I was given the name of Kendric Wang as someone who was graduating from a bioinformatics program and might be interested in employment. He, however, has plans to stay with his present lab and suggested that I contact you in case any of his classmates are interested. We have not gotten as far as posting a position yet, since the salary support is not yet in place, but if anyone in your program is interested, they can forward their resume to me. I am expecting the salary support to be announced within the month. Life Technologies has a bioinformatics course available, which we would be able to support, for specific information relating to NGS. Please forward this email to anyone who might be interested and thank you for your assistance.

Regards,

Deborah Tsuyuki, PhD.
Next Generation Sequencing Platform
University of Manitoba
Manitoba Institute of Child Health
523-715 McDermot Avenue
Winnipeg, MB
R3E 3P4
204-975-7733

Michael Smith Laboratories Rm 101, UBC

How to register: If you haven’t receive an email from Eventbrite, contact Luisa Chan (luisa.chan@gmail.com).

You are invited to our annual Bioinformatics & Oncology Research Day, where you’ll have the opportunity to present your work and find out about the fascinating, interdisciplinary research presently going on around you. Highlights include guest speakers, poster sessions, lunch and dinner buffets, lightning talks, and prizes to be won!

Time: March 15, 2012 Thursday from starting at 10:00 AM
Place: Cordula & Günter Paetzold Health Education Centre, VGH

To find out more about this must-see event, and to register and submit abstracts, please visit our site at: https://sites.google.com/site/btpiopretreat2012/. Please register by February 16, 2012 so we order enough food, and don’t forget to submit your abstracts by February 23, 2012 for a chance to win prizes!

Hope to see you at the event,

Your Organization Committee

http://www.vanbug.org/calendar/

*Feb 9*, 2012
Short Presentation: Warren Cheung, PhD candidate, Wasserman Lab, CMMT
Title: Biomedical Topic Profiles from Bibliographical Literature Evidence

Featured Speaker: William Hsaio, Bioinformatician, BCCDC Public Health
Microbiology & Reference Laboratory
Talk title: Microbial Genomics, Pangenomics, and Metagenomics in Disease
and in Health

William Hsiao completed his PhD in Fiona Brinkman’s lab at SFU, gained
invaluable experience as a postdoc in Claire Fraser-Ligget’s lab at the
University of Maryland and has come back home to Vancouver to a new
position at the BCCDC.

*March 8*, 2012
Short Presentation: Evan Morien, MSc candidate, Pavlidis lab, CHiBi, UBC

Featured Speaker: Nathan Price, Associate Professor, Institute for
Systems Biology, Seattle, WA

http://price.systemsbiology.net/research.php

*April 12* 2012
Short Presentation: Andrew McPherson, PhD candidate, Sahinalp lab, SFU
and Huntsman lab, UBC

Featured Speaker: Phil Bourne, Professor, Department of Pharmacology and
Skaggs School of Pharmacy and Pharmaceutical Sciences, University of
California San Diego, Associate Director, RCSB Protein Data Bank and
Adjunct Professor, Burnham Institute

http://www.sdsc.edu/pb/

Location:
675 West 10th Avenue
Gordon and Leslie Diamond Family Theatre
BC Cancer Agency

Contact Name:
Stefanie Butland
dev@vanbug.org

http://vanbug.org

The VanBUG team:
Stefanie Butland
Cedric Chauve
Bhavjinder Dhillon
Rodrigo Goya
Elodie Portales-Casamar

VanBUG is generously sponsored by the CIHR Bioinformatics Training
Program, MITACS, PIMS, GenomeBC, and the Canadian Bioinformatics Workshops
_______________________________________________
Announcements mailing list
Announcements@vanbug.org

http://perutz.cmmt.ubc.ca/mailman/vanbug/listinfo/announcements

My name is David Percival and I am Director of In Vitro Pharmacology at Xenon Pharmaceuticals in Burnaby. We currently have a position open for a geneticist and I am wondering if you could please post the attachment on your departmental notice boards or forward it to any individuals to whom it may be of interest. Thank you in advance.

Sincerely

Dave Percival

M. David Percival, Ph.D.
Director, In Vitro Pharmacology
Xenon Pharmaceuticals Inc
3650 Gilmore Way
Burnaby, B.C.
V5G4W8
604-4843328

Best Poster APBC 2012‏
Niels won best poster at the Australian bioinformatics conference this year. Go UBC!

Vancouver, BC, Canada 21-24 January 2013

APBC2013 Call for Papers
The Eleventh Asia-Pacific Bioinformatics Conference will be held in Vancouver, BC, Canada. APBC2013 invites high quality original full papers on any topic related to Bioinformatics and Computational Biology. The submitted papers must have not been published or under the consideration for publication in any other journal or conference with formal proceedings. All accepted papers will have to be presented by one of the authors at the conference. Accepted papers will be invited to be published in the journals BMC Genomics or BMC Bioinformatics, following the journals’ publication policy.

Papers are solicited on, but not limited to, the following topics: – Sequence analysis, especially high throughput sequencing applications – RNA structure and function – Evolution and phylogeny – Protein structure analysis – Transcriptome, gene expression, proteomics – Pathways, networks, systems and ontologies – Population genetics – Comparative genomics

Submission Deadline (tentative): July 15, 2012
Author Notification (tentative): August 20, 2012
Final Version Due (tentative): October 1, 2011
Conference start and end dates (tentative): Jan 21 – 24, 2013

Organization Steven Jones (General Chair, BC GSC) S. Cenk Sahinalp (PC Chair, SFU)

Research Program :
Next Generation Sequencing technologies generate data of a new type in
huge volumes and crucial computational developments are needed to take
full advantage of these data. The successful candidate will develop new
algorithms to identify complex genomic variants in such data from
multiple samples without the use of a reference genome. Our approach
relies on a formal model based on the De-Bruijn graph structure to
handle huge amounts of data and extract biologically relevant information.

For further details visit our website http://www.irisa.fr/symbiose/ and
the project description

http://www.irisa.fr/symbiose/index.php?option=com_docman&task=doc_download&gid=29

Profile :
- PhD in computational biology or algorithmics with a strong interest for biology
- good programming skills (C, C++, python, java, …)
- background in sequence and graph algorithmics
- a prior experience with high throughput sequencing data will be appreciated
- to apply, the candidate must have spent less than 6 months in France during the years 2010 and 2011

Working environment :
The position is located in France, in the city of Rennes at the INRIA
Rennes – Bretagne Atlantique center. SYMBIOSE is a dynamic and
multi-disciplinary research team working in computational biology and
bioinformatics. The contract is for 12 months, starting as soon as
January 2012. Salary is 2620 euros monthly before taxes deduction.

Application :
Please send a cover letter, a CV with publications and two references
contacts to claire.lemaitre@inria.fr.
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I will forward titles and abstracts for the later candidates when available and will attempt to collapse into as few emails as possible.

Thanks for your help, Jenny

*** All talks in MSL auditorium ***

** 10:45am ** Tues Jan 17: Bryan HOWIE … talk announcement below

11:00am Thurs Jan 19: Margaret TAUB (statistical genetics, RNA-seq, epigenetics)

** 10:45am ** Tues Jan 24: Kasper HANSEN (RNA-seq, methylation)

11:00am Thurs Jan 26: Kun LIANG (FDR control, ChIP-seq)

** 10:45am ** Tues 31 Jan: Gabriela Cohen-Freue (proteomics)

Begin forwarded message:

Date: Tuesday,17 January 2012

Time: 10:45 am (please note time)

Place: Michael Smith Labs, Room 102, 2185 East Mall, UBC (please note location)

Speaker: Bryan Howie,
Postdoctoral Scholar, Stephens Lab Feb
Department of Human Genetics, University of Chicago

Title: Statistical methods for genotype imputation: Past, present, and future

Abstract:

Over the past five years, one of the central pursuits in human genetics has been the use of genome-wide association studies to discover genetic variants that
affect disease risk. These studies have identified thousands of well-supported associations between genetic markers and human traits, and their success can
be partially attributed to a few key advances in statistical methodology. One of these advances, known as “genotype imputation,” uses the correlation structure
of genetic variation in a reference database (such as those provided by the HapMap and 1,000 Genomes Projects) to predict genotypes that were not measured
in a particular study. When these unobserved genotypes are estimated accurately, they can accelerate discovery by revealing new associated regions and
providing greater detail in regions of known association.

In this talk, I will discuss the development of the genotype imputation field from its initial stages to its modern-day applications, with a focus on the major
conceptual and statistical challenges that were confronted along the way. I will also discuss the prospects for improving imputation methodology, the role
these methods will play as the human genetics field moves toward DNA sequencing technologies, and some of my new work in collaborative biological research.

You are invited to our annual Bioinformatics & Oncology Research Day, where you’ll have the opportunity to present your work and find out about the fascinating, interdisciplinary research presently going on around you. Highlights include guest speakers, poster sessions, lunch and dinner buffets, lightning talks, and prizes to be won!

Time: March 15, 2012 Thursday from starting at 10:00 AM
Place: Cordula & Günter Paetzold Health Education Centre, VGH

To find out more about this must-see event, and to register and submit abstracts, please visit our site at: https://sites.google.com/site/btpiopretreat2012/. Please register by February 16, 2012 so we order enough food, and don’t forget to submit your abstracts by February 23, 2012 for a chance to win prizes!

Hope to see you at the event,

Your Organization Committee