Where can I find publicly available metagenomics contig datsets?
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2.8 years ago
vijinim ▴ 100

I'm searching for a publicly available metagenomics contig dataset which has information regarding which contig came from which species and the assembler used. If anyone knows, can you kindly point me to the reasources?

Thank you very much! :)

metagenomics datasets contigs • 659 views
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I did not find any annotated datasets up to now. What researchers have done is obtain a publicly available set of reads, assemble it using an assembly software, obtain the contigs and use the tool TAXAassign v0.4 to determine the origin species of these contigs.

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2.7 years ago

I believe ENA and SRA have draft assemblies of MAGs - metagenomic assembled genomes - which is what you are looking for. I’m pretty sure all the MAGs (7000+) from the recent landmark paper from Parks et.al 2017 were deposited into Genbank under a single bioproject along with their predicted taxonomy

Paper / https://www.nature.com/articles/s41564-017-0012-7

BioProject / https://www.ncbi.nlm.nih.gov/bioproject/?term=PRJNA348753

Hopefully that helps?

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Thank you very much. This is very helpful. :)

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