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  • RNASeq experimental design

    All

    Hope I can pick your collective wisdom/experience.

    A collaborator is planning to carry out an RNASeq experiment and separately, a RIPSeq experiment, and is looking for guidance regarding reads required for both. The genome size is ~ 112.3 MB, and they are planning to use Illumina platform.

    Questions:
    How to calculate the number of reads required?

    What is the fold coverage required for accurate gene expression values?

    How many samples per lane to achieve the # reads required?

    Better to get paired-end or is single read OK

    Re: read length - as long as you can afford? or will shorter reads be OK


    Any and all advice welcomed

    Charles

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