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Table 1 Evaluation of mRNA enrichment methods using RNA-seq in four sample set. Read statistics along with the % of alignment to G. g. gorilla and H. sapiens genomes

From: Mapping gastrointestinal gene expression patterns in wild primates and humans via fecal RNA-seq

Samples Groups Number of paired-end reads Remaining reads after quality filtering Singletons Low quality reads Low quality (%) Total reads aligned using Kallisto Ratio OLIGO:RIBO Alignment (%)
KOTO-OLIGO Haman 13,796,106 13,340,097 0 456,009 3.31 59,616 9.13 0.45
KOTO-RIBO Human 14,066,624 13,695,055 0 371,569 2.64 6532   0.05
MBUSA-OLIGO Human 16,559,894 14,492,534 1,269,002 798,358 4.82 103,239 11.85 0.71
MBUSA-RIBO Human 16,775,019 15,644,483 845,112 285,424 1.70 8714   0.06
IYIKI-OLIGO Human 4,992,286 4,390,932 437,374 163,980 3.28 57,579 7.41 1.31
IYIKI-RIBO Human 5,677,816 5,159,806 388,422 129,588 2.28 7772   0.15
MALUI-OLIGO Gorilla 4,541,457 4,086,161 334,319 120,977 2.66 57,810 5.02 1.41
MALUI-RIBO Gorilla 4,749,986 4,193,129 418,094 138,763 2.92 11,506   0.27
  1. Signletons: Number of high quailty reads for which the correspoding pairs were discarded during quality filtering
  2. Ratio OLIGO:RIBO: Ratio of aligned reads using poly(A) mRNA enrichment plus rRNA depletion vs rRNA depletion alone
  3. Alignment rate: Number of Kallisto aligned reads/number of high quality reads