Publically available BAM files of human exomes?
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10 days ago
Manuel ▴ 400

Dear all,

I'm looking for publically available BAM (or FASTQ) files of somewhat "recent/modern" human exomes.

I am aware of the thousand genomes / IGSR data set but they only have old exomes (https://www.internationalgenome.org/category/exome/) that have very low coverage with old enrichment kits and sequencing technology.

Does anyone know of a good alternative source?

Thanks!

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10 days ago
ATpoint 62k

Here is a recent post collecting some hints: What are the biggest sets of individual-level sequence-based variant data?

Search PubMed, dbGaP, EGA...there are a great many exome datasets for human out there. Note though that in almost all cases these data will be access-restricted for privacy protection purposes so you (or rather your PI) will need to apply for access formally, and that takes time.

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Thanks for the answer.

I am aware of the privacy restricted sources, in particular dbGAP. I was looking for something with "no strings attached" as is the case for IGSR/thousand genomes.

It looks like all recent public data focuses on genomes instead (e.g., platinum genomes, polaris data set etc.)

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