. Author manuscript; available in PMC: 2013 Nov 21.

Published in final edited form as: Nature. 2010 Mar 10;464(7289):10.1038/nature08903. doi: 10.1038/nature08903

Table 1.

eQTL Discoveries. eQTL discoveries for genes, transcripts, exons, splicing events and long non-coding RNAs for each of the 2 sequencing based quantifications (by-transcript and by-exon) and matching array samples are shown using Spearman Rank correlation.

ASSOCIATIONS	# OF TRAITS	# OF SNPS	PERMUTATION THRESHOLDS^*

			0.05	0.01^**	0.001
Exon quantification	90064 exons / 10777 genes	1171085	3258	836 (0.13)	103
Transcript quantification	15967 transcripts / 11674 genes	1171085	1129	293 (0.40)	66
Whole Gene quantification	11210 genes	1171085	875	256 (0.43)	62
Long non-coding RNAs	232 exons / 102 genes	1171085	14	6 (0.17)	1
Transcript events	6468 events	1171085	416	110 (0.59)	21
Array-based quantification	21800 probes / 17420 genes	1171397	1682	539 (0.32)	194

Thresholds at the gene level

^**

False Discovery Rate (FDR) in parentheses