Find raw sequencing data used in the articles ?

Question

[tareq.sanabra]

Hello

Where or what is the way to find the raw sequencing data used in the articles in general ? , do i have to contact the publishers or authors for them

Thanks in advance

Answer 1

[Ram]

Unless the authors mention the repository location (such as an SRA or GEO identifier), you will have to contact them. They may be willing to share data with you subject to conditions. For example, if you were to request data from us, we would anonymize identifiers and then pre-process them a bit before giving you access.

EDIT: The publishers may not (will not?) have access to the data. It is not Nature's job to host my data for me.

[GenoMax]

Publishers (most?) require authors to make the data publicly available (unless there are specific privacy reasons). Since you referred to Nature I will link their instructions to authors which contains all necessary information (including sequence data).

[Ram]

I see. But does Nature store the data on their servers?

[GenoMax]

There is no need for them to do that long term. Most journals ask authors to use public repositories and provide relevant accession numbers in the paper.

[WouterDeCoster]

Human genetic data is quite sensitive and hard to fully anonymize, see for example these papers from Erlich et al.:
Routes for breaching and protecting genetic privacy.
Identifying personal genomes by surname inference.
Redefining genomic privacy: trust and empowerment.

If you can't get access to one of those papers I can provide you the pdf, just let me know.

[tareq.sanabra]

Thank you , that was really useful