by Dr. Pandurang Kolekar, Bioinformatics Engineer, Strand Life Sciences

Abstract:

Unique Molecular Identifiers (UMIs) are short random nucleotide sequences that are increasingly being used in high-throughput sequencing experiments. In this webinar, we will highlight the UMI-friendly features of Strand NGS v3.1 including support for handling well known and customised UMI libraries, QC metrics, consensus alignment, UMI-based family size filters for read list, genome browser enabled with UMI-specific features and filters, UMI-aware variant calling parameters, and exporting UMI-tagged aligned samples. These all features together empower users to harness the potential of UMI-tagged NGS data for deeper insights. A case study demonstrating application of these UMI-based features in Strand NGS for low frequency variant calling in cfDNA sample will be presented.

UMI-tagged NGS libraries allow, ultra-sensitive detection of low frequency variants from liquid biopsy samples using DNA-Seq and accurate quantification of transcript-level expression using RNA-Seq. The recent release of Strand NGS v3.1, is equipped with the necessary features to efficiently analyse UMI-tagged NGS data helping researchers and labs involved in rare variant calling like in cfDNA based cancer diagnostics, and accurate transcript quantification with RNA-Seq.

Webinar Details:

Session 1: 13 Dec 2017, 2:30 PM IST
Session 2: 13 Dec 2017, 9:30 PM IST

Register here: http://www.strand-ngs.com/webinar_registration

Address of the bookmark: http://www.sthda.com/english/wiki/rna-seq-differential-expression-work-flow-using-deseq2

Address of the bookmark: https://bioconductor.org/packages/3.7/bioc/vignettes/dupRadar/inst/doc/dupRadar.html

https://diytranscriptomics.com

Address of the bookmark: https://diytranscriptomics.com

Research Area

Investigating the role in disease of both the microbe and its host (i.e immune system failure), using genomics and systems biology-based approaches
Using genomics and network analysis to characterize disease outbreaks and their environmental/social/genetic causes, and
Identifying new anti-infective and immune modulating therapies/biomarkers.

Link @ http://www.brinkman.mbb.sfu.ca/

The next step after reading genetic code is writing a script to analyse and explore the hidden information. This tutorial is aimed to introduce you new biological programming languages with their packages/libraries, and assist in your scripting work.

Navigate the sub-section of this page [ see right hand side of the page for it ]

1st Livestock Functional Genomics Summer School (LFG 2013).

This School was designed for graduate students and early-stage researchers with interest in livestock genomics, who are engaged in projects that require knowledge in the field of computational biology.

Sixty selected participants will spend 13 days receiving theoretical and practical training in genomic data handling from internationally renowned experts.

After the course, the participant should understand the basis and the context of livestock big molecular data, and be able to manipulate high density genotypes, whole genome sequences and transcriptome data.

The Summer School will be held in Araçatuba-SP Brazil, from the 13th to the 21st of September 2013.

All accepted participants will have *expenses fully covered (air ticket, hotel and meals)*, including a free pass to the 5th International Symposium on Animal Functional Genomics http://www.isafg2013.org.br

Applicants will be selected based on their résumés. Application date is due by August 10th. Results will be announced in August 12th.

Please consult website: http://www.sciencesatellite.org.br/sschool

Candidates must have: a PhD degree in statistics, biostatistics or bioinformatics, extensive experience in analyzing high-dimensional data (microarray, SNP, CNVs) and of validation approaches. In addition, experience in penalized regression methods, data base manipulation; and strong programming skills in order to conduct Monte Carlo studies and applications (R). Candidate must have excellent communication skills (verbal, written and presentation), a strong proficiency in Linux system.

This position is available immediately and will be filled as soon as possible. Appointment could be extended beyond the first year based on additional funding.

For more information about the Department of Biostatistics and Bioinformatics, please visit our website: http://www.biostat.duke.edu.

For more info: http://biostat.duke.edu/sites/biostat.duke.edu/files/Halabi%20-%20Postdoc%20Job%20Posting%202013%20updated.pdf

Duke University is an Equal Opportunity/Affirmative Action Employer.

Analysis of regulatory sequences (RSAT project)
Classification and analysis of mobile genetic elements (ACLAME project).
Analysis of molecular interaction networks (NeAT project)
Inference of metabolic pathways from genomic and post-genomic data
(metabolic pathfinding, see also metabolic pathfinding in NeAT)
Critical assesment of protein interactions (CAPRI)

Lab Page http://www.bigre.ulb.ac.be/