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Sample GSM673705 Query DataSets for GSM673705
Status Public on Jul 01, 2012
Title small RNA from red blood cells (Sample 3)
Sample type SRA
 
Source name adult
Organism Homo sapiens
Characteristics library number: library 3
tissue: red blood cell
developmental stage: adult
Extracted molecule total RNA
Extraction protocol Small RNA cDNA library was constructed using a protocol adapted from Hafner et al., 2008, Methods. Briefly total RNA from 9 individuals was size-fractionated via polyacrylamide gel electrophoresis and small RNAs corresponding in molecular weight to the mature miRNA population (15- 30-nucleotide fraction) were gel extracted. Small RNAs samples from the 4 healthy kids were pulled together to start with enough material. The 5 other samples were processed individually and all samples were then ligated to the 5' adaptor (Modban adenylated adaptor from IDT, San Jose, CA, USA) using the truncated RNL2 (NEB, Ipswich, MA, USA) and to a 3' adaptor (IDT, San Jose, CA, USA) sequentially using the T4 RNL1 (Promega, Dübendorf, Switzerland). The obtained cDNA samples were then RT-PCR amplified using the Superscript III Reverse transcriptase (Invitrogen AG, Basel, Switzerland) and Taq polymerase (Roche, Rotkreuz, Switzerland). The primers used for amplification included tails corresponding to the 454 adaptors and 3-nucleotide multiplexing tags. All samples were pulled into a single library for sequencing.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model 454 GS FLX
 
Description 15-30 nucleotide small RNA
Small RNA from red blood cell from adult donor
Data processing miRanalyzer (http://web.bioinformatics .cicbiogune.es/microRNA/miRanalyser.php)
 
Submission date Feb 11, 2011
Last update date Jun 11, 2013
Contact name imane azzouzi
Organization name Children's Hospital Zurich
Department Haematology division
Lab Erythrocyte Lab
Street address Steinwiesstrasse 75
City Zurich
ZIP/Postal code 8032
Country Switzerland
 
Platform ID GPL9186
Series (1)
GSE27250 Deep sequencing analysis of human red blood cells
Relations
BioSample SAMN02197108

Supplementary file Size Download File type/resource
GSM673705_library3.txt.gz 33.2 Kb (ftp)(http) TXT
Processed data are available on Series record
Raw data not provided for this record
Processed data provided as supplementary file

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