Table 1.

Summary of reads mapped from RNA-Seq analysis of HG and LG abdominal fat (7 wk)

	Bird ID	Paired-End Reads	Reads Mapped (%)	Reads Unmapped (%)	Genes (FPKM > 0.5)
HG	1536	64,372,528	58,450,255 (91%)	5,922,272 (9%)	14,171
	1572	72,993,942	54,526,474 (75%)	18,467,467 (25%)	14,086
	1759	72,258,015	54,988,349 (76%)	17,269,665 (24%)	14,121
	1807	53,773,174	44,524,188 (83%)	9,248,985 (17%)	14,251
LG	1890	51,157,100	42,460,393 (83%)	8,696,707 (17%)	14,241
	1923	71,021,405	58,450,616 (82%)	12,570,788 (18%)	14,449
	5629	75,046,371	62,063,348 (83%)	12,983,022 (17%)	14,465
	5678	69,207,601	57,027063 (82%)	12,180,537 (18%)	14,362

Two replicate lanes of 8 multiplexed HG and LG abdominal fat samples were paired-end (101 bp) sequenced in an Illumina HiSeq 2000 sequencer. The percentage of mapped and unmapped reads is shown in parenthesis. The threshold for gene detection was set at greater than 0.5 fragments per kilobase of exon per million fragments mapped (FPKM > 0.5). Differential (DE) expression of a gene was determined by statistical difference after adjustment for a false discovery rate of FDR ≤ 0.05. The DE genes used for Ingenuity Pathways Analysis were considered analysis ready (AR) if annotated according to the Ingenuity Knowledge Base, accrued from human and murine models in the biomedical literature