Hello everyone,
We are about to send some samples off for sequencing, and I would like some input before we spend all of our money.
We have RNA from a wild type and a mutant bacteria, with four biological replicates each (eight samples total). We wish to examine all the differentially expresses genes between the genotypes, and I was wondering what is the best read length to use?
Our genome is sequenced and assembled (4.9 Mbp), and we will be generating rRNA-depleted stranded libraries to be multiplexed on a single Illumina HiSeq lane.
What would be the optimal method to sequence? 50bp vs 100bp, SE vs PE?
We are about to send some samples off for sequencing, and I would like some input before we spend all of our money.
We have RNA from a wild type and a mutant bacteria, with four biological replicates each (eight samples total). We wish to examine all the differentially expresses genes between the genotypes, and I was wondering what is the best read length to use?
Our genome is sequenced and assembled (4.9 Mbp), and we will be generating rRNA-depleted stranded libraries to be multiplexed on a single Illumina HiSeq lane.
What would be the optimal method to sequence? 50bp vs 100bp, SE vs PE?
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