prevention, diagnosis and treatment. This will revolutionize healthcare and will play a dominant role in the future of
cancer therapy. Bioinformatics analyses are essential to identify patients who will benefit from treatment based on their molecular profile, and to tailor chemotherapeutic
regimens accordingly.<br>
The aim of the course is to present a complete computational pipeline for the analysis and interpretation of Next-Generation Sequencing (NGS) data such as exome sequencing or
targeted panels that are commonly used in the clinic.<br>
We will address the implementation of large-scale genomic sequencing in clinical practice and the recently developed computational strategies for the analysis of NGS data with
a particular emphasis on the interpretation of the results, selection of biomarkers of drug response and afford opportunities to match therapies with the characteristics of the
individual patient's tumour. <br>
Exercises and case studies focused on cancer will be used to illustrate the principles of how genetics influence led to refining diagnoses and personalized treatment of cancer
disease.<br>
<h1>Target audience</h1>
This course is intended for working healthcare professionals and Bioinformaticians working in the area.
<h1>Pre-requisites</h1>
The course assumes that attendees are not intimidated by the prospect of gaining experience working on UNIX-like operating systems (including the shell, and shell scripting).
Attendees should understand some of the science behind high-throughput DNA sequencing and sequence analysis, as we will not go deeply into underlying theory (or the mechanics of
given algorithms, for example) as such. What will be taught are technical solutions for automating and sharing such analyses in reusable compute environments, which
will include (but is not limited to) beginner-level programming, and basic Linux provisioning. General computer literacy, (e.g. editing plain text data files, navigating using the
command line) will be assumed. (*)
<br><br>
<b>(*) Note:</b> An optional free session will be arranged with the participants that may be interested, on the EVE of the first day (Monday, Sept 26th at 4PM), where we will
ensure that every participant willing to attend can use the Linux operating system at the required level.<br>
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</table>
<table width="910" align="center" >
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<br /><a href="./Application.html"><b>Application</b></a>
</td></tr>
<tr><td>
<br /><a href="./timetable.html"><b>Detailed Program </b></a>
</td></tr>
</table>
<table width="910" align="center" border="1">
<tr><td>
<h1>Support</h1>
<img src="../images/Logo_IGC_2014.png" width="100" > <img src="../images/ELIXIR.PT.PNG" width="100" >
</td></tr>
<table width="910" align="center">
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<p>
Instituto Gulbenkian de Ciência,</p>
<p>
Apartado 14, 2781-901 Oeiras, Portugal</p>
<p><a href="http://gtpb.igc.gulbenkian.pt/bicourses">GTPB Homepage</a></p>
<p><a href="http://www.igc.gulbenkian.pt">IGC Homepage</a></p>
<p>Last updated: <i><b>Sep 12th 2016</b></i></p>
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</table>
</body>
</html>