Hi,
I am not familiar with the experiment. I have some questions about the mRNA-Seq. hope someone can help me.
1.what is "run" means in illumina sequencing? Does it mean you separate the samples into several parts. and sequencing each part in each run? Since I noticed that in a paper, some samples have 7 runs while some have only 4 runs. Does that mean these samples have different sequencing depth.
2.why the RPKM can be used to measure the expression of one gene between two samples or tissues. RPKM is just a relative value of the read number in the total reads from a sample, it is not the absolute value of the read number. so if RPKMs for a gene from two samples are equal, but the sample 2 have more total reads. It means sample 2 also have more reads derived from the gene. Then the absolute numbr of reads from the gene is larger in sample 2 than in sample 1.
Thank you very much.
I am not familiar with the experiment. I have some questions about the mRNA-Seq. hope someone can help me.
1.what is "run" means in illumina sequencing? Does it mean you separate the samples into several parts. and sequencing each part in each run? Since I noticed that in a paper, some samples have 7 runs while some have only 4 runs. Does that mean these samples have different sequencing depth.
2.why the RPKM can be used to measure the expression of one gene between two samples or tissues. RPKM is just a relative value of the read number in the total reads from a sample, it is not the absolute value of the read number. so if RPKMs for a gene from two samples are equal, but the sample 2 have more total reads. It means sample 2 also have more reads derived from the gene. Then the absolute numbr of reads from the gene is larger in sample 2 than in sample 1.
Thank you very much.
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