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GEO accession:
Sample GSM2071327
Query DataSets for GSM2071327
Status
Public on Mar 18, 2016
Title
single cell RNA-seq from Purkinje cell (ENCLB921XPI)
Sample type
SRA
Source name
Mus musculus strain B6CASTF1/J Purkinje primary cell male adult (14 months)
Organism
Mus musculus
Characteristics
cell_type: Purkinje cell
biomaterial_type: primary cell
description: Mm_Castaneus X C57Bl_singlecell_male_parasagittal_Purkinje
biosample encode accession: ENCBS113OCQ (SAMN04284008)
age: 14 month
donor_id: ENCDO509HIY
dev stage: adult
Sex: male
lab: Barbara Wold, Caltech
link: ENCBS113OCQ at ENCODE;
https://www.encodeproject.org/ENCBS113OCQ/
link: Derived from ENCODE donor ENCDO509HIY;
https://www.encodeproject.org/ENCDO509HIY/
link: general protocol;
https://www.encodeproject.org/documents/a6e06058-5019-488f-9195-8bcd2e9229c1/@@download/attachment/Laser%20capture%20dissection%20procedure%20general%20protocol_Wold_group.pdf
Extracted molecule
total RNA
Extraction protocol
general protocol:
https://www.encodeproject.org/documents/5f5193b0-0c61-40c6-a286-b1f6d6f0c0da/@@download/attachment/SmartSeqProtocol.pdf
Library strategy
RNA-Seq
Library source
transcriptomic
Library selection
cDNA
Instrument model
Illumina HiSeq 2000
Description
https://www.encodeproject.org/experiments/ENCSR111QQX/
***************
biological replicate number: 1
technical replicate number: 1
description: RNA-seq of a single Purkinje cell from a 14 month old male hybrid Castaneus X C57Bl6 mouse
experiment encode accession: ENCSR111QQX
assay title: single cell RNA-seq
assembly: mm10
possible controls: ENCSR620HJQ
encode release date: 2015-10-13
lab: Barbara Wold, Caltech
library encode accession: ENCLB921XPI
size range: >200
spikeins used: /references/ENCSR013YHQ/, /references/ENCSR133ALU/
nucleic acid starting quantity: 1.0
nucleic acid starting quantity units: cells
Data processing
See GSM*_README.txt supplementary file linked below
Submission date
Feb 24, 2016
Last update date
May 15, 2019
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
GPL13112
Series (1)
GSE78328
single cell RNA-seq from Purkinje cell (ENCSR111QQX)
Relations
SRA
SRX1603027
BioSample
SAMN04284008
Named Annotation
GSM2071327_ENCFF101ZPW_signal_of_all_reads_mm10.bigWig
Named Annotation
GSM2071327_ENCFF748MVT_signal_of_unique_reads_mm10.bigWig
Supplementary file
Size
Download
File type/resource
GSM2071327_ENCFF101ZPW_signal_of_all_reads_mm10.bigWig
78.1 Mb
(ftp)
(http)
BIGWIG
GSM2071327_ENCFF213KZG_gene_quantifications_mm10.tsv.gz
1.9 Mb
(ftp)
(http)
TSV
GSM2071327_ENCFF748MVT_signal_of_unique_reads_mm10.bigWig
52.1 Mb
(ftp)
(http)
BIGWIG
GSM2071327_ENCFF932YVH_transcript_quantifications_mm10.tsv.gz
3.9 Mb
(ftp)
(http)
TSV
GSM2071327_ENCLB921XPI_README.txt.gz
646 b
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
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