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  • E. coli K12 MG1655 datasets from Illumina

    Hello,

    I want to have the E.coli K12 MG1655 reads generated by Illumina sequencer.
    can give me a link to download the data?
    I found in the Illumina website but I do not know how to download.

    Thank you

  • #2
    For reference cross-posted on Biostars: https://www.biostars.org/p/160377/

    If you found a link on BaseSpace then that is likely the right data set. You can obviously download other illumina datasets for K12 (not generated by Illumina Company) from SRA.

    Edit: Only E coli data I currently see on basespace is the NextSeq 500 384-sample run available under public data.
    Last edited by GenoMax; 10-07-2015, 04:46 AM.

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    • #3
      in Basespace,
      there is "Escherichia_coli_K_12_DH10B" is what it is "Escherichia_coli_K_12_MG1665" it is the same or not?

      Comment


      • #4
        No.

        "The DH10B genome is largely colinear with that of the wild-type K-12 strain MG1655, although it is substantially more complex than previously appreciated, allowing DH10B biology to be further explored. The 226 mutated genes in DH10B relative to MG1655 are mostly attributable to the extensive genetic manipulations the strain has undergone."

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        • #5
          in the information in the Illumina Website are not the E. coli MG1655 reads.
          because if I open the link in BaseSpace Browse the data:
          View Project "(fastqs)
          View Run "
          the reads are not E. coli MG1655.

          do you have a link for data of E. coli MG1655 sequenced by Illumina?
          thankyou

          Comment


          • #6
            It is possible that this dataset is no longer available from Illumina (directly or via base space).

            You can get it from EBI-SRA as was pointed out by "Adrian Pelin" in your Biostars post. The link for the dataset is: http://www.ebi.ac.uk/ena/data/view/E...6&display=html

            This was a direct submission from Illumina so it should be perfectly fine to use instead of getting it directly from Illumina.

            Comment

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