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E-GEOD-58755 - Global identification of growth-related long non-coding RNAs in breast muscle of chicken

Status
Released on 24 June 2014, last updated on 13 August 2014
Organism
Gallus gallus
Samples (2)
Protocols (4)
Description
Long non-coding RNAs (lncRNAs) can have potential roles in development of tissues and organs. We selected breast muscle of fast-growing White Recessive Rock chicken (WRR) and slow-growing Xing Hua chicken (XH) to identify lncRNA transcripts by LncRNA-Seq. This study identified 21,993 novel lncRNAs. Among 7,339 differentially expressed lncRNAs, 723 up-regulated and 6,616 down-regulated lncRNAs were found in WRR compared with XH. Of them, five novel lncRNA were antisense transcripts for growth-related genes CACNA1D (unigene 14689_all), IL4I1 (unigene 15355_all), LEF-1 (unigene 19525_all) and FABP1 (unigenes 17536_all and 17537_all) respectively. Meanwhile, 12 other novel lncRNAs were found in the intron or downstream of some known growth-related genes (IGF1, IGF2BP2, IGF2BP3, CACNA1D, IL4I1, LEF-1 and FABP1). In addition, 4,043 SSRs and 200,049 SNPs were identified. Our data revealed the global lncRNA expression pattern in muscle tissue, and contributed a useful genomic resource towards studying the effects of lncRNAs in regulating chicken growth. Two RNA pool for WRR and XH strains
Experiment type
RNA-seq of non coding RNA 
Contacts
Xuenong Zhu <16541559@qq.com>, Haiping Xu, Qinghua Nie, Xiquan Zhang
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-58755.idf.txt
Sample and data relationshipE-GEOD-58755.sdrf.txt
Additional data (1)E-GEOD-58755.additional.1.zip
Links