title: ChIP-seq from A549 (ENCLB627FJH)

description:
https://www.encodeproject.org/experiments/ENCSR954HUB/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 10 hours.
experiment encode accession: ENCSR954HUB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR310TYO
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB627FJH
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:10; duration_units:hour;

value: ENCBS106VMV at ENCODE; https://www.encodeproject.org/ENCBS106VMV/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB326YJJ)

status: Public on Jan 10 2017

type: SRA

city: Stanford

first: ENCODE

last: DCC

state: CA

address: 300 Pasteur Dr

country: USA

institute: ENCODE DCC

description:
https://www.encodeproject.org/experiments/ENCSR791BNU/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR791BNU
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB326YJJ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

library_source: genomic

data_processing: See GSM*_README.txt supplementary file linked below

molecule: genomic DNA

organism: Homo sapiens

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 8 hours

tag: antibody

tag: line

value: immortalized cell line

tag: biosample encode accession

tag: dev stage

value: adult

tag: treatments

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

tag: Sex

value: male

tag: age

value: 58 year

tag: lab

value: Tim Reddy, Duke

tag: link

value: ENCBS044YWQ at ENCODE; https://www.encodeproject.org/ENCBS044YWQ/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: ChIP-seq from A549 (ENCLB635WAB)

description:
https://www.encodeproject.org/experiments/ENCSR775TAI/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR775TAI
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR838ZAU
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB635WAB
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line

value: ENCBS204ZVO at ENCODE; https://www.encodeproject.org/ENCBS204ZVO/


title: ChIP-seq from A549 (ENCLB130EJP)

description:
https://www.encodeproject.org/experiments/ENCSR773NQB/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR773NQB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR491TAD
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB130EJP
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 30 minutes

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:30; duration_units:minute;

value: ENCBS815HMT at ENCODE; https://www.encodeproject.org/ENCBS815HMT/


title: ChIP-seq from A549 (ENCLB588ZZT)

description:
https://www.encodeproject.org/experiments/ENCSR774KCU/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR774KCU
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB588ZZT
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS342HZL at ENCODE; https://www.encodeproject.org/ENCBS342HZL/


title: ChIP-seq from A549 (ENCLB969POI)

description:
https://www.encodeproject.org/experiments/ENCSR766NHB/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 10 hours.
experiment encode accession: ENCSR766NHB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR310TYO
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB969POI
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 10 hours

value: ENCBS455PIS at ENCODE; https://www.encodeproject.org/ENCBS455PIS/


title: ChIP-seq from A549 (ENCLB558BKS)

description:
https://www.encodeproject.org/experiments/ENCSR873VJA/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR873VJA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR317VER
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB558BKS
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 7 hours

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: ENCBS479HSK at ENCODE; https://www.encodeproject.org/ENCBS479HSK/


title: Input

city: Kumamoto

first: Ko

last: Ishihara

address: 2-2-1 Honjyo

department: Priority Organization for Innovation and Excellence

country: Japan

institute: Kumamoto University

data_processing:
Torrent Suite (Life technologies) was used for base-calling.
ChIP-seq reads were mapped to the human reference genome hg19 using the BWA algorithm (CLC Genomics Workbench Software).
Duplicate reads and low read/mapping quality reads were trimmed out with the CLC Genomics Workbench Software.
Peak detection was done using the MACS algorithm in Avadis NGS software. GR binding sites were detected based on the P cut-off value 10-5 and Enrichment factor 10 over input.
Genome_build: hg19
Supplementary_files_format_and_content: The BED files were generated using MACS algorithm in Avadis NGS software.

source_name: HepG2 cells

growth_protocol: HepG2 cells were cultured in DMEM (Sigma) supplemented 10% (v/v) fetal bovine serum (FBS).

extract_protocol:
Cells were fixed with 1% formaldehyde for 10 min at room temperature. The cells were lysed with a RIPA buffer supplemented with protease inhibitor. Lysed samples were sonicated by Sonifiers Branson and Bioruptor to yield 200-500 bp DNA fragments. Chromatin immunoprecipitaiton (ChIP) was performed with anti-glucocorticoid receptor antibodies. DNA fragments were collected using Dynabeads protein A/G (Life Technologies).
ChIP-seq libraries were constructed with Ion Fragment Library kit (Life Technologies) according to the manufacturer's instructions

treatment_protocol: The cells were treated with 100 nM dexamethasone (Sigma) for 3 hr after preculture for 24 to 48 hr in DMEM (Sigma) supplemented 10% (v/v) FBS treated with dextran-coated charcoal (DCC).

tag: cell line

value: Hepatocellular HepG2 cell line

tag: chip antibody


title: ChIP-seq from A549 (ENCLB533CSA)

description:
https://www.encodeproject.org/experiments/ENCSR716XDB/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR716XDB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB533CSA
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 5 hours

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: ENCBS528HKR at ENCODE; https://www.encodeproject.org/ENCBS528HKR/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: DNase-seq from A549 (ENCLB613CCB)

description:
https://www.encodeproject.org/experiments/ENCSR837VHE/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR837VHE
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB613CCB

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 2 hours

value: immortalized cell line

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:2; duration_units:hour;

value: ENCBS191VYO at ENCODE; https://www.encodeproject.org/ENCBS191VYO/


title: ChIP-seq from A549 (ENCLB104QGP)

description:
https://www.encodeproject.org/experiments/ENCSR720DXT/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR720DXT
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR344ERJ
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB104QGP
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: 58 year

value: Tim Reddy, Duke

value: ENCBS316RGG at ENCODE; https://www.encodeproject.org/ENCBS316RGG/


title: ChIP-seq from A549 (ENCLB306WLL)

description:
https://www.encodeproject.org/experiments/ENCSR726MAP/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR726MAP
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR344ERJ
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB306WLL
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS468TPT at ENCODE; https://www.encodeproject.org/ENCBS468TPT/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: ChIP-seq from A549 (ENCLB122RQW)

description:
https://www.encodeproject.org/experiments/ENCSR716XDB/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR716XDB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB122RQW
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS745XRX at ENCODE; https://www.encodeproject.org/ENCBS745XRX/


title: ChIP-seq from A549 (ENCLB590SZL)

description:
https://www.encodeproject.org/experiments/ENCSR692JHM/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR692JHM
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR548SPY
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB590SZL
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 1 hour

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:1; duration_units:hour; UCSC-ENCODE-cv:DEX_100nM;

value: ENCBS399VKP at ENCODE; https://www.encodeproject.org/ENCBS399VKP/


title: polyA mRNA RNA-seq from A549 (ENCLB581OJY)

description:
https://www.encodeproject.org/experiments/ENCSR924BHF/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR924BHF
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB581OJY
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

library_source: transcriptomic

molecule: total RNA

extract_protocol:
general protocol: https://www.encodeproject.org/documents/5533fb32-41f1-4c7a-b62d-0095a33cab20/@@download/attachment/01_RNA_HARVEST_and_ISOLATION_Reddy_GGR.pdf
extraction protocol: https://www.encodeproject.org/documents/53726435-7acc-4248-a5df-3eef6ea3b422/@@download/attachment/02_Rev%20D%20Quick%20Reference%20Card%2C%20PrepX%20PolyA%2048%20Protocol.pdf
extraction protocol: https://www.encodeproject.org/documents/5f9d4f74-4e39-4818-9ee9-d8e9b8004ceb/@@download/attachment/03_RevC%20Quick%20Reference%20Card%2C%20PrepX%20mRNA%2048%20Protocol.pdf
extraction protocol: https://www.encodeproject.org/documents/c72e898e-82c7-478d-b043-8945133a7724/@@download/attachment/04_Rev%20C%20Quick%20Reference%20Card%2C%20PrepX%20PCR%20Cleanup%2048%20Protocol.pdf
general protocol: https://www.encodeproject.org/documents/7a683e77-85ac-45f9-b1fa-b6ceb50ca1bc/@@download/attachment/05_POST_RNA_LIB_PREP_Reddy_GGR.pdf
extraction method: RNeasy Plus Mini Kit Qiagen cat#74134 plus additional on column Dnase treatment

value: ENCBS498NRD at ENCODE; https://www.encodeproject.org/ENCBS498NRD/


title: ChIP-seq from A549 (ENCLB461FFA)

description:
https://www.encodeproject.org/experiments/ENCSR691GRA/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR691GRA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB461FFA
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS144NAE at ENCODE; https://www.encodeproject.org/ENCBS144NAE/


title: ChIP-seq from A549 (ENCLB958DFQ)

description:
https://www.encodeproject.org/experiments/ENCSR838ZAU/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR838ZAU
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB958DFQ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Control

value: ENCBS518HSM at ENCODE; https://www.encodeproject.org/ENCBS518HSM/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB098CDQ)

description:
https://www.encodeproject.org/experiments/ENCSR783SNV/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR783SNV
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR838ZAU
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB098CDQ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: adult

value: ENCBS547ACC at ENCODE; https://www.encodeproject.org/ENCBS547ACC/


title: DNase-seq from A549 (ENCLB597OHU)

description:
https://www.encodeproject.org/experiments/ENCSR660OQE/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR660OQE
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB597OHU
nucleic acid starting quantity: 30
nucleic acid starting quantity units: ng

value: 58 year

value: male

value: ENCBS423SRU at ENCODE; https://www.encodeproject.org/ENCBS423SRU/


title: GR ChIP

value: Hepatocellular HepG2 cell line

value: anti-GR antibody (Santa Cruz, sc-8992; lot #H1314)


title: DNase-seq from A549 (ENCLB412WZW)

description:
https://www.encodeproject.org/experiments/ENCSR660OQE/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR660OQE
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB412WZW
nucleic acid starting quantity: 199
nucleic acid starting quantity units: ng

value: Tim Reddy, Duke

value: ENCBS291TVJ at ENCODE; https://www.encodeproject.org/ENCBS291TVJ/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: ChIP-seq from A549 (ENCLB423GEC)

description:
https://www.encodeproject.org/experiments/ENCSR677QYM/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR677QYM
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR491TAD
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB423GEC
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:30; duration_units:minute;

value: ENCBS583GBH at ENCODE; https://www.encodeproject.org/ENCBS583GBH/


title: DNase-seq from A549 (ENCLB310BCE)

description:
https://www.encodeproject.org/experiments/ENCSR660OQE/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR660OQE
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB310BCE

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS410NHM at ENCODE; https://www.encodeproject.org/ENCBS410NHM/


title: ChIP-seq from A549 (ENCLB902ACW)

description:
https://www.encodeproject.org/experiments/ENCSR686PFM/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR686PFM
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB902ACW
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: ENCBS151QJK at ENCODE; https://www.encodeproject.org/ENCBS151QJK/


title: polyA mRNA RNA-seq from A549 (ENCLB743FFQ)

description:
https://www.encodeproject.org/experiments/ENCSR656FIH/
***************
biological replicate number: 1
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR656FIH
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB743FFQ
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:1; duration_units:hour; UCSC-ENCODE-cv:DEX_100nM;

value: ENCBS772RGZ at ENCODE; https://www.encodeproject.org/ENCBS772RGZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB941DDD)

description:
https://www.encodeproject.org/experiments/ENCSR646OPC/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 6 hours.
experiment encode accession: ENCSR646OPC
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR887SZF
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB941DDD
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 6 hours

value: adult

value: 58 year

value: male

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS658RMM at ENCODE; https://www.encodeproject.org/ENCBS658RMM/


title: ChIP-seq from A549 (ENCLB391ZXW)

description:
https://www.encodeproject.org/experiments/ENCSR636PIN/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR636PIN
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR838ZAU
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB391ZXW
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Tim Reddy, Duke

value: ENCBS270TGZ at ENCODE; https://www.encodeproject.org/ENCBS270TGZ/


title: polyA mRNA RNA-seq from A549 (ENCLB820FYG)

description:
https://www.encodeproject.org/experiments/ENCSR656FIH/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR656FIH
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB820FYG
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: ENCBS719BFR at ENCODE; https://www.encodeproject.org/ENCBS719BFR/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: polyA mRNA RNA-seq from A549 (ENCLB510CFF)

description:
https://www.encodeproject.org/experiments/ENCSR632DQP/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR632DQP
assay title: polyA mRNA RNA-seq
assembly: GRCh38
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB510CFF
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: Control

value: ENCBS153BPN at ENCODE; https://www.encodeproject.org/ENCBS153BPN/


title: ChIP-seq from A549 (ENCLB789EIK)

description:
https://www.encodeproject.org/experiments/ENCSR775TAI/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR775TAI
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR838ZAU
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB789EIK
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS788RGJ at ENCODE; https://www.encodeproject.org/ENCBS788RGJ/


title: polyA mRNA RNA-seq from A549 (ENCLB524XKX)

description:
https://www.encodeproject.org/experiments/ENCSR624RID/
***************
biological replicate number: 1
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR624RID
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB524XKX
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 3 hours

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:3; duration_units:hour;

value: ENCBS006TYD at ENCODE; https://www.encodeproject.org/ENCBS006TYD/


title: ChIP-seq from A549 (ENCLB542NVU)

description:
https://www.encodeproject.org/experiments/ENCSR627RBH/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR627RBH
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB542NVU
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: ENCBS574SHM at ENCODE; https://www.encodeproject.org/ENCBS574SHM/


title: ChIP-seq from A549 (ENCLB316KTR)

description:
https://www.encodeproject.org/experiments/ENCSR618MUP/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR618MUP
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB316KTR
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS323CFG at ENCODE; https://www.encodeproject.org/ENCBS323CFG/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB705REM)

description:
https://www.encodeproject.org/experiments/ENCSR614NPG/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR614NPG
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR344ERJ
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB705REM
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:2; duration_units:hour;

value: male

value: 58 year

value: ENCBS133BUS at ENCODE; https://www.encodeproject.org/ENCBS133BUS/


title: polyA mRNA RNA-seq from A549 (ENCLB538FEL)

description:
https://www.encodeproject.org/experiments/ENCSR632DQP/
***************
biological replicate number: 1
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR632DQP
assay title: polyA mRNA RNA-seq
assembly: GRCh38
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB538FEL
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: Tim Reddy, Duke

value: ENCBS797SEZ at ENCODE; https://www.encodeproject.org/ENCBS797SEZ/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: polyA mRNA RNA-seq from A549 (ENCLB628JKK)

description:
https://www.encodeproject.org/experiments/ENCSR624RID/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR624RID
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB628JKK
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: ENCBS092WKJ at ENCODE; https://www.encodeproject.org/ENCBS092WKJ/


title: polyA mRNA RNA-seq from A549 (ENCLB641EAI)

description:
https://www.encodeproject.org/experiments/ENCSR624RID/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR624RID
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB641EAI
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:3; duration_units:hour;

value: ENCBS236JDF at ENCODE; https://www.encodeproject.org/ENCBS236JDF/


title: polyA mRNA RNA-seq from A549 (ENCLB697WBJ)

description:
https://www.encodeproject.org/experiments/ENCSR656FIH/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR656FIH
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB697WBJ
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:1; duration_units:hour; UCSC-ENCODE-cv:DEX_100nM;

value: ENCBS613VBS at ENCODE; https://www.encodeproject.org/ENCBS613VBS/


title: DNase-seq from A549 (ENCLB073EAZ)

description:
https://www.encodeproject.org/experiments/ENCSR599WJC/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR599WJC
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB073EAZ

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 4 hours

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS023FRY at ENCODE; https://www.encodeproject.org/ENCBS023FRY/


title: ChIP-seq from A549 (ENCLB636LYG)

description:
https://www.encodeproject.org/experiments/ENCSR593RGY/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR593RGY
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR491TAD
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB636LYG
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:30; duration_units:minute;

value: ENCBS179WSX at ENCODE; https://www.encodeproject.org/ENCBS179WSX/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB521MOS)

description:
https://www.encodeproject.org/experiments/ENCSR660RYY/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR660RYY
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR872BBM
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB521MOS
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: 58 year

value: male

value: ENCBS471LLC at ENCODE; https://www.encodeproject.org/ENCBS471LLC/


title: ChIP-seq from A549 (ENCLB537XKY)

description:
https://www.encodeproject.org/experiments/ENCSR569IBY/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR569IBY
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR317VER
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB537XKY
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Tim Reddy, Duke

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: ENCBS405WSN at ENCODE; https://www.encodeproject.org/ENCBS405WSN/


title: polyA mRNA RNA-seq from A549 (ENCLB624CWM)

description:
https://www.encodeproject.org/experiments/ENCSR632DQP/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR632DQP
assay title: polyA mRNA RNA-seq
assembly: GRCh38
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB624CWM
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: Control

value: ENCBS302GLU at ENCODE; https://www.encodeproject.org/ENCBS302GLU/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: ChIP-seq from A549 (ENCLB436XDI)

description:
https://www.encodeproject.org/experiments/ENCSR569IBY/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR569IBY
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR317VER
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB436XDI
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: ENCBS953AYB at ENCODE; https://www.encodeproject.org/ENCBS953AYB/


title: ChIP-seq from A549 (ENCLB951BLH)

description:
https://www.encodeproject.org/experiments/ENCSR614NPG/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR614NPG
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR344ERJ
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB951BLH
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:2; duration_units:hour;

value: ENCBS828JTD at ENCODE; https://www.encodeproject.org/ENCBS828JTD/


title: DNase-seq from A549 (ENCLB267ZXQ)

description:
https://www.encodeproject.org/experiments/ENCSR565WPR/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR565WPR
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB267ZXQ

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: ENCBS032DUJ at ENCODE; https://www.encodeproject.org/ENCBS032DUJ/


title: ChIP-seq from A549 (ENCLB984YWZ)

description:
https://www.encodeproject.org/experiments/ENCSR549SVK/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR549SVK
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB984YWZ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

source_name: Homo sapiens A549 immortalized cell line treated with 100 nM dexamethasone for 12 hours

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:12; duration_units:hour;

value: ENCBS093FKM at ENCODE; https://www.encodeproject.org/ENCBS093FKM/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB870JOY)

description:
https://www.encodeproject.org/experiments/ENCSR555EAA/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR555EAA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB870JOY
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: 58 year

value: ENCBS027OSU at ENCODE; https://www.encodeproject.org/ENCBS027OSU/


title: ChIP-seq from A549 (ENCLB930XAR)

description:
https://www.encodeproject.org/experiments/ENCSR548SPY/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR548SPY
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB930XAR
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Tim Reddy, Duke

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:1; duration_units:hour; UCSC-ENCODE-cv:DEX_100nM;

value: ENCBS844DON at ENCODE; https://www.encodeproject.org/ENCBS844DON/


title: polyA mRNA RNA-seq from A549 (ENCLB322MOU)

description:
https://www.encodeproject.org/experiments/ENCSR546PPG/
***************
biological replicate number: 1
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR546PPG
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB322MOU
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS291TVJ at ENCODE; https://www.encodeproject.org/ENCBS291TVJ/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: DNase-seq from A549 (ENCLB049QAF)

description:
https://www.encodeproject.org/experiments/ENCSR565WPR/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR565WPR
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB049QAF
nucleic acid starting quantity: 104
nucleic acid starting quantity units: ng

value: immortalized cell line

value: adult

value: ENCBS749QGQ at ENCODE; https://www.encodeproject.org/ENCBS749QGQ/


title: polyA mRNA RNA-seq from A549 (ENCLB324ZRL)

description:
https://www.encodeproject.org/experiments/ENCSR546PPG/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR546PPG
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB324ZRL
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: ENCBS490YBT at ENCODE; https://www.encodeproject.org/ENCBS490YBT/


title: DNase-seq from A549 (ENCLB362TLL)

description:
https://www.encodeproject.org/experiments/ENCSR565WPR/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR565WPR
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB362TLL
nucleic acid starting quantity: 70
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: ENCBS369ESF at ENCODE; https://www.encodeproject.org/ENCBS369ESF/


title: polyA mRNA RNA-seq from A549 (ENCLB587NWV)

description:
https://www.encodeproject.org/experiments/ENCSR546PPG/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR546PPG
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB587NWV
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: ENCBS189KLL at ENCODE; https://www.encodeproject.org/ENCBS189KLL/


title: ChIP-seq from A549 (ENCLB982ZPE)

description:
https://www.encodeproject.org/experiments/ENCSR766NHB/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 10 hours.
experiment encode accession: ENCSR766NHB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR310TYO
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB982ZPE
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:10; duration_units:hour;

value: ENCBS719FNK at ENCODE; https://www.encodeproject.org/ENCBS719FNK/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB364EJR)

description:
https://www.encodeproject.org/experiments/ENCSR537FVU/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR537FVU
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR548SPY
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB364EJR
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: 58 year

value: ENCBS257YLQ at ENCODE; https://www.encodeproject.org/ENCBS257YLQ/


title: ChIP-seq from A549 (ENCLB284KFO)

description:
https://www.encodeproject.org/experiments/ENCSR543ZVZ/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR543ZVZ
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR872BBM
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB284KFO
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Tim Reddy, Duke

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS820MUM at ENCODE; https://www.encodeproject.org/ENCBS820MUM/


title: polyA mRNA RNA-seq from A549 (ENCLB752DGC)

description:
https://www.encodeproject.org/experiments/ENCSR543QRU/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR543QRU
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB752DGC
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: ENCBS514NHD at ENCODE; https://www.encodeproject.org/ENCBS514NHD/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: polyA mRNA RNA-seq from A549 (ENCLB484CRJ)

description:
https://www.encodeproject.org/experiments/ENCSR543QRU/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR543QRU
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB484CRJ
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: immortalized cell line

value: adult

value: ENCBS272CXK at ENCODE; https://www.encodeproject.org/ENCBS272CXK/


title: DNase-seq from A549 (ENCLB366ISW)

description:
https://www.encodeproject.org/experiments/ENCSR599WJC/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR599WJC
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB366ISW
nucleic acid starting quantity: 99
nucleic acid starting quantity units: ng

value: ENCBS473OMG at ENCODE; https://www.encodeproject.org/ENCBS473OMG/


title: ChIP-seq from A549 (ENCLB138SFV)

description:
https://www.encodeproject.org/experiments/ENCSR524UOX/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR524UOX
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB138SFV
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: ENCBS981XNC at ENCODE; https://www.encodeproject.org/ENCBS981XNC/


title: DNase-seq from A549 (ENCLB541JIA)

description:
https://www.encodeproject.org/experiments/ENCSR523FJT/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR523FJT
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB541JIA
nucleic acid starting quantity: 75
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:12; duration_units:hour;

value: ENCBS091SYA at ENCODE; https://www.encodeproject.org/ENCBS091SYA/


title: ChIP-seq from A549 (ENCLB292KAS)

description:
https://www.encodeproject.org/experiments/ENCSR516IVY/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR516IVY
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR838ZAU
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB292KAS
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS235ANB at ENCODE; https://www.encodeproject.org/ENCBS235ANB/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: DNase-seq from A549 (ENCLB153DUS)

description:
https://www.encodeproject.org/experiments/ENCSR523FJT/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR523FJT
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB153DUS
nucleic acid starting quantity: 40
nucleic acid starting quantity units: ng

value: 58 year

value: male

value: ENCBS420ZHM at ENCODE; https://www.encodeproject.org/ENCBS420ZHM/


title: DNase-seq from A549 (ENCLB229HPB)

description:
https://www.encodeproject.org/experiments/ENCSR523FJT/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR523FJT
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB229HPB

value: Tim Reddy, Duke

value: ENCBS097ZMG at ENCODE; https://www.encodeproject.org/ENCBS097ZMG/


title: ChIP-seq from A549 (ENCLB801FPV)

description:
https://www.encodeproject.org/experiments/ENCSR491TAD/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR491TAD
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB801FPV
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Control

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:30; duration_units:minute;

value: ENCBS933OVE at ENCODE; https://www.encodeproject.org/ENCBS933OVE/


title: ChIP-seq from A549 (ENCLB994JAI)

description:
https://www.encodeproject.org/experiments/ENCSR529YKU/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR529YKU
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB994JAI
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: adult

value: ENCBS420GJD at ENCODE; https://www.encodeproject.org/ENCBS420GJD/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: ChIP-seq from A549 (ENCLB588CND)

description:
https://www.encodeproject.org/experiments/ENCSR529YKU/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR529YKU
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB588CND
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS914SLE at ENCODE; https://www.encodeproject.org/ENCBS914SLE/


title: ChIP-seq from A549 (ENCLB521LJV)

description:
https://www.encodeproject.org/experiments/ENCSR543ZVZ/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR543ZVZ
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR872BBM
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB521LJV
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS969VAO at ENCODE; https://www.encodeproject.org/ENCBS969VAO/


title: ChIP-seq from A549 (ENCLB730KLZ)

description:
https://www.encodeproject.org/experiments/ENCSR451MJX/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR451MJX
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB730KLZ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:12; duration_units:hour;

value: ENCBS620YUM at ENCODE; https://www.encodeproject.org/ENCBS620YUM/


title: ChIP-seq from A549 (ENCLB485IMV)

description:
https://www.encodeproject.org/experiments/ENCSR435JKM/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR435JKM
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB485IMV
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: 58 year

value: ENCBS887WFS at ENCODE; https://www.encodeproject.org/ENCBS887WFS/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB712NFB)

description:
https://www.encodeproject.org/experiments/ENCSR451MJX/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR451MJX
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB712NFB
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: Tim Reddy, Duke

value: ENCBS419TTO at ENCODE; https://www.encodeproject.org/ENCBS419TTO/


title: ChIP-seq from A549 (ENCLB607HLL)

description:
https://www.encodeproject.org/experiments/ENCSR462JVS/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR462JVS
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR317VER
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB607HLL
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: ENCBS620TKD at ENCODE; https://www.encodeproject.org/ENCBS620TKD/


title: AcH3 D6

data_processing:
RTA v2.1.3.0 was used for base-calling.
Raw fastaq files were processed using FASTQ groomer v1.0.4 with default setting.
ChIP-seq reads were mapped to the human hg19 genome uging botie2 v2.2.6 with default setting.
Genome_build: hg19
Supplementary_files_format_and_content: Bigwig files were generated using SraTailor software v1.0.0 with default setting.; The y-axis indicates RPM (reads per million) values.

growth_protocol: NT2/D1 cells were cultured in Dulbecco’s modified Eagle’s minimum essential medium (DMEM; Wako) supplemented with 10% (v/v) fetal bovine serum (FBS). For retinoic acid treatment, NT2/D1 cells were treated with 10 μM all trans retinoic acid (RA; Wako)

extract_protocol:
ChIP was performed with ChIP-IT Express Enzymatic kit (Active motif) according to the manufacturer's instructions with some modifications. Briefly, cells were fixed with 1% formaldehyde for 10 min at room temperature. After enzymatic chromatin digestion, we performed sonication (5X30 sec) using the Bioruptor (Diagenode).
ChIP-seq libraries were constructed with NEBNext Ultra DNA Library Prep Kit for Illumina (NEB) according to the manufacturer's instructions

tag: cell type

value: embryonal carcinoma cells

tag: treated with

value: 10 μM all trans retinoic acid for 6 days

tag: chip anibody

value: anti-acetylated histone H3 (06-599; Millipore)


title: ChIP-seq from A549 (ENCLB280PMK)

description:
https://www.encodeproject.org/experiments/ENCSR435JKM/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR435JKM
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB280PMK
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: adult

value: ENCBS886DPW at ENCODE; https://www.encodeproject.org/ENCBS886DPW/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: H3K27me3 D6

value: anti-trimethylated H3K27 (07-449; Upstate)


title: ChIP-seq from A549 (ENCLB284AZK)

description:
https://www.encodeproject.org/experiments/ENCSR435JKM/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR435JKM
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB284AZK
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:12; duration_units:hour;

value: ENCBS598OWL at ENCODE; https://www.encodeproject.org/ENCBS598OWL/


title: H3K27me3 RA-


title: ChIP-seq from A549 (ENCLB610JZP)

description:
https://www.encodeproject.org/experiments/ENCSR428DFL/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR428DFL
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB610JZP
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: 58 year

value: ENCBS616EUG at ENCODE; https://www.encodeproject.org/ENCBS616EUG/


title: ChIP-seq from A549 (ENCLB643IUJ)

description:
https://www.encodeproject.org/experiments/ENCSR451MJX/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR451MJX
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB643IUJ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: ENCBS005TRZ at ENCODE; https://www.encodeproject.org/ENCBS005TRZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB830WNM)

description:
https://www.encodeproject.org/experiments/ENCSR424JOE/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 6 hours.
experiment encode accession: ENCSR424JOE
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR887SZF
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB830WNM
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:6; duration_units:hour;

value: Tim Reddy, Duke

value: ENCBS066ACG at ENCODE; https://www.encodeproject.org/ENCBS066ACG/


title: Input RA-

value: embryonal carcinoma cells


title: DNase-seq from A549 (ENCLB046NLY)

description:
https://www.encodeproject.org/experiments/ENCSR406EMB/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR406EMB
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB046NLY
nucleic acid starting quantity: 252
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:30; duration_units:minute;

value: ENCBS643KEB at ENCODE; https://www.encodeproject.org/ENCBS643KEB/


title: Input D6

value: 10 μM all trans retinoic acid for 6 days


title: tcp14-6_rep3

city: Piracicaba

first: Paulo

last: Teixeira

state: SP

address: Av. Pádua Dias, 11

department: Biology

country: Brazil

institute: University of São Paulo (ESALQ/USP)

data_processing:
Illumina Casava version 1.8 was used for basecalling
Quality assessment of the sequencing reads was performed using the FASTX-Toolkit version 0.0.13.2
cutadapt version 1.3 was used to identify and discard reads containing Illumina adapter sequences
Quality-filtered reads were mapped to the Arabidopsis thaliana TAIR10 genome using Tophat version 2.1.1 with parameters set to allow only one mismatch (-N 1)
The Python package HTSeq version 0.6.1p1 was used to count reads that mapped to each one of the 27,206 nuclear protein-coding genes
Genome_build: TAIR10
Supplementary_files_format_and_content: tab-delimited text file including read counts per gene for each sample

organism: Arabidopsis thaliana

source_name: whole seedlings

growth_protocol: Short day (9h of light at 21°C - 15h of dark at 18°C)

extract_protocol:
Total RNA was extracted from Arabidopsis seedlings using the Qiagen Rneasy Minikit
poly(A) RNA was isolated from 1000 ng total RNA and used to prepare non-stranded Illumina RNA-seq libraries. Following library preparation, quality control and quantification were performed using a 2100 Bioanalyzer instrument (Agilent) and the Quant-iT PicoGreen dsDNA Reagent (Invitrogen), respectively.

treatment_protocol: Steady-state plants

tag: ecotype

tag: genotype

value: 14 days


title: tcp14-7_rep3


title: Col-0 rep3

value: Wild type


title: DNase-seq from A549 (ENCLB571HJC)

description:
https://www.encodeproject.org/experiments/ENCSR406EMB/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR406EMB
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB571HJC
nucleic acid starting quantity: 226
nucleic acid starting quantity units: ng

value: immortalized cell line

value: adult

value: ENCBS609BAO at ENCODE; https://www.encodeproject.org/ENCBS609BAO/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: polyA mRNA RNA-seq from A549 (ENCLB344WNB)

description:
https://www.encodeproject.org/experiments/ENCSR385TFN/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR385TFN
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB344WNB
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: 58 year

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: ENCBS742QNT at ENCODE; https://www.encodeproject.org/ENCBS742QNT/


title: polyA mRNA RNA-seq from A549 (ENCLB804PBN)

description:
https://www.encodeproject.org/experiments/ENCSR385TFN/
***************
biological replicate number: 1
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR385TFN
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB804PBN
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: male

value: ENCBS121YTQ at ENCODE; https://www.encodeproject.org/ENCBS121YTQ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: tcp14-6_rep1


title: ChIP-seq from A549 (ENCLB557VLO)

description:
https://www.encodeproject.org/experiments/ENCSR428DFL/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR428DFL
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB557VLO
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:12; duration_units:hour;

value: Tim Reddy, Duke

value: ENCBS154OIS at ENCODE; https://www.encodeproject.org/ENCBS154OIS/


title: polyA mRNA RNA-seq from A549 (ENCLB551GSL)

description:
https://www.encodeproject.org/experiments/ENCSR385TFN/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR385TFN
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB551GSL
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: ENCBS701ZPZ at ENCODE; https://www.encodeproject.org/ENCBS701ZPZ/


title: ChIP-seq from A549 (ENCLB143SMM)

description:
https://www.encodeproject.org/experiments/ENCSR385RUW/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR385RUW
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR325PXS
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB143SMM
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:3; duration_units:hour;

value: ENCBS555HHK at ENCODE; https://www.encodeproject.org/ENCBS555HHK/


title: DNase-seq from A549 (ENCLB804YIG)

description:
https://www.encodeproject.org/experiments/ENCSR384KCZ/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR384KCZ
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB804YIG
nucleic acid starting quantity: 236
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:1; duration_units:hour; UCSC-ENCODE-cv:DEX_100nM;

value: ENCBS960LFK at ENCODE; https://www.encodeproject.org/ENCBS960LFK/


title: Col-0 rep2

value: Wild type

value: 14 days


title: DNase-seq from A549 (ENCLB736IYZ)

description:
https://www.encodeproject.org/experiments/ENCSR406EMB/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 0.5 hours.
experiment encode accession: ENCSR406EMB
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB736IYZ

value: immortalized cell line

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:30; duration_units:minute;

value: ENCBS444MVA at ENCODE; https://www.encodeproject.org/ENCBS444MVA/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: coi1-16_rep2


title: DNase-seq from A549 (ENCLB045CXE)

description:
https://www.encodeproject.org/experiments/ENCSR384KCZ/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR384KCZ
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB045CXE
nucleic acid starting quantity: 262
nucleic acid starting quantity units: ng

value: 58 year

value: male

value: ENCBS887WBA at ENCODE; https://www.encodeproject.org/ENCBS887WBA/


title: UBQ:TCP14-4_rep1


title: tcp14-7_rep1


title: AcH3 RA-

value: embryonal carcinoma cells

value: anti-acetylated histone H3 (06-599; Millipore)


title: ChIP-seq from A549 (ENCLB384VFY)

description:
https://www.encodeproject.org/experiments/ENCSR354ERB/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR354ERB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR325PXS
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB384VFY
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Tim Reddy, Duke

value: ENCBS724JIH at ENCODE; https://www.encodeproject.org/ENCBS724JIH/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB265AAC)

description:
https://www.encodeproject.org/experiments/ENCSR410BCN/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me2 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 0 hours.
experiment encode accession: ENCSR410BCN
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR838ZAU
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB265AAC
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: ENCBS069CLB at ENCODE; https://www.encodeproject.org/ENCBS069CLB/


title: DNase-seq from A549 (ENCLB551XJI)

description:
https://www.encodeproject.org/experiments/ENCSR384KCZ/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 1 hours.
experiment encode accession: ENCSR384KCZ
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB551XJI

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:1; duration_units:hour; UCSC-ENCODE-cv:DEX_100nM;

value: ENCBS772RGZ at ENCODE; https://www.encodeproject.org/ENCBS772RGZ/


title: UBQ:TCP14-3_rep4

value: 14 days


title: ChIP-seq from A549 (ENCLB471PWH)

description:
https://www.encodeproject.org/experiments/ENCSR350EFV/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR350EFV
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR325PXS
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB471PWH
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:3; duration_units:hour;

value: ENCBS492GFZ at ENCODE; https://www.encodeproject.org/ENCBS492GFZ/


title: tcp14-7_rep2


title: ChIP-seq from A549 (ENCLB706RMT)

description:
https://www.encodeproject.org/experiments/ENCSR354ERB/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR354ERB
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR325PXS
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB706RMT
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: adult

value: ENCBS754LRU at ENCODE; https://www.encodeproject.org/ENCBS754LRU/


title: ChIP-seq from A549 (ENCLB700CQP)

description:
https://www.encodeproject.org/experiments/ENCSR350EFV/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR350EFV
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR325PXS
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB700CQP
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: 58 year

value: ENCBS107VVO at ENCODE; https://www.encodeproject.org/ENCBS107VVO/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: UBQ:TCP14-3_rep3


title: UBQ:TCP14-3_rep2


title: UBQ:TCP14-3_rep1


title: Col-0 rep1

value: Wild type


title: ChIP-seq from A549 (ENCLB494WMP)

description:
https://www.encodeproject.org/experiments/ENCSR404OLV/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me1 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR404OLV
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB494WMP
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS430EPP at ENCODE; https://www.encodeproject.org/ENCBS430EPP/


title: DNase-seq from A549 (ENCLB241GHU)

description:
https://www.encodeproject.org/experiments/ENCSR347CEH/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR347CEH
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB241GHU
nucleic acid starting quantity: 146
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: Tim Reddy, Duke

value: ENCBS121YTQ at ENCODE; https://www.encodeproject.org/ENCBS121YTQ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: Col0_rep4

value: 14 days


title: Col0_rep3


title: Col0_rep1


title: ChIP-seq from A549 (ENCLB410EUC)

description:
https://www.encodeproject.org/experiments/ENCSR344ERJ/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR344ERJ
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB410EUC
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Control

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:2; duration_units:hour;

value: ENCBS488EBW at ENCODE; https://www.encodeproject.org/ENCBS488EBW/


title: Col0_rep2


title: coi1-16_rep1


title: ChIP-seq from A549 (ENCLB761WPE)

description:
https://www.encodeproject.org/experiments/ENCSR340NAL/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 6 hours.
experiment encode accession: ENCSR340NAL
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR887SZF
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB761WPE
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS194QRX at ENCODE; https://www.encodeproject.org/ENCBS194QRX/


title: Col-0_rep3


title: tcp14-6_rep2


title: ChIP-seq from A549 (ENCLB976HXO)

description:
https://www.encodeproject.org/experiments/ENCSR340NAL/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 6 hours.
experiment encode accession: ENCSR340NAL
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR887SZF
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB976HXO
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: 58 year

value: ENCBS306KID at ENCODE; https://www.encodeproject.org/ENCBS306KID/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: polyA mRNA RNA-seq from A549 (ENCLB517NAM)

description:
https://www.encodeproject.org/experiments/ENCSR326PTW/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR326PTW
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB517NAM
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:4; duration_units:hour;

value: male

value: ENCBS167GTR at ENCODE; https://www.encodeproject.org/ENCBS167GTR/


title: Col-0_rep2

value: Wild type


title: 35S::HopBB1_rep3


title: polyA mRNA RNA-seq from A549 (ENCLB529EZQ)

description:
https://www.encodeproject.org/experiments/ENCSR326PTW/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR326PTW
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB529EZQ
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: Tim Reddy, Duke

value: ENCBS700HNY at ENCODE; https://www.encodeproject.org/ENCBS700HNY/


title: 35S::HopBB1_rep2

value: 14 days


title: DNase-seq from A549 (ENCLB348AIJ)

description:
https://www.encodeproject.org/experiments/ENCSR347CEH/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR347CEH
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB348AIJ

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: ENCBS460QXP at ENCODE; https://www.encodeproject.org/ENCBS460QXP/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: DNase-seq from A549 (ENCLB568VBC)

description:
https://www.encodeproject.org/experiments/ENCSR347CEH/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR347CEH
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB568VBC
nucleic acid starting quantity: 40
nucleic acid starting quantity units: ng

value: immortalized cell line

value: ENCBS547WFZ at ENCODE; https://www.encodeproject.org/ENCBS547WFZ/


title: ChIP-seq from A549 (ENCLB444JGB)

description:
https://www.encodeproject.org/experiments/ENCSR325PXS/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR325PXS
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB444JGB
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Control

value: adult

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:3; duration_units:hour;

value: ENCBS735SFW at ENCODE; https://www.encodeproject.org/ENCBS735SFW/


title: ChIP-seq from A549 (ENCLB098FAR)

description:
https://www.encodeproject.org/experiments/ENCSR317VER/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR317VER
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB098FAR
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: 58 year

value: ENCBS646DYP at ENCODE; https://www.encodeproject.org/ENCBS646DYP/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: 35S::HopBB1_rep1


title: Mock_8h_rep2

treatment_protocol: Two-week-old seedlings were sprayed with 50 μM MeJA (Sigma), 300 μM BTH (Actigard 50WG) or a mock solution (0.02% Silwet, 0.1% ethanol). Samples were harvested 1h, 5h and 8h after spraying. This experiment was repeated twice.

tag: treatment

value: Mock

tag: time


title: ChIP-seq from A549 (ENCLB021RPN)

description:
https://www.encodeproject.org/experiments/ENCSR310TYO/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 10 hours.
experiment encode accession: ENCSR310TYO
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB021RPN
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

tag: antibody

tag: line

value: male

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:10; duration_units:hour;

value: ENCBS423AHV at ENCODE; https://www.encodeproject.org/ENCBS423AHV/


title: Mock_5h_rep2

value: 14 days


title: Mock_5h_rep1


title: ChIP-seq from A549 (ENCLB077PVW)

description:
https://www.encodeproject.org/experiments/ENCSR299MNA/
***************
biological replicate number: 3
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR299MNA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB077PVW
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

tag: biosample encode accession

tag: dev stage

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:5; duration_units:hour;

value: Tim Reddy, Duke

value: ENCBS257YHA at ENCODE; https://www.encodeproject.org/ENCBS257YHA/


title: ChIP-seq from A549 (ENCLB560YBN)

description:
https://www.encodeproject.org/experiments/ENCSR299MNA/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 5 hours.
experiment encode accession: ENCSR299MNA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR627RBH
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB560YBN
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

tag: Sex

tag: treatments

value: ENCBS712NKI at ENCODE; https://www.encodeproject.org/ENCBS712NKI/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: DNase-seq from A549 (ENCLB118QQR)

description:
https://www.encodeproject.org/experiments/ENCSR294XUZ/
***************
biological replicate number: 3
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR294XUZ
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB118QQR

value: adult

tag: age

tag: lab

value: ENCBS875AZA at ENCODE; https://www.encodeproject.org/ENCBS875AZA/


title: DNase-seq from A549 (ENCLB997XQZ)

description:
https://www.encodeproject.org/experiments/ENCSR294XUZ/
***************
biological replicate number: 1
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR294XUZ
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB997XQZ
nucleic acid starting quantity: 204
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:3; duration_units:hour;

tag: link

value: ENCBS721JKR at ENCODE; https://www.encodeproject.org/ENCBS721JKR/


title: Mock_1h_rep2


title: Mock_1h_rep1


title: BTH_8h_rep1

value: BTH


title: DNase-seq from A549 (ENCLB030QJR)

description:
https://www.encodeproject.org/experiments/ENCSR294XUZ/
***************
biological replicate number: 2
technical replicate number: 1
description: DNase-seq on A549 cell line treated with 100 nM dexamethasone for 3 hours.
experiment encode accession: ENCSR294XUZ
assay title: DNase-seq
assembly: GRCh38
possible controls: ENCSR136DNA
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB030QJR

value: 58 year

value: ENCBS006TYD at ENCODE; https://www.encodeproject.org/ENCBS006TYD/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: polyA mRNA RNA-seq from A549 (ENCLB808GGW)

description:
https://www.encodeproject.org/experiments/ENCSR326PTW/
***************
biological replicate number: 1
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 4 hours.
experiment encode accession: ENCSR326PTW
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB808GGW
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:4; duration_units:hour;

value: male

value: ENCBS023FRY at ENCODE; https://www.encodeproject.org/ENCBS023FRY/


title: Col-0_rep1

value: Wild type

value: 14 days


title: BTH_5h_rep2


title: ChIP-seq from A549 (ENCLB174JFD)

description:
https://www.encodeproject.org/experiments/ENCSR285FZP/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 7 hours.
experiment encode accession: ENCSR285FZP
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR317VER
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB174JFD
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:7; duration_units:hour;

value: Tim Reddy, Duke

value: ENCBS083TEY at ENCODE; https://www.encodeproject.org/ENCBS083TEY/


title: ChIP-seq from A549 (ENCLB770BBZ)

description:
https://www.encodeproject.org/experiments/ENCSR274VPI/
***************
biological replicate number: 2
technical replicate number: 1
description: Control ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR274VPI
assay title: ChIP-seq
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB770BBZ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: Control

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS260HPC at ENCODE; https://www.encodeproject.org/ENCBS260HPC/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: BTH_5h_rep1

value: BTH


title: polyA mRNA RNA-seq from A549 (ENCLB623GTF)

description:
https://www.encodeproject.org/experiments/ENCSR255VBV/
***************
biological replicate number: 3
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 6 hours.
experiment encode accession: ENCSR255VBV
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB623GTF
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: adult

value: 58 year

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS996NTP at ENCODE; https://www.encodeproject.org/ENCBS996NTP/


title: ChIP-seq from A549 (ENCLB746XGR)

description:
https://www.encodeproject.org/experiments/ENCSR287FWE/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 12 hours.
experiment encode accession: ENCSR287FWE
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR549SVK
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB746XGR
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:12; duration_units:hour;

value: ENCBS952KGJ at ENCODE; https://www.encodeproject.org/ENCBS952KGJ/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: BTH_1h_rep2

value: 14 days


title: MeJA_8h_rep2

value: MeJA


title: MeJA_8h_rep1


title: BTH_1h_rep1


title: polyA mRNA RNA-seq from A549 (ENCLB546OLH)

description:
https://www.encodeproject.org/experiments/ENCSR255VBV/
***************
biological replicate number: 2
technical replicate number: 1
description: mRNA-seq on A549 cell line treated with 100 nM dexamethasone for 6 hours.
experiment encode accession: ENCSR255VBV
assay title: polyA mRNA RNA-seq
assembly: GRCh38
possible controls: ENCSR632DQP
encode release date: 2016-05-05
lab: Tim Reddy, Duke
library encode accession: ENCLB546OLH
size range: >200
spikeins used: /references/ENCSR866KGS/
nucleic acid starting quantity: 1
nucleic acid starting quantity units: µg

value: Tim Reddy, Duke

value: ENCBS109SYJ at ENCODE; https://www.encodeproject.org/ENCBS109SYJ/


title: ChIP-seq from A549 (ENCLB666LUR)

description:
https://www.encodeproject.org/experiments/ENCSR252FZA/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K4me3 ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 2 hours.
experiment encode accession: ENCSR252FZA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR344ERJ
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB666LUR
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: immortalized cell line

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:2; duration_units:hour;

value: ENCBS004LAJ at ENCODE; https://www.encodeproject.org/ENCBS004LAJ/


title: ChIP-seq from A549 (ENCLB573SHG)

description:
https://www.encodeproject.org/experiments/ENCSR250EHC/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR250EHC
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB573SHG
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:8; duration_units:hour;

value: ENCBS398XGZ at ENCODE; https://www.encodeproject.org/ENCBS398XGZ/

value: ENCODE dbxrefs Cellosaurus CVCL_0023; http://web.expasy.org/cellosaurus/CVCL_0023


title: ChIP-seq from A549 (ENCLB175AWZ)

description:
https://www.encodeproject.org/experiments/ENCSR255CTA/
***************
biological replicate number: 2
technical replicate number: 1
description: NR3C1 (GR) ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 10 hours.
experiment encode accession: ENCSR255CTA
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR310TYO
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB175AWZ
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: adult

value: 58 year

value: treatment_term_id:CHEBI:41879; treatment_term_name:dexamethasone; treatment_type:chemical; duration:10; duration_units:hour;

value: ENCBS894DBY at ENCODE; https://www.encodeproject.org/ENCBS894DBY/


title: ChIP-seq from A549 (ENCLB691ZLX)

description:
https://www.encodeproject.org/experiments/ENCSR250EHC/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on A549 cell line treated with 100 nM dexamethasone for 8 hours.
experiment encode accession: ENCSR250EHC
assay title: ChIP-seq
assembly: GRCh38
possible controls: ENCSR274VPI
encode release date: 2016-07-21
lab: Tim Reddy, Duke
library encode accession: ENCLB691ZLX
size range: >200
nucleic acid starting quantity: 7
nucleic acid starting quantity units: ng

value: male

value: ENCBS290TVV at ENCODE; https://www.encodeproject.org/ENCBS290TVV/


title: Mock_8h_rep1

value: Mock


title: MeJA_5h_rep1

value: 14 days