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

BMC Genomics

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

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

Signletons: Number of high quailty reads for which the correspoding pairs were discarded during quality filtering
Ratio OLIGO:RIBO: Ratio of aligned reads using poly(A) mRNA enrichment plus rRNA depletion vs rRNA depletion alone
Alignment rate: Number of Kallisto aligned reads/number of high quality reads

ISSN: 1471-2164