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Sample GSM8730389

Query DataSets for GSM8730389

Status

Public on Jan 14, 2025

Title

snRNA-seq from layer of hippocampus (ENCLB850RYI)

Sample type

SRA

Source name

Mus musculus strain B6CASTF1/J layer of hippocampus tissue, preserved by flash-freezing nuclear fraction

Organism

Mus musculus

Characteristics

tissue_type: layer of hippocampus
biomaterial_type: tissue
biosample encode accession: ENCBS841ZQP (SAMN30348022)
Sex: not collected
dev stage: not collected
age: not collected
donor_id: ENCDO509HIY
lab: Michael Snyder, Stanford
subcellular fraction term name: nucleus
source: The Jackson Laboratory
link: ENCBS841ZQP at ENCODE; https://www.encodeproject.org/ENCBS841ZQP/
link: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/

Extracted molecule

total RNA

Extraction protocol

general protocol: https://www.encodeproject.org/documents/4d42b1ef-c9e6-4b31-a443-1266079545d0/@@download/attachment/Chromium_Multiome_ATAC_GEX.pdf
general protocol: https://www.encodeproject.org/documents/d18bad0e-9a86-40f0-8ded-2c74072910e5/@@download/attachment/Snyder_Nuclei_Isolation_tissue_10xmultiome.pdf

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

cDNA

Instrument model

Illumina NovaSeq 6000

Description

https://www.encodeproject.org/experiments/ENCSR968RPR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR968RPR
assay title: snRNA-seq
assembly: mm10
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB850RYI
fragmentation methods: see document
size range: 300-600

Data processing

See GSM*_README.txt supplementary file linked below

Submission date

Jan 13, 2025

Last update date

Jan 22, 2025

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

ZIP/Postal code

94305-5120

Country

USA

Platform ID

GPL24247

Series (1)

GSE286857

snRNA-seq from layer of hippocampus (ENCSR968RPR)

Relations

BioSample

SAMN30348022

SRA

SRX27421506

Supplementary file	Size	Download	File type/resource
GSM8730389_ENCFF152KHN_sparse_gene_count_matrix_of_all_reads_mm10.tar.gz	48.9 Mb	(ftp)(http)	TAR
GSM8730389_ENCFF244ZFC_unfiltered_sparse_gene_count_matrix_of_unique_reads_mm10.tar.gz	59.4 Mb	(ftp)(http)	TAR
GSM8730389_ENCFF786SQX_unfiltered_sparse_splice_junction_count_matrix_of_unique_reads_mm10.tar.gz	10.9 Mb	(ftp)(http)	TAR
GSM8730389_ENCFF857LAM_sparse_gene_count_matrix_of_unique_reads_mm10.tar.gz	41.8 Mb	(ftp)(http)	TAR
GSM8730389_ENCFF961FHF_unfiltered_sparse_gene_count_matrix_of_all_reads_mm10.tar.gz	72.9 Mb	(ftp)(http)	TAR
GSM8730389_ENCLB850RYI_README.txt.gz	772 b	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA