GEO Accession viewer

NCBI > GEO > Accession Display

Not logged in | Login

GEO help: Mouse over screen elements for information.

Sample GSM6783622

Query DataSets for GSM6783622

Status

Public on Dec 04, 2022

Title

total RNA-seq from A549 (ENCLB294GLR)

Sample type

SRA

Source name

Homo sapiens A549 cell line treated with 1 uM dexamethasone (agonist) for 4 hours

Organism

Homo sapiens

Characteristics

line: A549
biomaterial_type: cell line
biosample encode accession: ENCBS854SIX (SAMN31998642)
organism: Homo sapiens
Sex: male
dev stage: adult
age: 58 year
donor_id: ENCDO000AAZ
lab: Tim Reddy, Duke
source: ATCC
treatments: treatment_term_id: CHEBI:41879; treatment_term_name: dexamethasone; treatment_type: chemical; duration: 4; duration_units: hour;
link: ENCBS854SIX at ENCODE; https://www.encodeproject.org/ENCBS854SIX/
link: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/

Extracted molecule

total RNA

Extraction protocol

extraction protocol: https://www.encodeproject.org/documents/e4e1b09a-8fe8-4212-9e76-a2fd6d0c8b49/@@download/attachment/supplemental%20PolyA%20plus%20RNA-seq%20library%20construction%20protocol.pdf
general protocol: https://www.encodeproject.org/documents/c2499c10-935d-4bc9-b374-5a40f69d4af9/@@download/attachment/Reddy_Lab_RNAseq_ENCODE_protocol.pdf
extraction method: Qiagen RNA extraction

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

cDNA

Instrument model

Illumina NovaSeq 6000

Description

https://www.encodeproject.org/experiments/ENCSR300FPD/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR300FPD
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2022-07-14
lab: Tim Reddy, Duke
library encode accession: ENCLB294GLR
size range: 200-300

Data processing

See GSM*_README.txt supplementary file linked below

Submission date

Dec 03, 2022

Last update date

Jan 20, 2023

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

GPL24676

Series (1)

GSE220013

total RNA-seq from A549 (ENCSR300FPD)

Relations

BioSample

SAMN31998642

SRA

SRX18486482

Named Annotation

GSM6783622_ENCFF994EYM_plus_strand_signal_of_unique_reads_GRCh38.bigWig

Named Annotation

GSM6783622_ENCFF734WRW_plus_strand_signal_of_all_reads_GRCh38.bigWig

Named Annotation

GSM6783622_ENCFF879KZY_minus_strand_signal_of_all_reads_GRCh38.bigWig

Named Annotation

GSM6783622_ENCFF280TYZ_minus_strand_signal_of_unique_reads_GRCh38.bigWig

Supplementary file	Size	Download	File type/resource
GSM6783622_ENCFF280TYZ_minus_strand_signal_of_unique_reads_GRCh38.bigWig	104.1 Mb	(ftp)(http)	BIGWIG
GSM6783622_ENCFF451SNG_transcript_quantifications_GRCh38.tsv.gz	6.3 Mb	(ftp)(http)	TSV
GSM6783622_ENCFF489QKG_transcript_quantifications_GRCh38.tsv.gz	9.9 Mb	(ftp)(http)	TSV
GSM6783622_ENCFF724PMH_gene_quantifications_GRCh38.tsv.gz	3.1 Mb	(ftp)(http)	TSV
GSM6783622_ENCFF734WRW_plus_strand_signal_of_all_reads_GRCh38.bigWig	118.3 Mb	(ftp)(http)	BIGWIG
GSM6783622_ENCFF879KZY_minus_strand_signal_of_all_reads_GRCh38.bigWig	115.1 Mb	(ftp)(http)	BIGWIG
GSM6783622_ENCFF994EYM_plus_strand_signal_of_unique_reads_GRCh38.bigWig	107.8 Mb	(ftp)(http)	BIGWIG
GSM6783622_ENCLB294GLR_README.txt.gz	832 b	(ftp)(http)	TXT
SRA Run Selector
Raw data are available in SRA
Processed data provided as supplementary file