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GEO accession:
Sample GSM6783636
Query DataSets for GSM6783636
Status
Public on Dec 04, 2022
Title
long read RNA-seq from HepG2 (ENCLB940BIE)
Sample type
SRA
Source name
Homo sapiens HepG2 cell line
Organism
Homo sapiens
Characteristics
line: HepG2
biomaterial_type: cell line
description: HepG2
biosample encode accession: ENCBS003ZLT (SAMN31997675)
organism: Homo sapiens
Sex: male
health state: hepatocellular carcinoma
dev stage: child
age: 15 year
donor_id: ENCDO000AAC
lab: Ali Mortazavi, UCI
source: ATCC
link: ENCBS003ZLT at ENCODE;
https://www.encodeproject.org/ENCBS003ZLT/
link: Derived from ENCODE donor ENCDO000AAC;
https://www.encodeproject.org/ENCDO000AAC/
Extracted molecule
total RNA
Extraction protocol
general protocol:
https://www.encodeproject.org/documents/b88f13ac-80e5-4216-bf6b-1dc1624d37b0/@@download/attachment/Direct-RNA_Wet-Lab_DCC%20v1.0.pdf,
general protocol:
https://www.encodeproject.org/documents/cc4b4215-9e3b-4229-ad26-af31ed502f5c/@@download/attachment/Direct-RNA_Computational-Analysis%20v1.0.pdf
Library strategy
RNA-Seq
Library source
transcriptomic
Library selection
cDNA
Instrument model
MinION
Description
https://www.encodeproject.org/experiments/ENCSR724HQB/
***************
biological replicate number: 2
technical replicate number: 1
description: ONT dRNA of HepG2
experiment encode accession: ENCSR724HQB
assay title: long read RNA-seq
assembly: GRCh38
encode release date: 2022-03-08
lab: Ali Mortazavi, UCI
library encode accession: ENCLB940BIE
nucleic acid starting quantity: 500
nucleic acid starting quantity units: ng
Data processing
See GSM*_README.txt supplementary file linked below
Submission date
Dec 03, 2022
Last update date
Dec 06, 2022
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
GPL24106
Series (1)
GSE220018
long read RNA-seq from HepG2 (ENCSR724HQB)
Relations
BioSample
SAMN31997675
SRA
SRX18486490
Supplementary file
Size
Download
File type/resource
GSM6783636_ENCFF231EVD_transcriptome_annotations_GRCh38.gtf.gz
66.2 Mb
(ftp)
(http)
GTF
GSM6783636_ENCFF382KCL_transcript_quantifications_GRCh38.tsv.gz
3.1 Mb
(ftp)
(http)
TSV
GSM6783636_ENCLB940BIE_README.txt.gz
537 b
(ftp)
(http)
TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file
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