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Series GSE118125 Query DataSets for GSE118125
Status Public on May 21, 2019
Title A comparison of RNA extraction and sequencing protocols for detection of small RNAs in plasma
Organism Homo sapiens
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary We compared 3 small RNA library prep kits (CleanTag, NEXTflex, QIAseq) and two RNA extraction methods (miRNeasy and MagnaZol) on plasma. We report that library preparation has a significant effect upon the miRNA profile detected, with QIAseq libraries exhibiting the least sequencing bias of the three library kits. RNA extraction methods also contribute, to a lesser extent, to the miRNA profile detected, with MagnaZol RNA extraction increasing the percentage of reads mapping to miRNAs and the number of individual miRNAs detected.
 
Overall design Comparison of miRNA profiles detected in plasma by commercially available library prep kits.
 
Contributor(s) Wong RK, MacMahon M, Woodside JV, Simpson DA
Citation(s) 31159762
Submission date Aug 03, 2018
Last update date Jun 21, 2019
Contact name David Arthur Simpson
E-mail(s) david.simpson@qub.ac.uk
Organization name Queen's University Belfast
Department Wellcome-Wolfson Institite for Experimental Medicine
Street address The Wellcome – Wolfson Institute for Experimental Medicine, 97 Lisburn Road
City Belfast
State/province N. Ireland
ZIP/Postal code BT9 7BL
Country United Kingdom
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (30)
GSM3318909 mNF_A_1
GSM3318910 mNF_A_2
GSM3318911 mNF_B_1
Relations
BioProject PRJNA484513
SRA SRP156342

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE118125_isomiR_expression_matrix.txt.gz 694.5 Kb (ftp)(http) TXT
GSE118125_mature_miRNA_expression_matrix.txt.gz 25.3 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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