Holotype HLA v3.0.1 is now CE-IVD certified!

28/02/2020

Omixon is pleased to announce that the latest Holotype HLA protocol version (v3.0.1) has received a CE-IVD certificate that complies with the IVD Directive 98/79/EC allowing commercialization of the new version products as IVD in Europe. The new Holotype HLA v3.0.1 kit includes pre-mixed PCR amplification reagents that reduce...

Holotype HLA Validation on Illumina’s MiniSeq

31/01/2019

Introduction The Illumina NGS sequencing fleet includes instruments of different sample capacity. One of them is the MiniSeq – designed for laboratories with a small to medium sample throughput. Omixon’s Holotype HLA was initially developed and validated for Illumina’s MiSeq, as this is a commonly available instrument in clinical...

High Accuracy and High Precision HLA Typing Using Illumina Reads: Typing Algorithm and Perspectives on Novel Allele Discovery

24/02/2015

Authors: György Horváth, Krisztina Rigó, Tim Hague, Attila Bérces, Szilveszter Juhos Abstract: Wide acceptance of high-throughput next-generation sequencers in medicinal genomics and clinics brought the promise of fast HLA typing. We are presenting the algorithmic challenges and workflow of HLA typing with a special attention to ambiguous or poorly...

Workflow Wednesdays – Short read aligners – Omixon Variant Toolkit

28/08/2013

Omixon Variant Toolkit (aka Omixon Read Mapper or ORM)is our “own” alignment algorithm which is available as a standalone java application or in Omixon Target. The aligner actually contains two, slightly different algorithms*: one for shorter Illumina reads, called “bridge” and one for longer (IonTorrent and 454) reads, called...

Workflow Wednesdays – Creating alignments – BWA

14/08/2013

Drumroll! Hurrah! We are finally going to do some alignments today! BWA is probably the most widely used short read aligner ever. By now, it’s even part of the official Illumina analysis pipeline. BWA actually contains three different aligner algorithms. We’ll try all of these today.