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Sample GSM1418877 Query DataSets for GSM1418877
Status Public on Aug 06, 2014
Title hMSC
Sample type SRA
Source name Foetal mesenchymal stem cells
Organism Homo sapiens
Characteristics cell type: first trimester mesenchymal undifferentiated stem cells
passage: 5 to 6
molecule subtype: miRNA
Treatment protocol Harvested at passage 5 to 6, no additional treatment
Growth protocol Grown in DMEM + 10% FBS at 5% CO2
Extracted molecule total RNA
Extraction protocol Total RNA prepared using Trizol
Libraries made according to Molnar A et al., 2007 Nature 447, 1126-29. Briefly, Briefly, small RNAs were excised from a 15% 7M Urea PAGE and extracted with 0.3 M NaCl. RNAs were ligated to 5’ and 3’ adapters for PCR amplification using 454-forward (5'-GCC TCC CTC GCG CCA TCA GCA GCC ATG GGA ATT CCT CAC TAA-3') and 454-reverse (5'-GCC TTG CCA GCC CGC TCA GAC AGT CCA TGG ATT G-3') primers. PCR products were separated on a 10% native PAGE and the amplified ligation products were excised and sequenced with 454 technology (454 sequencing platform)
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model 454 GS 20
Description MicroRNA sequencing results
Data processing After trimming adaptor sequences a total of 253, 791 unfiltered reads were obtained and of these 25,724 were selected thatt were between 15 and 28 nucleotides in length. These were copared to annotated mature miRNAs (miRBase v13.0 leading to the identification of 162 mature miRNAs. The number of reads for each miRNA and related isomiRs are recorcded in the file hMSC
Genome_build: miRBase v13
Supplementary_files_format_and_content: hMSC.xis
Submission date Jun 23, 2014
Last update date Aug 06, 2014
Contact name Nicholas John Dibb
Organization name Imperial College London
Department Surgery and Cancer
Lab receptor signalling
Street address Du Cane Road
City London
ZIP/Postal code W12 0NN
Country United Kingdom
Platform ID GPL9178
Series (1)
GSE58734 Homo sapiens foetal mesenchymal stem cell miRNA transcriptome
BioSample SAMN02869883

Supplementary file Size Download File type/resource
GSM1418877_hMSC.xis.xls.gz 26.3 Kb (ftp)(http) XLS
Raw data not provided for this record
Processed data provided as supplementary file

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