title: Mint-ChIP-seq from B cell (ENCLB884IVJ)

description:
https://www.encodeproject.org/experiments/ENCSR735AKW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR735AKW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR051DHR
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB884IVJ

source_name: Homo sapiens male adult (22 years) B primary cell

value: B cell

value: primary cell

value: male

value: adult

value: 22 year

value: Yijun Ruan, JAX

value: AllCells

value: ENCBS852RUN at ENCODE; https://www.encodeproject.org/ENCBS852RUN/

value: Derived from ENCODE donor ENCDO383AQS; https://www.encodeproject.org/ENCDO383AQS/


status: Public on Jul 22 2022

type: RNA

city: Juelich

first: Tino

last: Polen

state: NRW

address: Wilhelm-Johnen-Str 1

department: IBG-1: Biotechnology

country: Germany

institute: Forschungszentrum Jülich GmbH

description:
MB001(DE3) (200 µg kasugamycin, 10 min) vs. MB001(DE3)-rep5
Biological replicate 5 of 6
original platform:
GPL28615

hyb_protocol: Gene expression changes were compared using self-made PCR-product based DNA microarrays (Lange et al. 2003), custom-made DNA microarrays with 70-mer oligonucleotides obtained from Operon Biotechnologies (Cologne, Germany) or custom-made 4x44K 60mer DNA microarrays from Agilent Technologies (Waldbronn, Germany). Hybridization of mixtures of Cy3- and Cy5-labelled cDNA on the arrays and washing of the arrays were performed as described by Frunzke et al. 2008, Polen & Wendisch 2003, and Vogt et al. 2014.

scan_protocol: The fluorescence of DNA microarrays was determined at 532 nm (Cy2-dUTP) and 635 nm (Cy5-dUTP) at 5 or 10 µm resolution with a GenePix 4000B laser scanner and GenePix Pro Software (Molecular Devices, Sunnyvale, USA).

data_processing:
The raw results were saved as GPR-files and processed and normalized using the BioConductor R packages limma and marray (http://www.bioconductor.org). For further analysis, loess-normalized data were saved in the in-house DNA microarray database (Polen et al. 2004) including detailed information about each experiment following MIAME standards (Brazma et al. 2009). Normalized ratios of medians reflecting the relative mRNA level were filtered for a signal-to-noise ratio ((F635Median/B635Median) or (F532Median/B532Median)) higher than 3. Statistical analysis for calculation of p-values was performed with a paired Student´s t-test comparing relative RNA levels for a gene to the relative RNA levels of all other genes in the replicates.
All listed GAL files are included in a tar archive on the SERIES record. The 'ID' field of the GAL files includes the Biomax IDs. A supplementary file provides the CG IDs for the Biomax IDs.

molecule: total RNA

organism: Corynebacterium glutamicum

source_name: MB001(DE3) (200 µg kasugamycin, 10 min)

label_protocol: Equal amounts of RNA (15-30 µg) were used for random hexamer primed synthesis of fluorescently labelled cDNA using the nucleotide analogous Cy3-dUTP or Cy5-dUTP (GE Healthcare, Eindhoven, Netherlands).

extract_protocol: Total RNA was isolated using the RNeasy Kit (Qiagen, Hilden, Germany) or as described by Wendisch et al. 2001.

tag: genotype

tag: condition

value: MB001(DE3) harvested during exponential growth phase 10 min after addition of 200 µg kasugamycin, CGXII glucose, date of experiment:2018-09

value: MB001(DE3) harvested during exponential growth phase, CGXII glucose, date of experiment:2018-09


title: Mint-ChIP-seq from B cell (ENCLB830MPA)

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/ENCSR735AKW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR735AKW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR051DHR
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB830MPA

library_source: genomic

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

molecule: genomic DNA

organism: Homo sapiens

tag: antibody

tag: biosample encode accession

tag: Sex

tag: dev stage

tag: age

tag: lab

tag: source

tag: link


description:
MB001(DE3) (200 µg kasugamycin, 10 min) vs. MB001(DE3)-rep3
Biological replicate 3 of 6
original platform:
GPL28615


title: Control Mint-ChIP-seq from IgD-negative memory B cell (ENCLB866BTR)

description:
https://www.encodeproject.org/experiments/ENCSR737MLQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR737MLQ
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB866BTR

source_name: Homo sapiens IgD-negative memory B primary cell, preserved by cryopreservation

value: IgD-negative memory B cell

tag: description

value: B memory CD3- CD14- CD19+ CD27+ IgD-

value: not collected

tag: health state

value: healthy

value: unknown

value: Bradley Bernstein, Broad

value: David Hafler

value: ENCBS793OUV at ENCODE; https://www.encodeproject.org/ENCBS793OUV/

value: Derived from ENCODE donor ENCDO976NED; https://www.encodeproject.org/ENCDO976NED/


description:
MB001(DE3) (200 µg kasugamycin, 10 min) vs. MB001(DE3)-rep4
Biological replicate 4 of 6
original platform:
GPL28615


description:
MB001(DE3) (200 µg kasugamycin, 10 min) vs. MB001(DE3)-rep2
Biological replicate 2 of 6
original platform:
GPL28615


title: Mint-ChIP-seq from stimulated activated naive B cell (ENCLB742RGG)

description:
https://www.encodeproject.org/experiments/ENCSR952GCZ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR952GCZ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR390KLC
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB742RGG

source_name: Homo sapiens male adult (40 years) stimulated activated naive B primary cell treated with 1ug/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10ug/mL anti-IgM for 72 hours

value: stimulated activated naive B cell

value: primary cell

value: 40 year

value: male

value: adult

value: John Stamatoyannopoulos

tag: treatments

value: treatment_term_name:anti-CD40; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-IgM; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius;

value: ENCBS304VHM at ENCODE; https://www.encodeproject.org/ENCBS304VHM/

value: Derived from ENCODE donor ENCDO512FEI; https://www.encodeproject.org/ENCDO512FEI/


title: Mint-ChIP-seq from stimulated activated naive B cell (ENCLB139MFL)

description:
https://www.encodeproject.org/experiments/ENCSR952GCZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR952GCZ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR390KLC
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB139MFL


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB390MXF)

description:
https://www.encodeproject.org/experiments/ENCSR555TTA/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 Mint-ChIP-seq on human naive thymus-derived CD8-positive, alpha-beta T cell
experiment encode accession: ENCSR555TTA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR371GOJ
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB390MXF
fragmentation methods: none

source_name: Homo sapiens naive thymus-derived CD8-positive, alpha-beta T primary cell, preserved by cryopreservation

value: CD8+ naive CD3+ CD4- CD8+ CD45RA+ CD45RO-

value: ENCBS044FCF at ENCODE; https://www.encodeproject.org/ENCBS044FCF/


description:
MB001(DE3) (200 µg kasugamycin, 10 min) vs. MB001(DE3)-rep1
Biological replicate 1 of 6
original platform:
GPL28615

value: MB001(DE3) harvested during exponential growth phase 10 min after addition of 200 µg kasugamycin, CGXII glucose, date of experiment:2018-09

value: MB001(DE3) harvested during exponential growth phase, CGXII glucose, date of experiment:2018-09


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB244WPQ)

description:
https://www.encodeproject.org/experiments/ENCSR555OIX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR555OIX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR528KGH
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB244WPQ

source_name: Homo sapiens male adult (42 years) regulatory T primary cell

value: 42 year

value: Bradley Bernstein, Broad

value: ENCBS164RWQ at ENCODE; https://www.encodeproject.org/ENCBS164RWQ/

value: Derived from ENCODE donor ENCDO833KUM; https://www.encodeproject.org/ENCDO833KUM/


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB859QMX)

description:
https://www.encodeproject.org/experiments/ENCSR555TTA/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 Mint-ChIP-seq on human naive thymus-derived CD8-positive, alpha-beta T cell
experiment encode accession: ENCSR555TTA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR371GOJ
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB859QMX
fragmentation methods: none

value: not collected

value: healthy

value: unknown

value: David Hafler

value: Derived from ENCODE donor ENCDO976NED; https://www.encodeproject.org/ENCDO976NED/


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB505TZJ)

description:
https://www.encodeproject.org/experiments/ENCSR555OIX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR555OIX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR528KGH
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB505TZJ

value: primary cell

value: male

value: adult

value: John Stamatoyannopoulos


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB374OVI)

description:
https://www.encodeproject.org/experiments/ENCSR950ICX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR950ICX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR212ZBB
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB374OVI

source_name: Homo sapiens male adult (50 years) naive thymus-derived CD4-positive, alpha-beta T primary cell

value: 50 year

value: ENCBS552ZBM at ENCODE; https://www.encodeproject.org/ENCBS552ZBM/

value: Derived from ENCODE donor ENCDO641WTL; https://www.encodeproject.org/ENCDO641WTL/


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB069KXT)

description:
https://www.encodeproject.org/experiments/ENCSR950ICX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR950ICX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR212ZBB
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB069KXT


description:
WT pJC1-6C (0.75 µM mitomycin C) vs. WT pJC1 (0.75 µM mitomycin C)-rep1
Biological replicate 1 of 3
original platform:
GPL22792

source_name: WT pJC1-6C (0.75 µM mitomycin C)

value: wild type + overexpression

value: WT pJC1-6C harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-08/2012-11

source_name: WT pJC1 (0.75 µM mitomycin C)

value: wild type + control

value: WT pJC1 harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-08/2012-11


title: WT pJC1-6C vs. WT pJC1-rep2

description:
WT pJC1-6C vs. WT pJC1-rep2
Biological replicate 2 of 2
original platform:
GPL22792

source_name: WT pJC1-6C

value: WT pJC1-6C harvested during exponential growth phase, CGXII glucose, date of experiment:2012-11

source_name: WT pJC1

value: WT pJC1 harvested during exponential growth phase, CGXII glucose, date of experiment:2012-11


description:
WT pJC1-6C (0.75 µM mitomycin C) vs. WT pJC1 (0.75 µM mitomycin C)-rep2
Biological replicate 2 of 3
original platform:
GPL22792


title: Histone ChIP-seq from right lobe of liver (ENCLB821LIY)

description:
https://www.encodeproject.org/experiments/ENCSR554XXQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR554XXQ
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR683VJG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB821LIY
size range: 200-600

source_name: Homo sapiens female child (16 years) right lobe of liver tissue

value: right lobe of liver

value: tissue

value: 16 year

value: female

value: DM:no; HTN:no; CAD:no

value: child

value: Bradley Bernstein, Broad

value: Shin Lin

value: ENCBS374JJR at ENCODE; https://www.encodeproject.org/ENCBS374JJR/

value: Derived from ENCODE donor ENCDO575EGL; https://www.encodeproject.org/ENCDO575EGL/


description:
WT pJC1-6C (stationary phase) vs. WT pJC1 (stationary phase)-rep2
Biological replicate 2 of 2
original platform:
GPL22792

source_name: WT pJC1-6C (stationary phase)

value: WT pJC1-6C harvested during stationary growth phase, CGXII glucose, date of experiment:2012-08/2012-11

source_name: WT pJC1 (stationary phase)

value: WT pJC1 harvested during stationary growth phase, CGXII glucose, date of experiment:2012-08/2012-11


title: Control ChIP-seq from natural killer cell (ENCLB738FAB)

description:
https://www.encodeproject.org/experiments/ENCSR731SZG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR731SZG
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB738FAB
size range: 200-600

source_name: Homo sapiens male adult (33 years) natural killer primary cell

value: natural killer cell

value: primary cell

value: 33 year

value: male

value: adult

value: Charles Lee

value: ENCBS358EEP at ENCODE; https://www.encodeproject.org/ENCBS358EEP/

value: Derived from ENCODE donor ENCDO195VEA; https://www.encodeproject.org/ENCDO195VEA/


title: Histone ChIP-seq from right lobe of liver (ENCLB789LDK)

description:
https://www.encodeproject.org/experiments/ENCSR731AIB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR731AIB
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR886ATT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB789LDK
size range: 200-600

source_name: Homo sapiens female adult (47 years) right lobe of liver tissue

value: right lobe of liver

value: tissue

value: 47 year

value: female

value: DM:no; HTN:yes; CAD:no

value: ENCBS025MJZ at ENCODE; https://www.encodeproject.org/ENCBS025MJZ/

value: Derived from ENCODE donor ENCDO912EIY; https://www.encodeproject.org/ENCDO912EIY/


title: ∆6C::6C vs. WT-rep2

description:
∆6C::6C vs. WT-rep2
Biological replicate 2 of 2
original platform:
GPL15451

value: deletion mutant + genomic integration

value: delta_6C::6C harvested during exponential growth phase, CGXII glucose, date of experiment:2011-02/2012-03

source_name: WT

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2011-02/2012-03


description:
∆6C (0.75 µM mitomycin C) vs. WT (0.75 µM mitomycin C)-rep3
Biological replicate 3 of 4
original platform:
GPL16988

source_name: ∆6C (0.75 µM mitomycin C)

value: deletion mutant

value: delta_6C harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-06/2012-07/2012-08

source_name: WT (0.75 µM mitomycin C)

value: WT harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-06/2012-07/2012-08


title: Histone ChIP-seq from right lobe of liver (ENCLB333ZZD)

description:
https://www.encodeproject.org/experiments/ENCSR554XXQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR554XXQ
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR683VJG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB333ZZD
size range: 200-600

value: 16 year

value: DM:no; HTN:no; CAD:no

value: child

value: Bradley Bernstein, Broad

value: Shin Lin

value: ENCBS374JJR at ENCODE; https://www.encodeproject.org/ENCBS374JJR/

value: Derived from ENCODE donor ENCDO575EGL; https://www.encodeproject.org/ENCDO575EGL/


description:
WT pJC1-6C (0.75 µM mitomycin C) vs. WT pJC1 (0.75 µM mitomycin C)-rep3
Biological replicate 3 of 3
original platform:
GPL22792

value: wild type + overexpression

value: WT pJC1-6C harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-08/2012-11

value: wild type + control

value: WT pJC1 harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-08/2012-11


description:
∆6C (0.75 µM mitomycin C) vs. WT (0.75 µM mitomycin C)-rep4
Biological replicate 4 of 4
original platform:
GPL16988


title: Control ChIP-seq from natural killer cell (ENCLB604KNV)

description:
https://www.encodeproject.org/experiments/ENCSR731SZG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR731SZG
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB604KNV
size range: 200-600

value: natural killer cell

value: primary cell

value: 33 year

value: male

value: adult

value: Charles Lee

value: ENCBS358EEP at ENCODE; https://www.encodeproject.org/ENCBS358EEP/

value: Derived from ENCODE donor ENCDO195VEA; https://www.encodeproject.org/ENCDO195VEA/


title: ∆6C::6C vs. WT-rep1

description:
∆6C::6C vs. WT-rep1
Biological replicate 1 of 2
original platform:
GPL15451

value: deletion mutant + genomic integration

value: delta_6C::6C harvested during exponential growth phase, CGXII glucose, date of experiment:2011-02/2012-03

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2011-02/2012-03


title: Histone ChIP-seq from right lobe of liver (ENCLB536RVP)

description:
https://www.encodeproject.org/experiments/ENCSR731AIB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR731AIB
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR886ATT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB536RVP
size range: 200-600

value: right lobe of liver

value: tissue

value: 47 year

value: female

value: DM:no; HTN:yes; CAD:no

value: Bradley Bernstein, Broad

value: Shin Lin

value: ENCBS025MJZ at ENCODE; https://www.encodeproject.org/ENCBS025MJZ/

value: Derived from ENCODE donor ENCDO912EIY; https://www.encodeproject.org/ENCDO912EIY/


description:
∆6C (0.75 µM mitomycin C) vs. WT (0.75 µM mitomycin C)-rep2
Biological replicate 2 of 4
original platform:
GPL16988

value: deletion mutant

value: delta_6C harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-06/2012-07/2012-08

value: WT harvested during exponential growth phase, CGXII glucose 0.75 µM mitomycin C, date of experiment:2012-06/2012-07/2012-08


title: WT pJC1-6C vs. WT pJC1-rep1

description:
WT pJC1-6C vs. WT pJC1-rep1
Biological replicate 1 of 2
original platform:
GPL22792

value: wild type + overexpression

value: WT pJC1-6C harvested during exponential growth phase, CGXII glucose, date of experiment:2012-11

value: wild type + control

value: WT pJC1 harvested during exponential growth phase, CGXII glucose, date of experiment:2012-11


description:
∆6C (0.75 µM mitomycin C) vs. WT (0.75 µM mitomycin C)-rep1
Biological replicate 1 of 4
original platform:
GPL16988

value: wild type


title: ∆6C (LB) vs. WT (LB)-rep2

description:
∆6C (LB) vs. WT (LB)-rep2
Biological replicate 2 of 2
original platform:
GPL15451

source_name: ∆6C (LB)

value: delta_6C harvested during stationary growth phase, LB, date of experiment:2010-07/2011-07

source_name: WT (LB)

value: WT harvested during stationary growth phase, LB, date of experiment:2010-07/2011-07


description:
WT pJC1-6C (stationary phase) vs. WT pJC1 (stationary phase)-rep1
Biological replicate 1 of 2
original platform:
GPL22792

value: WT pJC1-6C harvested during stationary growth phase, CGXII glucose, date of experiment:2012-08/2012-11

value: WT pJC1 harvested during stationary growth phase, CGXII glucose, date of experiment:2012-08/2012-11


title: Mint-ChIP-seq from natural killer cell (ENCLB532VHQ)

description:
https://www.encodeproject.org/experiments/ENCSR553UVG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR553UVG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR294RLP
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB532VHQ

source_name: Homo sapiens female adult (41 years) natural killer primary cell

value: natural killer cell

value: primary cell

value: 41 year

value: female

value: adult

value: John Stamatoyannopoulos

value: ENCBS543UGM at ENCODE; https://www.encodeproject.org/ENCBS543UGM/

value: Derived from ENCODE donor ENCDO911LCI; https://www.encodeproject.org/ENCDO911LCI/


title: ∆6C (LB) vs. WT (LB)-rep1

description:
∆6C (LB) vs. WT (LB)-rep1
Biological replicate 1 of 2
original platform:
GPL15451

value: deletion mutant


description:
∆6C (stationary phase) vs. WT (stationary phase)-rep2
Biological replicate 2 of 2
original platform:
GPL15451

source_name: ∆6C (stationary phase)

value: delta_6C harvested during stationary growth phase, CGXII glucose, date of experiment:2010-07

source_name: WT (stationary phase)

value: WT harvested during stationary growth phase, CGXII glucose, date of experiment:2010-07


title: Mint-ChIP-seq from HCT116 (ENCLB053KBW)

description:
https://www.encodeproject.org/experiments/ENCSR728KQX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR728KQX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR898CSY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB053KBW

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens POLR2A treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

tag: line

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Bradley Bernstein, Broad

value: Erez Aiden

value: treatment_term_name:5-Phenyl-1H-indole-3-acetic acid; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS929EFP at ENCODE; https://www.encodeproject.org/ENCBS929EFP/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: Mint-ChIP-seq from HCT116 (ENCLB675PMJ)

description:
https://www.encodeproject.org/experiments/ENCSR356EWB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR356EWB
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR846UXS
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB675PMJ

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens RAD21 treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

value: ENCBS720OOT at ENCODE; https://www.encodeproject.org/ENCBS720OOT/


title: Mint-ChIP-seq from HCT116 (ENCLB759DMX)

description:
https://www.encodeproject.org/experiments/ENCSR728KQX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR728KQX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR898CSY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB759DMX

value: adult


description:
∆6C (stationary phase) vs. WT (stationary phase)-rep1
Biological replicate 1 of 2
original platform:
GPL15451

value: wild type


title: Mint-ChIP-seq from HCT116 (ENCLB179AHS)

description:
https://www.encodeproject.org/experiments/ENCSR356EWB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR356EWB
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR846UXS
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB179AHS


title: Control Mint-ChIP-seq from MCF 10A (ENCLB466ALH)

description:
https://www.encodeproject.org/experiments/ENCSR550WPO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR550WPO
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-04-26
lab: Bradley Bernstein, Broad
library encode accession: ENCLB466ALH

source_name: Homo sapiens MCF 10A cell line

value: MCF 10A

value: 36 year

value: female

value: fibrocystic disease

value: Mats Ljungman

value: ENCBS654ZDZ at ENCODE; https://www.encodeproject.org/ENCBS654ZDZ/

value: Derived from ENCODE donor ENCDO000AAP; https://www.encodeproject.org/ENCDO000AAP/


description:
∆6C (CGXII, 4% glucose) vs. WT (CGXII, 4% glucose) GPL15451-rep1
Biological replicate 1 of 3
original platform:
GPL15451

source_name: ∆6C (CGXII, 4% glucose)

value: deletion mutant

value: delta_6C harvested during exponential growth phase, CGXII glucose, date of experiment:2010-06/2010-07

source_name: WT (CGXII, 4% glucose) GPL15451

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2010-06/2010-07


description:
∆6C (CGXII, 4% glucose) vs. WT (CGXII, 4% glucose) GPL15451-rep2
Biological replicate 2 of 3
original platform:
GPL15451


description:
∆6C (CGXII, 4% glucose) vs. WT (CGXII, 4% glucose) Agilent-Oligo-rep2
Biological replicate 2 of 2
original platform:
GPL22792

value: delta_6C harvested during exponential growth phase, CGXII glucose, date of experiment:2014-04

source_name: WT (CGXII, 4% glucose) Agilent-Oligo

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2014-04


title: Mint-ChIP-seq from natural killer cell (ENCLB762BVQ)

description:
https://www.encodeproject.org/experiments/ENCSR553UVG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR553UVG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR294RLP
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB762BVQ

value: natural killer cell

value: primary cell

value: 41 year

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: ENCBS543UGM at ENCODE; https://www.encodeproject.org/ENCBS543UGM/

value: Derived from ENCODE donor ENCDO911LCI; https://www.encodeproject.org/ENCDO911LCI/


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB069ZYV)

description:
https://www.encodeproject.org/experiments/ENCSR549RQM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR549RQM
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR663BWX
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB069ZYV

source_name: Homo sapiens male adult (48 years) activated naive CD4-positive, alpha-beta T primary cell treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours

value: 48 year

value: male

value: adult

value: treatment_term_id:UniProtKB:P60568; treatment_term_name:Interleukin-2; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour;

value: ENCBS319ZAQ at ENCODE; https://www.encodeproject.org/ENCBS319ZAQ/

value: Derived from ENCODE donor ENCDO662KZD; https://www.encodeproject.org/ENCDO662KZD/


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB266OXZ)

description:
https://www.encodeproject.org/experiments/ENCSR549RQM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR549RQM
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR663BWX
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB266OXZ


title: Control ChIP-seq from upper lobe of right lung (ENCLB282LRG)

description:
https://www.encodeproject.org/experiments/ENCSR750BQT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR750BQT
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB282LRG
size range: 200-600

source_name: Homo sapiens male adult (60 years) upper lobe of right lung tissue

value: upper lobe of right lung

value: tissue

value: 60 year

value: DM:no; HTN:yes; CAD:no; lungs with severe emphysema

value: Shin Lin

value: ENCBS339XRG at ENCODE; https://www.encodeproject.org/ENCBS339XRG/

value: Derived from ENCODE donor ENCDO520EJG; https://www.encodeproject.org/ENCDO520EJG/


title: Control Mint-ChIP-seq from MCF 10A (ENCLB861SVX)

description:
https://www.encodeproject.org/experiments/ENCSR550WPO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR550WPO
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-04-26
lab: Bradley Bernstein, Broad
library encode accession: ENCLB861SVX

value: MCF 10A

value: cell line

value: 36 year

value: female

value: fibrocystic disease

value: Bradley Bernstein, Broad

value: Mats Ljungman

value: ENCBS654ZDZ at ENCODE; https://www.encodeproject.org/ENCBS654ZDZ/

value: Derived from ENCODE donor ENCDO000AAP; https://www.encodeproject.org/ENCDO000AAP/


description:
∆6C (CGXII, 4% glucose) vs. WT (CGXII, 4% glucose) Agilent-Oligo-rep1
Biological replicate 1 of 2
original platform:
GPL22792

value: deletion mutant

value: delta_6C harvested during exponential growth phase, CGXII glucose, date of experiment:2014-04

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2014-04


title: ∆malR vs. WT-rep2

description:
∆malR vs. WT-rep2
Biological replicate 2 of 3
original platform:
GPL22561

source_name: ∆malR

value: delta_malR harvested during exponential growth phase, CGXII glucose, date of experiment:2017-04/2017-05

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2017-04/2017-05


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB168XJS)

description:
https://www.encodeproject.org/experiments/ENCSR724NEI/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR724NEI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR404OWA
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB168XJS

source_name: Homo sapiens male adult (38 years) naive thymus-derived CD4-positive, alpha-beta T primary cell

value: primary cell

value: 38 year

value: male

value: adult

value: John Stamatoyannopoulos

value: ENCBS995TBT at ENCODE; https://www.encodeproject.org/ENCBS995TBT/

value: Derived from ENCODE donor ENCDO923WRX; https://www.encodeproject.org/ENCDO923WRX/


title: ∆malR vs. WT-rep3

description:
∆malR vs. WT-rep3
Biological replicate 3 of 3
original platform:
GPL22561

source_name: WT


title: ∆lcpB vs. WT-rep3

description:
∆lcpB vs. WT-rep3
Biological replicate 3 of 4
original platform:
GPL22792

source_name: ∆lcpB

value: delta_lcpB harvested during exponential growth phase, CGXII glucose, date of experiment:2013-10/2013-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2013-10/2013-11


title: ∆malR vs. WT-rep1

description:
∆malR vs. WT-rep1
Biological replicate 1 of 3
original platform:
GPL22561


title: ∆lcpB vs. WT-rep2

description:
∆lcpB vs. WT-rep2
Biological replicate 2 of 4
original platform:
GPL22792


title: ∆lcpB vs. WT-rep4

description:
∆lcpB vs. WT-rep4
Biological replicate 4 of 4
original platform:
GPL22792


title: Mint-ChIP-seq from activated naive CD8-positive, alpha-beta T cell (ENCLB291LUU)

description:
https://www.encodeproject.org/experiments/ENCSR354FVG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR354FVG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR803FCO
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB291LUU

source_name: Homo sapiens male adult (30 years) activated CD8-positive, naive alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads

value: 30 year

value: Yijun Ruan, JAX

value: AllCells

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody;

value: ENCBS777LNY at ENCODE; https://www.encodeproject.org/ENCBS777LNY/

value: Derived from ENCODE donor ENCDO166AGR; https://www.encodeproject.org/ENCDO166AGR/


description:
∆glnX (K23-1, 100 mM glutamine) vs. WT (100 mM glutamine)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: ∆glnX (K23-1, 100 mM glutamine)

value: deletion mutant

value: delta_glnX harvested during exponential growth phase, CGXII 100 mM glutamine, date of experiment:2010-09/2011-02

source_name: WT (100 mM glutamine)

value: wild type

value: WT harvested during exponential growth phase, CGXII 100 mM glutamine, date of experiment:2010-09/2011-02


title: ∆lcpB vs. WT-rep1

description:
∆lcpB vs. WT-rep1
Biological replicate 1 of 4
original platform:
GPL22792


title: Mint-ChIP-seq from activated naive CD8-positive, alpha-beta T cell (ENCLB261AIG)

description:
https://www.encodeproject.org/experiments/ENCSR354FVG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR354FVG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR803FCO
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB261AIG

value: primary cell

value: male


title: Mint-ChIP-seq from stimulated activated effector memory CD8-positive, alpha-beta T cell (ENCLB325RYM)

description:
https://www.encodeproject.org/experiments/ENCSR948CRE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR948CRE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR368JDN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB325RYM

source_name: Homo sapiens male adult (33 years) stimulated activated effector memory CD8-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-1...

value: 33 year

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29460; treatment_term_name:Interleukin-12 subunit beta; treatment_type:protein; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29459; treatment_term_name:Interleukin-12 subunit alpha; treatment_type:protein; duration:72; duration_units:hour;

value: ENCBS523QRO at ENCODE; https://www.encodeproject.org/ENCBS523QRO/

value: Derived from ENCODE donor ENCDO830ROH; https://www.encodeproject.org/ENCDO830ROH/


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB448KPO)

description:
https://www.encodeproject.org/experiments/ENCSR724NEI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR724NEI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR404OWA
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB448KPO

value: 38 year

value: ENCBS995TBT at ENCODE; https://www.encodeproject.org/ENCBS995TBT/

value: Derived from ENCODE donor ENCDO923WRX; https://www.encodeproject.org/ENCDO923WRX/


description:
∆6C (CGXII, 4% glucose) vs. WT (CGXII, 4% glucose) GPL15451-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: delta_6C harvested during exponential growth phase, CGXII glucose, date of experiment:2010-06/2010-07

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2010-06/2010-07


title: Mint-ChIP-seq from stimulated activated effector memory CD8-positive, alpha-beta T cell (ENCLB134FVT)

description:
https://www.encodeproject.org/experiments/ENCSR948CRE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR948CRE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR368JDN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB134FVT


title: Mint-ChIP-seq from T-helper 2 cell (ENCLB697SHD)

description:
https://www.encodeproject.org/experiments/ENCSR141CRA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR141CRA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR635PGB
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB697SHD

source_name: Homo sapiens male adult (35 years) T-helper 2 primary cell treated with 5 ug/mL Interferon-gamma antibody , 100 ng/mL Interleukin-4

value: T-helper 2 cell

value: 35 year

value: Yijun Ruan, JAX

value: AllCells

value: treatment_term_name:Interferon-gamma antibody; treatment_type:antibody; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein;

value: ENCBS965HLC at ENCODE; https://www.encodeproject.org/ENCBS965HLC/

value: Derived from ENCODE donor ENCDO374BBL; https://www.encodeproject.org/ENCDO374BBL/


title: Mint-ChIP-seq from natural killer cell (ENCLB053DHM)

description:
https://www.encodeproject.org/experiments/ENCSR139UDI/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR139UDI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR457FTM
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB053DHM

source_name: Homo sapiens male adult (33 years) natural killer primary cell

value: natural killer cell

value: primary cell

value: 33 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: Charles Lee

value: ENCBS358EEP at ENCODE; https://www.encodeproject.org/ENCBS358EEP/

value: Derived from ENCODE donor ENCDO195VEA; https://www.encodeproject.org/ENCDO195VEA/


description:
∆glnX (K23-1, 100 mM glutamine) vs. WT (100 mM glutamine)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: deletion mutant

value: delta_glnX harvested during exponential growth phase, CGXII 100 mM glutamine, date of experiment:2010-09/2011-02

value: wild type

value: WT harvested during exponential growth phase, CGXII 100 mM glutamine, date of experiment:2010-09/2011-02


description:
∆glnX (K23-1, 100 mM glutamine) vs. WT (100 mM glutamine)-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from T-helper 2 cell (ENCLB811KSA)

description:
https://www.encodeproject.org/experiments/ENCSR141CRA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR141CRA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR635PGB
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB811KSA

value: T-helper 2 cell

value: 35 year

value: Yijun Ruan, JAX

value: AllCells


title: Mint-ChIP-seq from H9 (ENCLB391INF)

description:
https://www.encodeproject.org/experiments/ENCSR723DSG/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 Mint-ChIP-seq on human H9
experiment encode accession: ENCSR723DSG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR931GAK
encode release date: 2021-11-18
lab: Bradley Bernstein, Broad
library encode accession: ENCLB391INF
fragmentation methods: none

source_name: Homo sapiens H9 cell line originated from H9

value: cell line

value: WA09 ES cells

value: female

value: healthy

value: embryonic

value: 5 day

value: SESCC

value: ENCBS713BMM at ENCODE; https://www.encodeproject.org/ENCBS713BMM/

value: Derived from ENCODE donor ENCDO222AAA; https://www.encodeproject.org/ENCDO222AAA/


description:
∆glnX (K23-1, 4% glucose) vs. WT (4% glucose)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: ∆glnX (K23-1, 4% glucose)

value: deletion mutant

value: delta_glnX harvested during exponential growth phase, CGXII glucose, date of experiment:2010-07/2010-12

source_name: WT (4% glucose)

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2010-07/2010-12


title: Mint-ChIP-seq from H9 (ENCLB664QGL)

description:
https://www.encodeproject.org/experiments/ENCSR723DSG/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K36me3 Mint-ChIP-seq on human H9
experiment encode accession: ENCSR723DSG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR931GAK
encode release date: 2021-11-18
lab: Bradley Bernstein, Broad
library encode accession: ENCLB664QGL
fragmentation methods: none

value: Bradley Bernstein, Broad

value: ENCBS654ADT at ENCODE; https://www.encodeproject.org/ENCBS654ADT/


title: Mint-ChIP-seq from natural killer cell (ENCLB948SBE)

description:
https://www.encodeproject.org/experiments/ENCSR139UDI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR139UDI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR457FTM
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB948SBE

value: natural killer cell

value: primary cell

value: 33 year

value: male

value: adult

value: Charles Lee

value: ENCBS358EEP at ENCODE; https://www.encodeproject.org/ENCBS358EEP/

value: Derived from ENCODE donor ENCDO195VEA; https://www.encodeproject.org/ENCDO195VEA/


title: Mint-ChIP-seq from H9 (ENCLB841QRU)

description:
https://www.encodeproject.org/experiments/ENCSR723DSG/
***************
biological replicate number: 2
technical replicate number: 2
description: H3K36me3 Mint-ChIP-seq on human H9
experiment encode accession: ENCSR723DSG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR931GAK
encode release date: 2021-11-18
lab: Bradley Bernstein, Broad
library encode accession: ENCLB841QRU
fragmentation methods: none

value: cell line

value: WA09 ES cells

value: female

value: healthy

value: embryonic

value: 5 day


title: Mint-ChIP-seq from H9 (ENCLB758TWP)

description:
https://www.encodeproject.org/experiments/ENCSR723DSG/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K36me3 Mint-ChIP-seq on human H9
experiment encode accession: ENCSR723DSG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR931GAK
encode release date: 2021-11-18
lab: Bradley Bernstein, Broad
library encode accession: ENCLB758TWP
fragmentation methods: none

value: SESCC

value: Derived from ENCODE donor ENCDO222AAA; https://www.encodeproject.org/ENCDO222AAA/


description:
∆glnX (K23-1, 4% glucose) vs. WT (4% glucose)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: deletion mutant

value: delta_glnX harvested during exponential growth phase, CGXII glucose, date of experiment:2010-07/2010-12

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2010-07/2010-12


description:
∆cgtSR5 ∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: ∆cgtSR5 ∆copSR (20 µM CuSO4)

value: delta_cgtSR5 delta_copSR harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2008-01/2008-11

source_name: WT (20 uM CuSO4)

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2008-01/2008-11


description:
∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep5
Biological replicate 5 of 5
original platform:
GPL15451

source_name: ∆copSR (20 µM CuSO4)

value: delta_copSR harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510


title: Histone ChIP-seq from middle frontal area 46 (ENCLB301MMQ)

description:
https://www.encodeproject.org/experiments/ENCSR138TQF/
***************
biological replicate number: 2
technical replicate number: 2
description: H3K27ac ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR138TQF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB301MMQ
size range: 200-600

source_name: Homo sapiens female adult (90 or above years) middle frontal area 46 tissue

value: middle frontal area 46

value: tissue

value: 90 or above year

value: adult

value: Bradley Bernstein, Broad

value: Rush University

value: ENCBS630ZNN at ENCODE; https://www.encodeproject.org/ENCBS630ZNN/

value: Derived from ENCODE donor ENCDO218FFZ; https://www.encodeproject.org/ENCDO218FFZ/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB112ENR)

description:
https://www.encodeproject.org/experiments/ENCSR138TQF/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR138TQF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB112ENR
size range: 200-600

value: female

value: ENCBS227KZL at ENCODE; https://www.encodeproject.org/ENCBS227KZL/


description:
∆cgtSR5 ∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: deletion mutant


title: Histone ChIP-seq from middle frontal area 46 (ENCLB432LHH)

description:
https://www.encodeproject.org/experiments/ENCSR138TQF/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27ac ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR138TQF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB432LHH
size range: 200-600


title: ∆cgtSR5 ∆copSR vs. WT-rep2

description:
∆cgtSR5 ∆copSR vs. WT-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: ∆cgtSR5 ∆copSR

value: delta_cgtSR5 delta_copSR harvested during exponential growth phase, CGXII glucose, date of experiment:2008-11

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2008-11


title: ∆cgtSR5 ∆copSR vs. WT-rep3

description:
∆cgtSR5 ∆copSR vs. WT-rep3
Biological replicate 3 of 3
original platform:
GPL15451


title: Histone ChIP-seq from heart left ventricle (ENCLB765NJQ)

description:
https://www.encodeproject.org/experiments/ENCSR140AYD/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K4me3 ChIP-seq on heart left ventricle tissue male adult (55 years).
experiment encode accession: ENCSR140AYD
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR979YKY
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB765NJQ
size range: 200-600

source_name: Homo sapiens male adult (55 years) heart left ventricle tissue

value: heart left ventricle

value: male

value: 55 year

value: Shin Lin

value: ischemic (EF 25% LVEDD 6.9; RV normal size, moderate dysfunction)

value: ENCBS471DJO at ENCODE; https://www.encodeproject.org/ENCBS471DJO/

value: Derived from ENCODE donor ENCDO439CAZ; https://www.encodeproject.org/ENCDO439CAZ/


title: Histone ChIP-seq from heart left ventricle (ENCLB226RYR)

description:
https://www.encodeproject.org/experiments/ENCSR140AYD/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on heart left ventricle tissue male adult (55 years).
experiment encode accession: ENCSR140AYD
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR979YKY
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB226RYR
size range: 200-600

value: tissue

value: adult

value: Bradley Bernstein, Broad


description:
∆cgtSR5 ∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: delta_cgtSR5 delta_copSR harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2008-01/2008-11

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2008-01/2008-11


title: ∆cgtSR5 ∆copSR vs. WT-rep1

description:
∆cgtSR5 ∆copSR vs. WT-rep1
Biological replicate 1 of 3
original platform:
GPL15451

source_name: WT


title: Histone ChIP-seq from middle frontal area 46 (ENCLB387VRY)

description:
https://www.encodeproject.org/experiments/ENCSR138TQF/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27ac ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR138TQF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB387VRY
size range: 200-600

value: middle frontal area 46

value: 90 or above year

value: female

value: Rush University

value: ENCBS630ZNN at ENCODE; https://www.encodeproject.org/ENCBS630ZNN/

value: Derived from ENCODE donor ENCDO218FFZ; https://www.encodeproject.org/ENCDO218FFZ/


description:
∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep4
Biological replicate 4 of 5
original platform:
GPL15451

value: deletion mutant

value: delta_copSR harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510


title: TF ChIP-seq from middle frontal area 46 (ENCLB577SRS)

description:
https://www.encodeproject.org/experiments/ENCSR351SWL/
***************
biological replicate number: 2
technical replicate number: 1
description: CTCF ChIP-seq on middle frontal area 46 tissue female adult (79 years)
experiment encode accession: ENCSR351SWL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR968XKG
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB577SRS
size range: 200-600

source_name: Homo sapiens female adult (79 years) middle frontal area 46 tissue

value: CTCF

value: 79 year

value: ENCBS836MZE at ENCODE; https://www.encodeproject.org/ENCBS836MZE/

value: Derived from ENCODE donor ENCDO609ZOG; https://www.encodeproject.org/ENCDO609ZOG/


title: ∆copSR vs. WT-rep2

description:
∆copSR vs. WT-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: ∆copSR

value: delta_copSR harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05


description:
∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep3
Biological replicate 3 of 5
original platform:
GPL15451


title: Mint-ChIP-seq from HCT116 (ENCLB712MBX)

description:
https://www.encodeproject.org/experiments/ENCSR351LOD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR351LOD
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR500IKB
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB712MBX

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens CTCF

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

value: ENCBS844UBK at ENCODE; https://www.encodeproject.org/ENCBS844UBK/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: WT pEKEx2-cgtR5 vs. WT pEKEx2-rep3

description:
WT pEKEx2-cgtR5 vs. WT pEKEx2-rep3
Biological replicate 3 of 4
original platform:
GPL15451

source_name: WT pEKEx2-cgtR5

value: wild type + overexpression

value: WT pEKEx2-cgtR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01

source_name: WT pEKEx2

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01


title: Mint-ChIP-seq from HCT116 (ENCLB087HWG)

description:
https://www.encodeproject.org/experiments/ENCSR138ITT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR138ITT
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR873HRN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB087HWG

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens SMARCA5 treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

value: treatment_term_name:5-Phenyl-1H-indole-3-acetic acid; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS403YHB at ENCODE; https://www.encodeproject.org/ENCBS403YHB/


title: TF ChIP-seq from middle frontal area 46 (ENCLB353XUU)

description:
https://www.encodeproject.org/experiments/ENCSR351SWL/
***************
biological replicate number: 2
technical replicate number: 2
description: CTCF ChIP-seq on middle frontal area 46 tissue female adult (79 years)
experiment encode accession: ENCSR351SWL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR968XKG
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB353XUU
size range: 200-600

value: CTCF

value: middle frontal area 46

value: tissue

value: 79 year

value: female

value: Rush University

value: ENCBS836MZE at ENCODE; https://www.encodeproject.org/ENCBS836MZE/

value: Derived from ENCODE donor ENCDO609ZOG; https://www.encodeproject.org/ENCDO609ZOG/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB660XLU)

description:
https://www.encodeproject.org/experiments/ENCSR946LTR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR946LTR
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR993YSN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB660XLU
size range: 200-600

source_name: Homo sapiens female adult (89 years) with Alzheimer's disease; middle frontal area 46 tissue

value: 89 year

value: adult

value: Bradley Bernstein, Broad

value: ENCBS748EGF at ENCODE; https://www.encodeproject.org/ENCBS748EGF/

value: Derived from ENCODE donor ENCDO843TIL; https://www.encodeproject.org/ENCDO843TIL/


title: TF ChIP-seq from middle frontal area 46 (ENCLB222DOV)

description:
https://www.encodeproject.org/experiments/ENCSR351SWL/
***************
biological replicate number: 1
technical replicate number: 2
description: CTCF ChIP-seq on middle frontal area 46 tissue female adult (79 years)
experiment encode accession: ENCSR351SWL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR968XKG
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB222DOV
size range: 200-600

value: ENCBS246FGU at ENCODE; https://www.encodeproject.org/ENCBS246FGU/


title: TF ChIP-seq from middle frontal area 46 (ENCLB380TBI)

description:
https://www.encodeproject.org/experiments/ENCSR351SWL/
***************
biological replicate number: 1
technical replicate number: 1
description: CTCF ChIP-seq on middle frontal area 46 tissue female adult (79 years)
experiment encode accession: ENCSR351SWL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR968XKG
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB380TBI
size range: 200-600


title: WT pEKEx2-cgtR5 vs. WT pEKEx2-rep1

description:
WT pEKEx2-cgtR5 vs. WT pEKEx2-rep1
Biological replicate 1 of 4
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-cgtR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. ∆cgtSR5 (OD 20)-rep3
Biological replicate 3 of 4
original platform:
GPL15451

source_name: ∆cgtSR5 (w/o CuSO4, OD 20)

value: deletion mutant

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-09

source_name: ∆cgtSR5 (OD 20)

value: wild type

value: WT harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-09


title: Mint-ChIP-seq from HCT116 (ENCLB272PES)

description:
https://www.encodeproject.org/experiments/ENCSR351LOD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR351LOD
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR500IKB
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB272PES

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Erez Aiden

value: ENCBS844UBK at ENCODE; https://www.encodeproject.org/ENCBS844UBK/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB116VRJ)

description:
https://www.encodeproject.org/experiments/ENCSR946LTR/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR946LTR
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR993YSN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB116VRJ
size range: 200-600

value: middle frontal area 46

value: tissue

value: 89 year

value: female

value: adult

value: Bradley Bernstein, Broad

value: Rush University

value: ENCBS748EGF at ENCODE; https://www.encodeproject.org/ENCBS748EGF/

value: Derived from ENCODE donor ENCDO843TIL; https://www.encodeproject.org/ENCDO843TIL/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB029BLK)

description:
https://www.encodeproject.org/experiments/ENCSR136KIM/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27ac ChIP-seq on middle frontal area 46 tissue male adult (90 or above years) with mild cognitive impairment
experiment encode accession: ENCSR136KIM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR105CRB
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB029BLK
size range: 200-600

source_name: Homo sapiens male adult (90 or above years) with mild cognitive impairment; middle frontal area 46 tissue

value: 90 or above year

value: ENCBS049LCH at ENCODE; https://www.encodeproject.org/ENCBS049LCH/

value: Derived from ENCODE donor ENCDO877NVF; https://www.encodeproject.org/ENCDO877NVF/


description:
∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep2
Biological replicate 2 of 5
original platform:
GPL15451

value: deletion mutant

value: delta_copSR harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510


title: ∆copSR vs. WT-rep3

description:
∆copSR vs. WT-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: delta_copSR harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05


title: WT pEKEx2-cgtR5 vs. WT pEKEx2-rep4

description:
WT pEKEx2-cgtR5 vs. WT pEKEx2-rep4
Biological replicate 4 of 4
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-cgtR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01


title: Mint-ChIP-seq from HCT116 (ENCLB302VEM)

description:
https://www.encodeproject.org/experiments/ENCSR138ITT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR138ITT
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR873HRN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB302VEM

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

value: treatment_term_name:5-Phenyl-1H-indole-3-acetic acid; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS403YHB at ENCODE; https://www.encodeproject.org/ENCBS403YHB/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: ∆copSR vs. WT-rep1

description:
∆copSR vs. WT-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: deletion mutant

value: wild type


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. ∆cgtSR5 (OD 20)-rep1
Biological replicate 1 of 4
original platform:
GPL15451

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-09

value: WT harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-09


title: Mint-ChIP-seq from stimulated activated effector memory CD8-positive, alpha-beta T cell (ENCLB686HZV)

description:
https://www.encodeproject.org/experiments/ENCSR350ZWP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR350ZWP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR368JDN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB686HZV

source_name: Homo sapiens male adult (33 years) stimulated activated effector memory CD8-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-1...

value: primary cell

value: 33 year

value: John Stamatoyannopoulos

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29460; treatment_term_name:Interleukin-12 subunit beta; treatment_type:protein; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29459; treatment_term_name:Interleukin-12 subunit alpha; treatment_type:protein; duration:72; duration_units:hour;

value: ENCBS523QRO at ENCODE; https://www.encodeproject.org/ENCBS523QRO/

value: Derived from ENCODE donor ENCDO830ROH; https://www.encodeproject.org/ENCDO830ROH/


description:
∆copSR (20 µM CuSO4) vs. WT (20 uM CuSO4)-rep1
Biological replicate 1 of 5
original platform:
GPL15451

value: delta_copSR harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510

source_name: WT (20 uM CuSO4)

value: WT harvested during exponential growth phase, CGXII glucose 20 µM CuSO4, date of experiment:2007-07/2008-09, GEO:GSE27510


title: WT pEKEx2-cgtR5 vs. WT pEKEx2-rep2

description:
WT pEKEx2-cgtR5 vs. WT pEKEx2-rep2
Biological replicate 2 of 4
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-cgtR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, date of experiment:2011-10/2011-11/2012-01


title: Control Mint-ChIP-seq from stimulated activated naive B cell (ENCLB615PQE)

description:
https://www.encodeproject.org/experiments/ENCSR546DAT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR546DAT
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB615PQE

source_name: Homo sapiens female adult (39 years) stimulated activated naive B primary cell treated with 1ug/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10ug/mL anti-IgM for 72 hours

value: stimulated activated naive B cell

value: 39 year

value: female

value: adult

value: Bradley Bernstein, Broad

value: treatment_term_name:anti-CD40; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-IgM; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius;

value: ENCBS218KXX at ENCODE; https://www.encodeproject.org/ENCBS218KXX/

value: Derived from ENCODE donor ENCDO352FHC; https://www.encodeproject.org/ENCDO352FHC/


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. ∆cgtSR5 (OD 20)-rep4
Biological replicate 4 of 4
original platform:
GPL15451

value: deletion mutant

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-09

value: wild type

value: WT harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-09


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. ∆cgtSR5 (OD 20)-rep2
Biological replicate 2 of 4
original platform:
GPL15451


title: Histone ChIP-seq from middle frontal area 46 (ENCLB429MDD)

description:
https://www.encodeproject.org/experiments/ENCSR136KIM/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27ac ChIP-seq on middle frontal area 46 tissue male adult (90 or above years) with mild cognitive impairment
experiment encode accession: ENCSR136KIM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR105CRB
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB429MDD
size range: 200-600

value: middle frontal area 46

value: tissue

value: 90 or above year

value: male

value: Rush University

value: ENCBS049LCH at ENCODE; https://www.encodeproject.org/ENCBS049LCH/

value: Derived from ENCODE donor ENCDO877NVF; https://www.encodeproject.org/ENCDO877NVF/


description:
∆cgtSR5 (20 µM CuSO4) vs. WT (20 µM CuSO4)-rep4
Biological replicate 4 of 5
original platform:
GPL15451

source_name: ∆cgtSR5 (20 µM CuSO4)

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-11/2008-01/2008-11

source_name: WT (20 µM CuSO4)

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-11/2008-01/2008-11


title: Mint-ChIP-seq from stimulated activated effector memory CD8-positive, alpha-beta T cell (ENCLB130UTX)

description:
https://www.encodeproject.org/experiments/ENCSR350ZWP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR350ZWP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR368JDN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB130UTX

value: primary cell

value: 33 year

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29460; treatment_term_name:Interleukin-12 subunit beta; treatment_type:protein; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29459; treatment_term_name:Interleukin-12 subunit alpha; treatment_type:protein; duration:72; duration_units:hour;

value: ENCBS523QRO at ENCODE; https://www.encodeproject.org/ENCBS523QRO/

value: Derived from ENCODE donor ENCDO830ROH; https://www.encodeproject.org/ENCDO830ROH/


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB622TKC)

description:
https://www.encodeproject.org/experiments/ENCSR539UNE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR539UNE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111BQQ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB622TKC

source_name: Homo sapiens male adult (38 years) CD4-positive, CD25-positive, alpha-beta regulatory T primary cell

value: 38 year

value: ENCBS879HBS at ENCODE; https://www.encodeproject.org/ENCBS879HBS/

value: Derived from ENCODE donor ENCDO923WRX; https://www.encodeproject.org/ENCDO923WRX/


title: Control Mint-ChIP-seq from stimulated activated naive B cell (ENCLB272FUI)

description:
https://www.encodeproject.org/experiments/ENCSR546DAT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR546DAT
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB272FUI

value: stimulated activated naive B cell

value: 39 year

value: female

value: treatment_term_name:anti-CD40; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-IgM; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius;

value: ENCBS218KXX at ENCODE; https://www.encodeproject.org/ENCBS218KXX/

value: Derived from ENCODE donor ENCDO352FHC; https://www.encodeproject.org/ENCDO352FHC/


description:
∆cgtSR5 (20 µM CuSO4) vs. WT (20 µM CuSO4)-rep5
Biological replicate 5 of 5
original platform:
GPL15451

value: deletion mutant

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-11/2008-01/2008-11

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-11/2008-01/2008-11


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB901MZE)

description:
https://www.encodeproject.org/experiments/ENCSR539UNE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR539UNE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111BQQ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB901MZE

value: primary cell

value: male

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos


description:
∆cgtSR5 (20 µM CuSO4) vs. WT (20 µM CuSO4)-rep3
Biological replicate 3 of 5
original platform:
GPL15451


title: Mint-ChIP-seq from HCT116 (ENCLB684DBB)

description:
https://www.encodeproject.org/experiments/ENCSR136GQA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR136GQA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR873HRN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB684DBB

value: cell line

value: 48 year

value: colorectal carcinoma

value: Erez Aiden

value: treatment_term_name:5-Phenyl-1H-indole-3-acetic acid; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS403YHB at ENCODE; https://www.encodeproject.org/ENCBS403YHB/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: Control ChIP-seq from heart right ventricle (ENCLB756ZCO)

description:
https://www.encodeproject.org/experiments/ENCSR937OPV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR937OPV
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB756ZCO
size range: 200-600

source_name: Homo sapiens male adult (54 years) heart right ventricle tissue

value: heart right ventricle

value: tissue

value: 54 year

value: ischemic (EF 13 %, LVEDD 7.1; RV severe dilation, severe dysfunction)

value: Shin Lin

value: ENCBS310DXQ at ENCODE; https://www.encodeproject.org/ENCBS310DXQ/

value: Derived from ENCODE donor ENCDO039RUH; https://www.encodeproject.org/ENCDO039RUH/


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. WT (w/o CuSO4, OD 20)-rep1
Biological replicate 1 of 4
original platform:
GPL15451

value: deletion mutant

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-08

source_name: WT (w/o CuSO4, OD 20)

value: wild type

value: WT harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-08


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. WT (w/o CuSO4, OD 20)-rep2
Biological replicate 2 of 4
original platform:
GPL15451


title: Control ChIP-seq from heart right ventricle (ENCLB351QML)

description:
https://www.encodeproject.org/experiments/ENCSR937OPV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR937OPV
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB351QML
size range: 200-600

value: male

value: adult

value: Bradley Bernstein, Broad


description:
∆cgtSR5 (20 µM CuSO4) vs. WT (20 µM CuSO4)-rep1
Biological replicate 1 of 5
original platform:
GPL15451

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-11/2008-01/2008-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-11/2008-01/2008-11


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. WT (w/o CuSO4, OD 20)-rep4
Biological replicate 4 of 4
original platform:
GPL15451


title: ∆cgtSR5 (OD 20) vs. WT (OD 20)-rep4

description:
∆cgtSR5 (OD 20) vs. WT (OD 20)-rep4
Biological replicate 4 of 4
original platform:
GPL15451

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose, date of experiment:2009-08

source_name: WT (OD 20)

value: WT harvested during stationary growth phase (OD 20), CGXII glucose, date of experiment:2009-08


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB044QTU)

description:
https://www.encodeproject.org/experiments/ENCSR936XZJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR936XZJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR007JEX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB044QTU

source_name: Homo sapiens male adult (38 years) activated naive CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 50 U/mL Interleukin-2 for 24 hours

value: primary cell

value: 38 year

value: John Stamatoyannopoulos

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:24; duration_units:hour; treatment_term_id:UniProtKB:P60568; treatment_term_name:Interleukin-2; treatment_type:protein; duration:24; duration_units:hour;

value: ENCBS567USS at ENCODE; https://www.encodeproject.org/ENCBS567USS/

value: Derived from ENCODE donor ENCDO923WRX; https://www.encodeproject.org/ENCDO923WRX/


title: Mint-ChIP-seq from HCT116 (ENCLB663HTM)

description:
https://www.encodeproject.org/experiments/ENCSR136GQA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR136GQA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR873HRN
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB663HTM

value: cell line

value: 48 year

value: colorectal carcinoma

value: Erez Aiden

value: treatment_term_name:5-Phenyl-1H-indole-3-acetic acid; treatment_type:chemical; duration:6; duration_units:hour;

value: ENCBS403YHB at ENCODE; https://www.encodeproject.org/ENCBS403YHB/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB864MJJ)

description:
https://www.encodeproject.org/experiments/ENCSR936XZJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR936XZJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR007JEX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB864MJJ

value: male

value: adult

value: Bradley Bernstein, Broad


title: Mint-ChIP-seq from activated T-cell (ENCLB919ZPG)

description:
https://www.encodeproject.org/experiments/ENCSR350RJW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR350RJW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB919ZPG

source_name: Homo sapiens female adult (21 years) activated T-cell primary cell treated with 50 U/mL Interleukin-2 for 72 hours, anti-CD3 and anti-CD28 coated beads for 72 hours

value: activated T-cell

value: 21 year

value: female

value: treatment_term_id:UniProtKB:P60568; treatment_term_name:Interleukin-2; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour;

value: ENCBS649QNF at ENCODE; https://www.encodeproject.org/ENCBS649QNF/

value: Derived from ENCODE donor ENCDO282XZV; https://www.encodeproject.org/ENCDO282XZV/


description:
∆glnX (K23-1, 4% glucose) vs. WT (4% glucose)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: ∆glnX (K23-1, 4% glucose)

value: deletion mutant

value: delta_glnX harvested during exponential growth phase, CGXII glucose, date of experiment:2010-07/2010-12

source_name: WT (4% glucose)

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2010-07/2010-12


title: ∆cgtSR5 (OD 20) vs. WT (OD 20)-rep3

description:
∆cgtSR5 (OD 20) vs. WT (OD 20)-rep3
Biological replicate 3 of 4
original platform:
GPL15451

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose, date of experiment:2009-08

value: WT harvested during stationary growth phase (OD 20), CGXII glucose, date of experiment:2009-08


title: ∆cgtSR5 vs. WT-rep5

description:
∆cgtSR5 vs. WT-rep5
Biological replicate 5 of 7
original platform:
GPL15451

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11

source_name: WT

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11


title: ∆cgtSR5 vs. WT-rep6

description:
∆cgtSR5 vs. WT-rep6
Biological replicate 6 of 7
original platform:
GPL15451


title: ∆cgtSR5 (OD 20) vs. WT (OD 20)-rep1

description:
∆cgtSR5 (OD 20) vs. WT (OD 20)-rep1
Biological replicate 1 of 4
original platform:
GPL15451


title: Mint-ChIP-seq from HCT116 (ENCLB079QSE)

description:
https://www.encodeproject.org/experiments/ENCSR722UZF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR722UZF
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR848XKY
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB079QSE

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens SMARCA5

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Erez Aiden

value: ENCBS599GGB at ENCODE; https://www.encodeproject.org/ENCBS599GGB/

value: Derived from ENCODE donor ENCDO000ABE; https://www.encodeproject.org/ENCDO000ABE/


title: Mint-ChIP-seq from HCT116 (ENCLB709OMC)

description:
https://www.encodeproject.org/experiments/ENCSR722UZF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR722UZF
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR848XKY
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB709OMC

value: adult

value: Bradley Bernstein, Broad


title: Mint-ChIP-seq from activated T-cell (ENCLB294YKT)

description:
https://www.encodeproject.org/experiments/ENCSR350RJW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR350RJW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB294YKT

value: activated T-cell

value: primary cell

value: 21 year

value: female

value: John Stamatoyannopoulos

value: treatment_term_id:UniProtKB:P60568; treatment_term_name:Interleukin-2; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour;

value: ENCBS649QNF at ENCODE; https://www.encodeproject.org/ENCBS649QNF/

value: Derived from ENCODE donor ENCDO282XZV; https://www.encodeproject.org/ENCDO282XZV/


title: Control ChIP-seq from H1 (ENCLB904OCU)

description:
https://www.encodeproject.org/experiments/ENCSR545PPX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR545PPX
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2021-09-09
lab: Yijun Ruan, JAX
library encode accession: ENCLB904OCU

source_name: Homo sapiens H1 cell line

value: cell line

value: unknown

value: healthy

value: embryonic

value: Yijun Ruan, JAX

value: WiCell

value: ENCBS649GBL at ENCODE; https://www.encodeproject.org/ENCBS649GBL/

value: Derived from ENCODE donor ENCDO000AAW; https://www.encodeproject.org/ENCDO000AAW/


title: ∆cgtSR5 vs. WT-rep7

description:
∆cgtSR5 vs. WT-rep7
Biological replicate 7 of 7
original platform:
GPL15451

value: deletion mutant

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11


title: ∆cgtSR5 (OD 20) vs. WT (OD 20)-rep2

description:
∆cgtSR5 (OD 20) vs. WT (OD 20)-rep2
Biological replicate 2 of 4
original platform:
GPL15451

source_name: ∆cgtSR5 (OD 20)

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose, date of experiment:2009-08

value: WT harvested during stationary growth phase (OD 20), CGXII glucose, date of experiment:2009-08


description:
∆cgtSR5 (w/o CuSO4, OD 20) vs. WT (w/o CuSO4, OD 20)-rep3
Biological replicate 3 of 4
original platform:
GPL15451

source_name: ∆cgtSR5 (w/o CuSO4, OD 20)

value: delta_cgtSR5 harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-08

value: WT harvested during stationary growth phase (OD 20), CGXII glucose w/o CuSO4, date of experiment:2009-08


title: Mint-ChIP-seq from natural killer cell (ENCLB097FZF)

description:
https://www.encodeproject.org/experiments/ENCSR936OPP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR936OPP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR387IEL
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB097FZF

source_name: Homo sapiens male adult (47 years) natural killer primary cell treated with 100 ng/mL Interleukin-18 for 72 hours, 100 ng/mL Interleukin-12 subunit beta for 72 hours, 100 ng/mL Interleukin-12 subunit alpha for 72 hours, 100 ng/mL Interleukin-15 for 7...

value: natural killer cell

value: primary cell

value: 47 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: treatment_term_id:UniProtKB:Q14116; treatment_term_name:Interleukin-18; treatment_type:protein; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29460; treatment_term_name:Interleukin-12 subunit beta; treatment_type:protein; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P29459; treatment_term_name:Interleukin-12 subunit alpha; treatment_type:protein; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P40933; treatment_term_name:Interleukin-15; treatment_type:protein; duration:72; duration_units:hour;

value: ENCBS177IBD at ENCODE; https://www.encodeproject.org/ENCBS177IBD/

value: Derived from ENCODE donor ENCDO311UBW; https://www.encodeproject.org/ENCDO311UBW/


title: Mint-ChIP-seq from naive B cell (ENCLB405OJJ)

description:
https://www.encodeproject.org/experiments/ENCSR537NEO/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 Mint-ChIP-seq on human naive B cell.
experiment encode accession: ENCSR537NEO
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR499CKV
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB405OJJ
fragmentation methods: none
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500,Illumina NovaSeq 6000

source_name: Homo sapiens naive B primary cell, preserved by cryopreservation

value: naive B cell

value: B naive CD3- CD14- CD19+ CD27- IgD+

value: not collected

value: healthy

value: unknown

value: David Hafler

value: ENCBS644KFM at ENCODE; https://www.encodeproject.org/ENCBS644KFM/

value: Derived from ENCODE donor ENCDO976NED; https://www.encodeproject.org/ENCDO976NED/


title: Mint-ChIP-seq from natural killer cell (ENCLB843PRN)

description:
https://www.encodeproject.org/experiments/ENCSR936OPP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR936OPP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR387IEL
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB843PRN

value: natural killer cell

value: primary cell


title: ∆cgtSR5 vs. WT-rep3

description:
∆cgtSR5 vs. WT-rep3
Biological replicate 3 of 7
original platform:
GPL15451

value: deletion mutant

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11


title: ∆cgtSR5 vs. WT-rep2

description:
∆cgtSR5 vs. WT-rep2
Biological replicate 2 of 7
original platform:
GPL15451


title: TF ChIP-seq from activated CD8-positive, alpha-beta T cell (ENCLB239NSO)

description:
https://www.encodeproject.org/experiments/ENCSR347MXL/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR347MXL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR314QKF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB239NSO
size range: 200-600

source_name: Homo sapiens male adult (21 years) activated CD8-positive, alpha-beta T primary cell

value: CTCF

value: 21 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: Charles Lee

value: ENCBS374RGV at ENCODE; https://www.encodeproject.org/ENCBS374RGV/

value: Derived from ENCODE donor ENCDO781BMZ; https://www.encodeproject.org/ENCDO781BMZ/


title: ∆cgtSR5 vs. WT-rep4

description:
∆cgtSR5 vs. WT-rep4
Biological replicate 4 of 7
original platform:
GPL15451


title: TF ChIP-seq from activated CD8-positive, alpha-beta T cell (ENCLB027QSH)

description:
https://www.encodeproject.org/experiments/ENCSR347MXL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR347MXL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR314QKF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB027QSH
size range: 200-600


title: Histone ChIP-seq from right lobe of liver (ENCLB276KIV)

description:
https://www.encodeproject.org/experiments/ENCSR533YIK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR533YIK
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR309LQG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB276KIV
size range: 200-600

source_name: Homo sapiens female adult (41 years) right lobe of liver tissue

value: right lobe of liver

value: tissue

value: 41 year

value: female

value: DM:no; HTN:no; CAD:no

value: Shin Lin

value: ENCBS971GGI at ENCODE; https://www.encodeproject.org/ENCBS971GGI/

value: Derived from ENCODE donor ENCDO575WHY; https://www.encodeproject.org/ENCDO575WHY/


title: Mint-ChIP-seq from naive B cell (ENCLB919BJH)

description:
https://www.encodeproject.org/experiments/ENCSR537NEO/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 Mint-ChIP-seq on human naive B cell.
experiment encode accession: ENCSR537NEO
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR499CKV
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB919BJH
fragmentation methods: none
instrument models: Illumina NextSeq 500,Illumina NovaSeq 6000,Illumina HiSeq 2500

value: naive B cell

value: primary cell

value: B naive CD3- CD14- CD19+ CD27- IgD+

value: not collected

value: healthy

value: unknown

value: David Hafler

value: ENCBS644KFM at ENCODE; https://www.encodeproject.org/ENCBS644KFM/

value: Derived from ENCODE donor ENCDO976NED; https://www.encodeproject.org/ENCDO976NED/


title: Mint-ChIP-seq from stimulated activated naive B cell (ENCLB331XIO)

description:
https://www.encodeproject.org/experiments/ENCSR720WUX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR720WUX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR546DAT
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB331XIO

source_name: Homo sapiens female adult (39 years) stimulated activated naive B primary cell treated with 1ug/mL anti-CD40 for 72 hours, 100 ng/mL Interleukin-4 for 72 hours, 10ug/mL anti-IgM for 72 hours

value: stimulated activated naive B cell

value: 39 year

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: treatment_term_name:anti-CD40; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein; duration:72; duration_units:hour; treatment_term_name:anti-IgM; treatment_type:antibody; duration:72; duration_units:hour; temperature:37; temperature_units:Celsius;

value: ENCBS218KXX at ENCODE; https://www.encodeproject.org/ENCBS218KXX/

value: Derived from ENCODE donor ENCDO352FHC; https://www.encodeproject.org/ENCDO352FHC/


title: Histone ChIP-seq from right lobe of liver (ENCLB393FYJ)

description:
https://www.encodeproject.org/experiments/ENCSR533YIK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR533YIK
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR309LQG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB393FYJ
size range: 200-600

value: right lobe of liver

value: tissue

value: 41 year

value: female

value: DM:no; HTN:no; CAD:no

value: Shin Lin

value: ENCBS971GGI at ENCODE; https://www.encodeproject.org/ENCBS971GGI/

value: Derived from ENCODE donor ENCDO575WHY; https://www.encodeproject.org/ENCDO575WHY/


title: ∆ipsA vs. WT-rep2

description:
∆ipsA vs. WT-rep2
Biological replicate 2 of 3
original platform:
GPL16988

source_name: ∆ipsA

value: deletion mutant

value: delta_ipsA harvested during exponential growth phase, CGXII glucose, date of experiment:2012-09, GEO:GSE50210

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2012-09, GEO:GSE50210


title: ∆ipsA vs. WT-rep3

description:
∆ipsA vs. WT-rep3
Biological replicate 3 of 3
original platform:
GPL16988


title: ∆cgtSR5 vs. WT-rep1

description:
∆cgtSR5 vs. WT-rep1
Biological replicate 1 of 7
original platform:
GPL15451

value: delta_cgtSR5 harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-05/2007-07/2007-09/2008-07/2008-11


title: ∆cg2842 vs. WT-rep3

description:
∆cg2842 vs. WT-rep3
Biological replicate 3 of 4
original platform:
GPL15451

value: delta_cg2842 harvested during exponential growth phase, CGXII glucose, date of experiment:2009-07/2009-08

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2009-07/2009-08


title: ∆cg2842 vs. WT-rep4

description:
∆cg2842 vs. WT-rep4
Biological replicate 4 of 4
original platform:
GPL15451


title: Mint-ChIP-seq from naive B cell (ENCLB428KKT)

description:
https://www.encodeproject.org/experiments/ENCSR130LEE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR130LEE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR056PPJ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB428KKT

source_name: Homo sapiens male adult (40 years) naive B primary cell

value: naive B cell

value: primary cell

value: 40 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: ENCBS857XIR at ENCODE; https://www.encodeproject.org/ENCBS857XIR/

value: Derived from ENCODE donor ENCDO512FEI; https://www.encodeproject.org/ENCDO512FEI/


title: Histone ChIP-seq from psoas muscle (ENCLB328UBH)

description:
https://www.encodeproject.org/experiments/ENCSR533LFC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR533LFC
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB328UBH
size range: 200-600

source_name: Homo sapiens female adult (41 years) psoas muscle tissue

value: psoas muscle

value: tissue

value: 41 year

value: female

value: DM:no; HTN:no; CAD:no

value: Shin Lin

value: ENCBS168AIQ at ENCODE; https://www.encodeproject.org/ENCBS168AIQ/

value: Derived from ENCODE donor ENCDO575WHY; https://www.encodeproject.org/ENCDO575WHY/


title: Mint-ChIP-seq from naive B cell (ENCLB732UHV)

description:
https://www.encodeproject.org/experiments/ENCSR130LEE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR130LEE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR056PPJ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB732UHV

value: naive B cell