|
| Status |
Public on Jan 28, 2017 |
| Title |
Healthy human brain |
| Sample type |
SRA |
| |
|
| Source name |
Total RNA from human brain
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: brain
diagnosis: normal brain
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA isolated using modified guanidine thiocyanate technique from healthy human and Alzheimer’s disease brain was procured from BioChain, USA. The purity of isolated RNA was examined using NanoDrop spectrophotometer (Thermo Scientific) by measuring absorbance at 260 nm and 280 nm. An aliquot of each the samples was also run on an Agilent RNA Bioanalyzer to check the RNA integrity number (RIN) and was found to be 8.1 and 8.5 in HB and AD sample respectively.
The RNA libraries were constructed for sequencing following Illumina TruSeq Small RNA library protocol outlined in “TruSeq Small RNA Sample Preparation Guide” (Part # 15004197; Rev. F; February 2014) and using TruSeq Small RNA sample preparation kit (Illumina, # RS-200-0012).
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
small RNA
|
| Data processing |
bcl2fastq software (Illumina) was used for converting image file to FASTq format.
Sequenced reads were trimmed for adaptor sequence using srna Work bench, and Quality check of the generated data was done using the FASTqc software.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files of annotated piRNAs identified in each Sample. A text file contains the read counts for miRNAs.
|
| |
|
| Submission date |
Aug 01, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Dr. Bibekanand Mallick |
| E-mail(s) |
vivek.iitian@gmail.com
|
| 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 |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE85075 |
Next-Generation Sequencing identified piRNA profiles in healthy and Alzheimer’s-affected human brain |
|
| Relations |
| BioSample |
SAMN05505396 |
| SRA |
SRX1995255 |
