Genomic data of the Chinese tree shrew (Tupaia chinensis).
Dataset type: Genomic
Data released on April 11, 2014
Fan Y; Huang Z; Cao C; Chen C; Chen Y; Fan D; He J; Hou H; Hu L; Hu X; Jiang X; Lai R; Lang Y; Liang B; Liao S; Mu D; Ma Y; Niu Y; Sun X; Xia J; Xiao J; Xiong Z; Xu L; Yang L; Zhang Y; Zhao W; Zhao X; Zheng Y; Zhou J; Zhu Y; Zhang G (2014): Genomic data of the Chinese tree shrew (Tupaia chinensis). GigaScience Database. http://dx.doi.org/10.5524/100072
Chinese tree shrews (Tupaia belangeri chinensis) possess many features valuable in animals used as experimental models in biomedical research. Currently, there are numerous attempts to employ tree shrews as models for a variety of human disorders: depression, myopia, hepatitis B and C virus infections, and hepatocellular carcinoma, to name a few. Here we present a publicly available annotated genome sequence for the Chinese tree shrew. Phylogenomic analysis of the tree shrew and other mammalians highly support its close affinity to primates.
DNA form the tree shrew was collected in Yunnan, China. We sequenced the 3.2 Gb genome to a depth of approximately 79.2x with short reads from a series of libraries with various insert sizes ( 170bp, 500bp, 800bp, 2kb, 5kb, 10kb, 20kb and 40kb).
The assembled scaffolds of high quality sequences total 253.5 Gb, with the contig and scaffold N50 values of 22 kb and 3.65 Mb respectively. We identified 22,063 protein-coding genes.
Experimental procedures and animal care were conducted in strict accordance with guidelines approved by the RIKEN Animal Experiments Committee (Approval IDs H14-23 and H16-10).
Read the peer-reviewed publication(s):
Accessions (data generated as part of this study):
|Sample ID||Taxonomic ID||Common Name||Genbank Name||Scientific Name||Sample Attributes|
|SRS347509||246437||Tupaia chinensis||Chinese tree shrew||Tupaia chinensis|| Sex:male [PATO:0000384]|
Geographic location (country and/or sea,region):Ch...
Geographic location (latitude and longitude):not r...
... Sex:male [PATO:0000384]
Geographic location (country and/or sea,region):China, Yunnan
Geographic location (latitude and longitude):not recorded