Good quality mock community?

Question

[agata88]

Hi all!

Do you know any source of good quality fastq reads (MiSeq, HiSeq) of Mock Community with expected taxonomy?

I was working with mokrobiota but the fastq reads have very low quality and it is not possible to compare results.

Any help will be much appreciated,

Best,

Agata

[GenoMax]

Julia Segre's lab at NIH uses a mock community with their experiments (have heard her mention that in her talks). Have you tried to look at her papers. I assume you just need the data and not the actual samples.

[sridhar56]

Have you tried BEI resources?

BEI resources

[agata88]

Thanks, but I am not sure if there are fastq files? for example for HM-782D mock community. I am looking for fastq R1/R2 reference which will include exactly 20 species - not stored fastq file of published data (which is very often deficient)

Answer 1

[Sunguk]

Refer Accession: SRX1121821 Run: SRR2131179 Article: Shin, Sunguk, and Joonhong Park. "Characterization of sequence-specific errors in various next-generation sequencing systems." Molecular BioSystems 12.3 (2016): 914-922.