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  • Extracting probe id's

    I have downloaded some CEL files from GEO, and wish to annotate probe id's with AILUN. Can someone advise me about the most time-efficient way of extracting the probe id's from the CEL files? Is there for example some grep command that could do the job? I'm unfortunately not familiar enough with UNIX to figure this out..

  • #2
    Extracting probe id's

    I assume that if you have .CEL files the data is from Affymetrix arrays.

    Have a look at the Affymetrix website

    Thermo Fisher Scientific's products advance research via microarray analysis. Applications include genomics, cancer and reproductive health research, and more.


    as well as the Bioconductor website and mailing lists.

    The Bioconductor project aims to develop and share open source software for precise and repeatable analysis of biological data. We foster an inclusive and collaborative community of developers and data scientists.


    Affymetrix usually releases annotations for their arrays. Even if you want to do your own annotations, the Affymetrix files are csv text files, which you can open in Excel, and the first column in the files is usually the probe set identifiers.
    Last edited by mastal; 07-14-2013, 11:55 AM.

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    • #3
      Thanks! Will look into this.

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