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Sample GSM5378709 Query DataSets for GSM5378709
Status Public on Jun 15, 2021
Title microRNA-seq from layer of hippocampus (ENCLB356JLO)
Sample type SRA
 
Source name Mus musculus strain B6.Cg-Tg(APPSwFlLon,PSEN1*M146L*L286V)6799Vas/Mmjax layer of hippocampus tissue
Organism Mus musculus
Characteristics tissue_type: layer of hippocampus
biomaterial_type: tissue
description: 5xFAD hippo het Female
biosample encode accession: ENCBS251XQY (SAMN19597526)
Sex: not collected
dev stage: unknown
age: not collected
donor_id: ENCDO835CXP
lab: Ali Mortazavi, UCI
source: MODEL-AD
link: ENCBS251XQY at ENCODE; https://www.encodeproject.org/ENCBS251XQY/
link: Derived from ENCODE donor ENCDO835CXP; https://www.encodeproject.org/ENCDO835CXP/
Extracted molecule total RNA
Extraction protocol general protocol: https://www.encodeproject.org/documents/49f43842-5ab4-4aa1-a6f4-2b1234955d93/@@download/attachment/Multiplexed%20miRNA%20Sequencing%20Library%20Generation%20Protocol-3.4.pdf
pipeline protocol: https://www.encodeproject.org/documents/e3eb2a94-9842-40d6-8153-fdf21e748e24/@@download/attachment/adapter_trimming_2.pdf
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina NextSeq 500
 
Description https://www.encodeproject.org/experiments/ENCSR659HKO/
***************
biological replicate number: 2
technical replicate number: 1
description: RNA Evaluation 5xFAD female mouse layer of hippocampus microRNA-seq from Mortazavi
experiment encode accession: ENCSR659HKO
assay title: microRNA-seq
assembly: mm10
encode release date: 2020-09-01
lab: Ali Mortazavi, UCI
library encode accession: ENCLB356JLO
size range: <30
Data processing See GSM*_README.txt supplementary file linked below
 
Submission date Jun 12, 2021
Last update date Jul 02, 2021
Contact name ENCODE DCC
E-mail(s) encode-help@lists.stanford.edu
Organization name ENCODE DCC
Street address 300 Pasteur Dr
City Stanford
State/province CA
ZIP/Postal code 94305-5120
Country USA
 
Platform ID GPL19057
Series (1)
GSE177698 microRNA-seq from layer of hippocampus (ENCSR659HKO)
Relations
BioSample SAMN19597526
SRA SRX11167665
Named Annotation GSM5378709_ENCFF407VSD_minus_strand_signal_of_all_reads_mm10.bigWig
Named Annotation GSM5378709_ENCFF995FMK_minus_strand_signal_of_unique_reads_mm10.bigWig
Named Annotation GSM5378709_ENCFF174HAN_plus_strand_signal_of_all_reads_mm10.bigWig
Named Annotation GSM5378709_ENCFF583PIZ_plus_strand_signal_of_unique_reads_mm10.bigWig

Supplementary file Size Download File type/resource
GSM5378709_ENCFF174HAN_plus_strand_signal_of_all_reads_mm10.bigWig 8.6 Mb (ftp)(http) BIGWIG
GSM5378709_ENCFF407VSD_minus_strand_signal_of_all_reads_mm10.bigWig 8.6 Mb (ftp)(http) BIGWIG
GSM5378709_ENCFF583PIZ_plus_strand_signal_of_unique_reads_mm10.bigWig 4.9 Mb (ftp)(http) BIGWIG
GSM5378709_ENCFF952HQO_microRNA_quantifications_mm10.tsv.gz 10.3 Kb (ftp)(http) TSV
GSM5378709_ENCFF995FMK_minus_strand_signal_of_unique_reads_mm10.bigWig 4.9 Mb (ftp)(http) BIGWIG
GSM5378709_ENCLB356JLO_README.txt.gz 665 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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