Viral expression associated with gastrointestinal adenocarcinomas in TCGA high-throughput sequencing data

Table 2 Total number of next-generation sequencing reads/fragments available for gastrointestinal cancers organized by cancer and tissue type

Cohort	Statistics	Primary tumor	Primary tumor		Blood		Solid tissue
		RNA	DNA	Human genome coverage^a	DNA	Human genome coverage^a	DNA	Human genome coverage^a
COAD	Min	5,244,743	60,872,080	0.47	64,637,478	0.50	148,341,394	1.18
	Mean	26,127,635	205,217,167	1.63	182,959,915	1.45	224,838,391	1.77
	Median	27,424,762	196,408,988	1.57	193,657,350	1.49	196,072,876	1.57
	Max	64,021,517	1,162,469,344	9.43	354,790,740	2.85	429,443,164	3.36
READ	Min	19,665,974	89,943,982	0.70	90,122,736	0.70	95,061,666	0.75
	Mean	26,782,703	225,818,442	1.79	214,787,544	1.71	150,549,985	1.19
	Median	27,121,702	227,226,239	1.81	224,045,358	1.80	159,027,517	1.26
	Max	33,338,326	461,153,444	3.68	367,295,986	2.93	189,083,240	1.47
STAD	Min	127,157,036	259,701,502	2.08	NA	NA	418,702,808	3.34
	Mean	155,138,810	300,668,630	2.40	NA	NA	448,318,606	3.58
	Median	155,490,548	280,015,346	2.23	NA	NA	448,318,606	3.58
	Max	193,445,130	362,289,042	2.88	NA	NA	477,934,404	3.82

Paired reads are counted as two single fragments. COAD, colon adenocarcinoma; READ, rectum adenocarcinoma; STAD, stomach adenocarcinoma; NA, no data available. ^aAverage coverage was calculated as the number of reads multiplied by the average read length (51 nt) and divided by the corresponding genome length, divided by two for diploid genome.

ISSN: 1479-7364