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Series GSE85075 Query DataSets for GSE85075
Status Public on Jan 28, 2017
Title Next-Generation Sequencing identified piRNA profiles in healthy and Alzheimer’s-affected human brain
Organism Homo sapiens
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary To investigate the presence of piRNAs and their potential functions in human brain and neurodegenerations, we performed the genomic profiling in Healthy Brain (HB) sample as well as Alzheimer-affected brain (AD) sample by adopting Next-Gen small RNA sequencing technology. Using deep sequencing of small RNAs, we identified an extensive catalogue of 564 and 451 mature piRNAs in HB and AD respectively. The piRNAs from each sample exhibited varied length distribution between 26-32 nts and are originated from different genomic locations. We found 149 piRNAs to be differentially expressed in Alzheimer’s disease which comprises of 146 up-regulated and 3 down-regulated piRNAs. Ours is the first study that reported the presence of piRNAs in healthy as well as Alzheimer’s disease-affected human brain. The extensive catalogue of human piRNAs detected in this study provides a useful resource for decrypting the involvement of piRNAs in neurological functions as well as neurodegenerations.
Overall design Total RNA isolated from healthy human and Alzheimer’s disease brain using modified guanidine thiocyanate technique was used for library preparation as prescribed by Illumina Truseq small RNA library protocol. The small RNA sequencing was performed on Illumina NextSeq 500.
Contributor(s) Roy J, Mallick B
Citation(s) 28127595
Submission date Aug 01, 2016
Last update date May 15, 2019
Contact name Dr. Bibekanand Mallick
Organization name National Institute of Technology
Department Department of Life Science
Lab RNAi & Functional Genomics Lab.
Street address NIT Rourkela
City Rourkela
State/province Odisha
ZIP/Postal code 769008
Country India
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (2)
GSM2257348 Healthy human brain
GSM2257349 Alzheimer’s-affected human brain
BioProject PRJNA336186
SRA SRP080817

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
GSE85075_RAW.tar 50.0 Kb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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