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Table 1 Read mapping and gene detection statistics based on starting RNA quantity

From: Combining laser-assisted microdissection (LAM) and RNA-seq allows to perform a comprehensive transcriptomic analysis of epidermal cells of Arabidopsis embryo

RNA template

5 ng

100 pg

75 pg

50 pg

25 pg

10 pg

Librairy size (million)

53.341628

38.317268

25.174298

31.510988

32.682558

29.791112

Mapped reads (million) (percentage)

51.127950 (96%)

30.780261 (81%)

22.402608 (89%)

28.652941 (91%)

29.123427 (89%)

26.701774 (90%)

Detected genes (level 0)

17446

19266

19539

18485

16829

15936

Common reads with 5 ng reference sample (percentage)

 

15704 (90%)

15880 (98.8%)

15317 (87.8%)

14312 (85%)

13748 (86.3%)

  1. Both first lines are the number of sequenced PE reads in million(s), and number of PE reads kept after mapping and gene association. Detected genes are the number of genes with a1 PE or more. The last line is the number of genes in common between 17446 genes detected with 5 ng compared to the other samples. The raw counts are already rid of rRNA reads, 3–6% have been removed for each sample
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Plant Methods

ISSN: 1746-4811