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Next Workshop
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BIOINFORMATICS WORKSHOP (APR 2019)
Visualize and Share Large Raw Sequencing Datasets
Raw sequencing datasets generated by Genome-seq, Exome-seq, RNA-seq, ChiP-seq, etc… experiments consist of a compilation of sequences assigned to a genomic location (BAM files). These files are usually too large to be manipulated by non-bioinformaticians. Nonetheless, assessing the quality of the experiment and getting a prior overview of the data can be achieved by a larger audience. BAM files manipulation can help the biologist in understanding her/his data and perform troubleshooting operations.
In this mini-workshop, we will explain how these files can be handled by biologists without bioinformatics knowledge using a conventional computer.
In detail, attendees will be trained to:
- Perform and interpret quality control on BAM files
- Create their own UCSC genome browser track to navigate through BAM files
- Transfer/share large BAM files via public servers.
| Speaker | Touati Benoukraf, Ph.D Canada Research Chair (Tier II) in Bioinformatics for Personalised Medicine Assistant Professor, Faculty of Medicine, Discipline of Genetics Memorial University of Newfoundland Visiting Assistant Professor Cancer Science Institute of Singapore, NUS |
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| Venue | NUS, Centre for Translational Medicine (MD6), #04-01 SMART Classroom 14 Medical Drive, S117599 |
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| Date | 16 April 2019, Tuesday | |
| Time | 1 pm – 5 pm |
| Registration fee chargeable | Fee |
| Workshop | $50 |
Price is subjected to 7% GST.
Registration for this workshop is limited to 40 attendees.
Click HERE to register now.
Notes:
- Please arrive 10 min early for registration.
- Attendees are required to bring own laptops.
- Light refreshments will be provided.
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Past Events
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RNASEQ ANALYSIS
Program
08:00 – 08:30 Arrival and Registration
08:30 – 09:30 Lecture
09:30 – 10:00 Morning Refreshments
10:00 – 13:00 Practical Course
Registration Fee SGD$ 20
Registration for this workshop is now CLOSED.
Scope and Topics
The course is aimed at life scientists who have already produced RNA-seq data, or are planning to perform RNA-seq experiments and want to learn the best practice to analyze these type of data. It will consist of 1 hour of theoretical lessons and 3 hours of practical exercises.
Participants will gain practical experience and skills to be able to:
- Align RNA-seq data to a reference genome
- Estimate known gene and transcript expression
- Perform differential expression analysis
- Visualize and summarize the output of RNA-seq analyses
ChIP-seq data analysis I
Joint ENS-CSI Workshop, 10 February 2017, Cancer Science Institute of Singapore, Singapore.
MD6 – Level 11 – Meeting Room
RNASEQ ANALYSIS
7 September 2016, 9.30am to 5.30pm
Scope and Topics
The course is aimed at life scientists who have already produced RNA-seq data, or are planning to perform RNA-seq experiments and want to learn the best practice to analyze these type of data. It will consist of 3 hours of theoretical lessons and 4 hours of practical exercises.
Participants will gain practical experience and skills to be able to:
- Align RNA-seq data to a reference genome
- Estimate known gene and transcript expression
- Perform differential expression analysis
- Discover novel isoforms
- Visualize and summarize the output of RNA-seq analyses
International Speaker
Prof. Daniel Gautheret
Professor Daniel Gautheret is a Group leader at Institute for Integrative Biology of the Cell (Paris South University) and the Head of the bioinformatics facility at Gustave Roussy Cancer Center in Villejuif. His team is involved in the development of numerous algorithms and software dedicated to RNA analysis, including RNAProf (Software for the analysis of differential processing events from RNA-seq data) and ERPIN (a RNA Motif search program). |
Local Speakers
| Dr. Polly Chen Assistant Professor, Cancer Science Institute of Singapore, National University of Singapore |
Dr. Touati Benoukraf Research Assistant Professor, Cancer Science Institute of Singapore, National University of Singapore |
Registration fee: S$ 30
Venue:
ThinkLab (Computer Centre, Level 3), 2 Engineering Drive 4, National University of Singapore, 117584 (S).
Introduction to computational systems biology:
from molecular and regulatory maps to predictive dynamical models
Cancer Science Institute of Singapore, Department of Biological Sciences (NUS)
and “Ecole Normale Supérieure de Paris” are organizing an 1-day course on systems biology.
The study of biology is moving from the interrogation of individual molecules to a systems biology approach, where the interplay of a vast collection of components within a given biological system is analyzed. With the advent of high-throughput technologies, our knowledge of the relationship between genes has deepened and we are developing improved maps of various cellular processes. To exploit this information, we need to understand how these genes interact with each other to form modules that act as discrete functional systems.
Here we will explain how computational modeling and simulations can help understand these systems.
The first part of the course is an introduction to Computational Systems Biology.
Next, we will focus on the logical modeling framework, which can be use in the absence of quantitative data.
Finally, students will learn how to model a simple system using GINsim (http://ginsim.org), a software package developed by Denis Thieffry’s team from “Ecole Normale Superieure de Paris” (http://www.biologie.ens.fr/csb/).
This course is free of charge and open to all NUS staff and students interested in biology and computational biology.Subscription is required, Registration is now closed.
Only the first 30 registrants will be able to attend the course.Speakers:
- Prof. Denis Thieffry, Ecole Normale Superieur de Paris.
- Prof. Greg Tucker-Kellogg, Department of Biological Sciences, NUS.
- Dr. Touati Benoukraf, Cancer Science Institute of Singapore, NUS.
Date: 5th January, 2015, 9am-5pm
Venue: Department of Biological Sciences, NUS, 14 Science Dr. 4, BLK S1A Level 4 (#04-01), LS Lab 5.
RNA Hide and Seq!
An introduction to RNA-Sequencing and data analysis using Next Generation Sequencing
Organised by Illumina and the Centre for Translational Research and Diagnostics (CTRAD)
27th Aug, 2014Department of Biological Sciences NUS,
14 Science Dr. 4, BLK S2 Level 4 (#04-01), LS Lab 5
Registration is now closed.
ChIP-seq data analysis: From the bench to gene network modelling.
Joint ENS-CSI Workshop, 24-25 March 2014, National University of Singapore, Singapore.
Novel genome-wide approaches to decipher transcriptional and epigenetic regulation in mammalian cells.
Joint NUS-ENS workshop, 30-31 May 2013, École Normale Supérieure, Paris, France.