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Table 1 Tissue characteristics and mapping statistics for 9 brain regions

From: Whole transcriptome RNA-Seq allelic expression in human brain

Brain region

RINa

Total reads

Reads mapped (standard alignment)

Reads mapped (allele-switched alignment)b

Reads mapped (IUPAC alignment)

BA10 (frontopolar cortex)

5.9

36,449,577

30,223,143 (83%)

30,222,857 (83%)

30,314,666 (83%)

BA22 (superior temporal cortex)

7.1

34,975,593

29,506,035 (84%)

29,505,770 (84%)

29,594,225 (84%)

BA24 (anterior cingulate cortex)

6.5

43,992,783

36,562,760 (83%)

36,562,530 (83%)

36,698,983 (83%)

Insular cortex

5.0

38,872,288

32,777,310 (84%)

32,777,059 (84%)

32,879,072 (84%)

Amygdala

6.9

41,172,320

34,304,449 (83%)

34,304,246 (83%)

34,398,572 (83%)

Hippocampus

6.7

48,277,234

40,944,589 (85%)

40,944,279 (85%)

41,012,249 (85%)

Putamen

6.8

30,881,648

25,861,872 (84%)

25,861,690 (84%)

25,958,094 (84%)

Cerebellum

6.9

39,047,957

32,918,344 (84%)

32,918,093 (84%)

32,938,662 (84%)

Raphe nuclei

6.9

41,231,369

33,963,780 (82%)

33,963,585 (82%)

34,091,575 (83%)

  1. aRIN RNA Integrity Number, measured with Agilent Bioanalyzer 2100.
  2. bAllele-switching only conducted on a limited number of SNPs listed in Additional file 1: Table S1.