Question: Training dataset for NGS HLA typing (reads >200bp from PCR amplicons)
0
gravatar for Alvaro Sebastian
3.1 years ago by
Poland
Alvaro Sebastian30 wrote:

I'm looking for a training set from human HLA typing with long reads (454, IonTorrent or MiSeq 300bp) obtained by PCR (amplicon sequencing). I don't mind about MHC loci or if it's genomic or transcriptomic, but I need a dataset that contains:

- NGS reads
- Sequences of used primers
- Sequences of barcodes used to tag samples
- Reference genotypes of the samples to validate predictions (by Sanger sequencing or another well established method)

It's very hard to find any public data from literature. There a lot of papers about the topic, but most of them are from companies (for ex. Roche) and they don't publish the data.

Thanks in advance.

PD: HapMap and 1000 Genomes reads are not valid, they are not from PCR and they are too short ;)

amplicon typing hla ngs • 1.1k views
ADD COMMENTlink written 3.1 years ago by Alvaro Sebastian30
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 510 users visited in the last hour