Omixon Target Release Notes 1.8

We are happy to let you know that a new version 1.8 of Omixon Target is now available, including updated features and further improvements.

Feel free to download the new version using the plugin on the Omixon website. When installing, select the ‘upgrade’ option to renew an existing installation. This will keep all existing credits and results.

If you have the server version of Omixon Target, our support team will contact you shortly with an update.

Major New Features for the HLA typing module

  • Whole gene visualization
  • Whole gene typing (beta feature)
  • Novel allele detection, only for SNPs (beta feature)

Minor Improvements (HLA typing module)

  • Homogeneous subsampling (optimization for non-randomly distributed input data)
  • Quality based read trimming (quality improvement)
  • Key exon based allele pre-filtering (bug fix and optimization)
  • Genome browser improvements:
  • Multiple sequence alignment of alleles for more useful visual comparison (new feature)
  • More metadata for short reads (quality, sequence) in the display, plus a configuration mechanism (new feature)
  • New context menus (right click on the tables or genome browser)
  • Other minor bugfixes and improvements Continue reading

8th East-West Immunogenetics Conference in Vienna, February 13-14, 2014

Vienna was home to the 8th East-West Immunogenetics Conference attended by scientists and transplantation specialists mainly from Europe. Visit the EWIC website: http://www.ewic2014.net/index.php?id=1376

The conference covered a range of topics from disease associations to technical aspects of HLA typing. In this summary, I only make a few remarks on the topics and presentations of particular interest to me. For more the list of the program please link to the conference home page: http://www.ewic2014.net/index.php?id=1377

Continue reading

Webinar – HLA Typing for Oncology Research

Are you interested in the MHC “super-region”?

 Watch the online webinar presentation on HLA typing from targeted, whole exome and whole genome next generation sequencing data.

Date: Thursday, 27th of February, 2014
Time: 17:00–18:00 pm GMT / 18:00–19:00 pm CET    A live Q&A session will follow the presentation, offering you the opportunity to put forward any questions. Following registration, you will receive a confirmation email containing information for joining this event. This Webinar will be recorded and material is available on request.

 Webinar Content

  • Importance of the HLA region in Transplantation, Pharmacogenomics and Disease Association Studies
  • Relevance of HLA in Oncology Research
  • Demo of Omixon Target™ HLA Typing software
  • Summary & Benefits, Q&A

Join The Omixon Academy HLA Library on Mendeley

While working on the new developments of Omixon, we come across an amazing number of HLA typing related, quality papers and thought it would be great to launch a database in which we can release this curated list of relevant papers.

On Mendeley, now you can follow this group and easily keep yourself up-to-date about HLA typing and next-generation sequencing.

Join The Omixon Academy HLA Library on Mendeley

The Advantages of Open Access

We decided to publish our recent paper, HLA Typing from 1000 Genomes Whole Genome and Whole Exome Illumina Data, in the open access PLoS One journal. PLoS One provided us with some useful statistics about:

  • how many people viewed the article,
  • who shared our figures
  • who cited the paper
  • who shared it on Twitter or Facebook
  • and how people found the paper through Google’s search engine
Based on these, plenty of potential collaborators could approach us and the next project is already in progress.

The Advantages of Open Access