Determination of dosage compensation of the mammalian X chromosome by RNA-seq is dependent on analytical approach

BMC Genomics

Table 4 Small RNA and riboprotein enrichment based on library preparation (Illumina or SOLiD)

	Tissue	Xp lymphoblast (SOLiD)			Human lymphoblast (Illumina)			XY mouse brain (SOLiD)			Mouse brain (Illumina)
	Mapping parameter	Unique	Non-unique	NUS	Unique	Non-unique	NUS	Unique	Non-unique	NUS	Unique	Non-unique	NUS
Category	Small RNAs	193	190	4	2	8	1	47	62	2	4	2	4
	Ribo	20	26	42	58	80	62	2	11	3	3	8	3
	Other	37	34	204	190	165	187	201	177	245	243	240	243

We compared small RNA (sno and micro) and riboprotein biases using three different mapping parameters: unique, non-unique, and non-unique splicing (NUS). Four different libraries were analyzed including: X^p lymphoblast (SOLiD), normal human lymphoblast (Illumina), mouse brain (Illumina) and mouse brain 40, XY (SOLiD).

ISSN: 1471-2164