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参考: https://www.omicsclass.com/article/1059
https://www.jianshu.com/p/751487db59b5
TCGA的 RNA-Seq 转录组表达数据中,有三种 HTSeq-Counts, HTSeq-FPKM,HTSeq-FPKM-UQ
Counts:比对到exon上的reads 数目。
FPKM Fragment Per Kilobase of transcript per Million mapped reads. 主要针对 双端测序表达量 计算pair-end。
FPKM-UQ: The total protein-coding read count is replaced by the 75th percentile read count value for the sample in FPKM.
其他:
RPKM: Reads Per Kilobase of exon model per Million mapped reads: 主要针对单端测序数据 single-end-RNA-seq。
TPM: Transcripts Per Kilobase of exon model per Million mapped reads. 先对基因长度标准化,然后测序深度进行标准化。
TPM_i=(FPKM_i/ SUM_j {FPKM_j} ) *10^6
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