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Sample GSM4151223 Query DataSets for GSM4151223
Status Public on Nov 07, 2019
Title Islets, NCD mice 2 (lncRNA-seq)
Sample type SRA
Source name islet
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: islet
treatment: post 8-week normal chow diet
Extracted molecule total RNA
Extraction protocol islet were isolated, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
Library strategy ncRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model HiSeq X Ten
Data processing Illumina software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, The reads mapped to the mouse genome (GRCM38/mm10) were analyzed using GEM software.
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Genome_build: mm10
Supplementary_files_format_and_content: sample.txt: tab-delimited text file includes FPKM values for each Sample
Submission date Nov 06, 2019
Last update date Nov 07, 2019
Contact name fangfang zhang
Organization name China Pharmaceutical University
Street address 24 Tongjiaxiang, Nanjing, Jiangsu province, People's republic of China
City nnajing
ZIP/Postal code 210009
Country China
Platform ID GPL21273
Series (1)
GSE139991 high-throughput sequencing analysis of NCD mice, HFD mice and db/db mice
SRA SRX5801948
BioSample SAMN08730473

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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