title: Mint-ChIP-seq from memory B cell (ENCLB087EFT)

description:
https://www.encodeproject.org/experiments/ENCSR406MYO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR406MYO
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR430DND
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB087EFT

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

value: memory B cell

value: primary cell

value: 40 year

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: ENCBS880QZN at ENCODE; https://www.encodeproject.org/ENCBS880QZN/

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


title: Mint-ChIP-seq from HCT116 (ENCLB125MTZ)

status: Public on Jul 22 2022

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/ENCSR197PUB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR197PUB
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR861TAI
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB125MTZ

library_source: genomic

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

molecule: genomic DNA

organism: Homo sapiens

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens SUPT16H treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

tag: antibody

tag: line

value: cell line

tag: biosample encode accession

tag: age

value: 48 year

tag: Sex

value: male

tag: health state

value: colorectal carcinoma

tag: dev stage

value: adult

tag: lab

tag: source

value: Erez Aiden

tag: treatments

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

tag: link

value: ENCBS456IZA at ENCODE; https://www.encodeproject.org/ENCBS456IZA/

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


title: Mint-ChIP-seq from memory B cell (ENCLB063BWP)

description:
https://www.encodeproject.org/experiments/ENCSR406MYO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR406MYO
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR430DND
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB063BWP


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:
WT (growth rate 0.4) vs. WT (growth rate 0.6)-rep1
Biological replicate 1 of 2
original platform:
GPL16988

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: WT (growth rate 0.4)

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

value: wild type

tag: condition

value: WT harvested during exponential growth phase at a growth rate of 0.4, CGXII glucose, date of experiment:2012-10

source_name: WT (growth rate 0.6)

value: WT harvested during exponential growth phase at a growth rate of 0.6, CGXII glucose, date of experiment:2012-10


title: WT (anaerob 10 min) vs. WT_agilent-rep2

description:
WT (anaerob 10 min) vs. WT_agilent-rep2
Biological replicate 2 of 4
original platform:
GPL16988

source_name: WT (anaerob 10 min)

value: WT harvested after anaerobic cultivation for 10 min, CGXII glucose w/o MOPS + 15 g/l tryptone, date of experiment:2012-05/2016-06

value: WT harvested during exponential growth phase, OD 5, CGXII glucose w/o MOPS + 15 g/l tryptone, date of experiment:2012-05/2016-06


title: WT (anaerob 10 min) vs. WT_operon-rep1

description:
WT (anaerob 10 min) vs. WT_operon-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: WT harvested after anaerobic cultivation for 10 min, CGXII glucose w/o MOPS + 15 g/l tryptone, date of experiment:2010-09

value: WT harvested during exponential growth phase, OD 5, CGXII glucose w/o MOPS + 15 g/l tryptone, date of experiment:2010-09


title: WT (anaerob 10 min) vs. WT_agilent-rep4

description:
WT (anaerob 10 min) vs. WT_agilent-rep4
Biological replicate 4 of 4
original platform:
GPL16988


title: WT (anaerob 10 min) vs. WT_agilent-rep3

description:
WT (anaerob 10 min) vs. WT_agilent-rep3
Biological replicate 3 of 4
original platform:
GPL16988


title: Mint-ChIP-seq from stimulated activated memory B cell (ENCLB668ZSW)

description:
https://www.encodeproject.org/experiments/ENCSR406YIZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR406YIZ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR655TYY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB668ZSW

source_name: Homo sapiens male adult (40 years) stimulated activated memory 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 memory B cell

value: primary cell

value: 40 year

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: ENCBS619HZC at ENCODE; https://www.encodeproject.org/ENCBS619HZC/

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


title: WT (anaerob 10 min) vs. WT_agilent-rep1

description:
WT (anaerob 10 min) vs. WT_agilent-rep1
Biological replicate 1 of 4
original platform:
GPL16988


title: Histone ChIP-seq from right lobe of liver (ENCLB265WFP)

description:
https://www.encodeproject.org/experiments/ENCSR589JCY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR589JCY
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR886ATT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB265WFP
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: adult

value: Shin Lin

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

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


description:
WT (stationary phase, OD 75) vs. WT (exponential Phase, OD 5)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT (stationary phase, OD 75)

value: wild type

value: WT harvested during stationary growth phase, OD 75, CGXII glucose, date of experiment:2009-06

source_name: WT (exponential Phase, OD 5)

value: WT harvested during stationary growth phase, OD 5, CGXII glucose, date of experiment:2009-06


title: Mint-ChIP-seq from T-cell (ENCLB781OTT)

description:
https://www.encodeproject.org/experiments/ENCSR195SYH/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR195SYH
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR367LFV
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB781OTT

source_name: Homo sapiens female adult (21 years) T-cell primary cell

value: T-cell

value: primary cell

value: 21 year

value: Bradley Bernstein, Broad

value: ENCBS891XZS at ENCODE; https://www.encodeproject.org/ENCBS891XZS/

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


title: Mint-ChIP-seq from T-cell (ENCLB319ICT)

description:
https://www.encodeproject.org/experiments/ENCSR195SYH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR195SYH
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR367LFV
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB319ICT

value: John Stamatoyannopoulos


description:
WT (growth rate 0.4) vs. WT (growth rate 0.6)-rep2
Biological replicate 2 of 2
original platform:
GPL16988

value: WT harvested during exponential growth phase at a growth rate of 0.4, CGXII glucose, date of experiment:2012-10

value: WT harvested during exponential growth phase at a growth rate of 0.6, CGXII glucose, date of experiment:2012-10


title: Histone ChIP-seq from right lobe of liver (ENCLB985WGF)

description:
https://www.encodeproject.org/experiments/ENCSR589JCY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR589JCY
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR886ATT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB985WGF
size range: 200-600

value: right lobe of liver

value: tissue

value: 47 year

value: female

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


description:
WT (stationary phase, OD 75) vs. WT (exponential Phase, OD 5)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type


description:
WT (stationary phase, OD 30) vs. WT (exponential Phase, OD 4)-rep4
Biological replicate 4 of 4
original platform:
GPL15451

source_name: WT (stationary phase, OD 30)

value: WT harvested during stationary growth phase, OD 30, CGXII glucose, date of experiment:2008-06

source_name: WT (exponential Phase, OD 4)

value: WT harvested during stationary growth phase, OD 4, CGXII glucose, date of experiment:2008-06


description:
WT (stationary phase, OD 75) vs. WT (exponential Phase, OD 5)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: WT harvested during stationary growth phase, OD 75, CGXII glucose, date of experiment:2009-06

value: WT harvested during stationary growth phase, OD 5, CGXII glucose, date of experiment:2009-06


title: Mint-ChIP-seq from HCT116 (ENCLB310RIF)

description:
https://www.encodeproject.org/experiments/ENCSR803TBJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR803TBJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR099TYF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB310RIF

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 treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Erez Aiden

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

value: ENCBS033MSP at ENCODE; https://www.encodeproject.org/ENCBS033MSP/

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


title: WT (anaerob 10 min) vs. WT_operon-rep2

description:
WT (anaerob 10 min) vs. WT_operon-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: WT harvested after anaerobic cultivation for 10 min, CGXII glucose w/o MOPS + 15 g/l tryptone, date of experiment:2010-09

value: WT harvested during exponential growth phase, OD 5, CGXII glucose w/o MOPS + 15 g/l tryptone, date of experiment:2010-09


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB611LKU)

description:
https://www.encodeproject.org/experiments/ENCSR587GGX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR587GGX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB611LKU

source_name: Homo sapiens male adult (33 years) effector memory CD8-positive, alpha-beta T primary cell

value: primary cell

value: 33 year

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: ENCBS509OFL at ENCODE; https://www.encodeproject.org/ENCBS509OFL/

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


description:
WT (stationary phase, OD 30) vs. WT (exponential Phase, OD 4)-rep1
Biological replicate 1 of 4
original platform:
GPL15451

value: wild type

value: WT harvested during stationary growth phase, OD 30, CGXII glucose, date of experiment:2008-06

value: WT harvested during stationary growth phase, OD 4, CGXII glucose, date of experiment:2008-06


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB946TRR)

description:
https://www.encodeproject.org/experiments/ENCSR587GGX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR587GGX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB946TRR

value: male


description:
WT (stationary phase, OD 30) vs. WT (exponential Phase, OD 4)-rep2
Biological replicate 2 of 4
original platform:
GPL15451


title: Mint-ChIP-seq from HCT116 (ENCLB562USH)

description:
https://www.encodeproject.org/experiments/ENCSR803TBJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR803TBJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR099TYF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB562USH

value: cell line

value: 48 year

value: colorectal carcinoma

value: adult


title: ∆ramB (CGXII, 1% acetate) vs. WT (CGXII, 1% acetate)-rep4

description: Biological replicate 4 of 6

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.

source_name: deletion mutant

value: delta_ramB harvested during exponential growth phase, CGXII 1% acetate, date of experiment:2003-02

source_name: wild type

value: WT harvested during exponential growth phase, CGXII 1% acetate, date of experiment:2003-02


title: ∆ramB (CGXII, 1% acetate) vs. WT (CGXII, 1% acetate)-rep3

description: Biological replicate 3 of 6


description:
WT (stationary phase, OD 30) vs. WT (exponential Phase, OD 4)-rep3
Biological replicate 3 of 4
original platform:
GPL15451


title: Mint-ChIP-seq from naive B cell (ENCLB566EDY)

description:
https://www.encodeproject.org/experiments/ENCSR585WRJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR585WRJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR575ZCX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB566EDY

source_name: Homo sapiens female adult (39 years) naive B primary cell

value: naive B cell

value: 39 year

value: female

value: ENCBS531INH at ENCODE; https://www.encodeproject.org/ENCBS531INH/

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


title: TF ChIP-seq from middle frontal area 46 (ENCLB305ZVV)

description:
https://www.encodeproject.org/experiments/ENCSR194JAU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR194JAU
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR243LHN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB305ZVV
size range: 200-600

source_name: Homo sapiens female adult (90 or above years) with Alzheimer's disease; middle frontal area 46 tissue

value: CTCF

value: middle frontal area 46

value: tissue

value: 90 or above year

value: Bradley Bernstein, Broad

value: Rush University

value: ENCBS708DHS at ENCODE; https://www.encodeproject.org/ENCBS708DHS/

value: Derived from ENCODE donor ENCDO223NTQ; https://www.encodeproject.org/ENCDO223NTQ/


title: TF ChIP-seq from middle frontal area 46 (ENCLB250YQW)

description:
https://www.encodeproject.org/experiments/ENCSR194JAU/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR194JAU
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR243LHN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB250YQW
size range: 200-600


title: ∆ramB (CGXII, 1% acetate) vs. WT (CGXII, 1% acetate)-rep2

description: Biological replicate 2 of 6


title: ∆ramB (2xTY) vs. WT (2xTY)-rep1

description: Biological replicate 1 of 3

value: delta_ramB harvested during exponential growth phase, 2xTY, date of experiment:2003-02

value: WT harvested during exponential growth phase, 2xTY, date of experiment:2003-02


title: ∆ramB (2xTY) vs. WT (2xTY)-rep3

description: Biological replicate 3 of 3


title: Mint-ChIP-seq from CD14-positive monocyte (ENCLB789YGT)

description:
https://www.encodeproject.org/experiments/ENCSR406DUQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR406DUQ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR173UJQ
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB789YGT

source_name: Homo sapiens male adult (51 years) CD14-positive monocyte primary cell

value: CD14-positive monocyte

value: primary cell

value: 51 year

value: male

value: adult

value: Charles Lee

value: ENCBS409NZS at ENCODE; https://www.encodeproject.org/ENCBS409NZS/

value: Derived from ENCODE donor ENCDO346BRO; https://www.encodeproject.org/ENCDO346BRO/


title: Mint-ChIP-seq from CD14-positive monocyte (ENCLB109NFH)

description:
https://www.encodeproject.org/experiments/ENCSR406DUQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR406DUQ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR173UJQ
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB109NFH


title: ∆ramB (2xTY) vs. WT (2xTY)-rep2

description: Biological replicate 2 of 3


title: ∆ramB (CGXII, 1% acetate) vs. WT (CGXII, 1% acetate)-rep1

description: Biological replicate 1 of 6

value: delta_ramB harvested during exponential growth phase, CGXII 1% acetate, date of experiment:2003-02

value: WT harvested during exponential growth phase, CGXII 1% acetate, date of experiment:2003-02


title: Control ChIP-seq from middle frontal area 46 (ENCLB969ZNU)

description:
https://www.encodeproject.org/experiments/ENCSR405NKC/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR405NKC
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB969ZNU
size range: 200-600

value: middle frontal area 46

value: tissue

value: 90 or above year

value: female

value: ENCBS873GIH at ENCODE; https://www.encodeproject.org/ENCBS873GIH/

value: Derived from ENCODE donor ENCDO730UYW; https://www.encodeproject.org/ENCDO730UYW/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB993CNG)

description:
https://www.encodeproject.org/experiments/ENCSR406AJH/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on middle frontal area 46 tissue female adult (82 years)
experiment encode accession: ENCSR406AJH
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR405BDN
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB993CNG
size range: 200-600

source_name: Homo sapiens female adult (82 years) middle frontal area 46 tissue

value: 82 year

value: Bradley Bernstein, Broad

value: Rush University

value: ENCBS712RMD at ENCODE; https://www.encodeproject.org/ENCBS712RMD/

value: Derived from ENCODE donor ENCDO290OPS; https://www.encodeproject.org/ENCDO290OPS/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB422RBX)

description:
https://www.encodeproject.org/experiments/ENCSR406AJH/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K4me3 ChIP-seq on middle frontal area 46 tissue female adult (82 years)
experiment encode accession: ENCSR406AJH
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR405BDN
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB422RBX
size range: 200-600

value: adult


title: Control ChIP-seq from middle frontal area 46 (ENCLB923NSQ)

description:
https://www.encodeproject.org/experiments/ENCSR405BDN/
***************
biological replicate number: 1
technical replicate number: 2
description: Control ChIP-seq on middle frontal area 46 tissue female adult (82 years).
experiment encode accession: ENCSR405BDN
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2021-09-21
lab: Bradley Bernstein, Broad
library encode accession: ENCLB923NSQ
size range: 200-600


title: ∆ramB (CGXII, 1% glucose) vs. WT (CGXII, 1% glucose)-rep1

description: Biological replicate 1 of 4

value: delta_ramB harvested during exponential growth phase, CGXII glucose, date of experiment:2003-02

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2003-02


title: ∆ramB (CGXII, 1% glucose) vs. WT (CGXII, 1% glucose)-rep2

description: Biological replicate 2 of 4


title: ∆lrp (200 mM valine) vs. ∆lrp-rep1

description: Biological replicate 1 of 2

value: delta_lrp harvested during exponential growth phase, CGXII glucose 200 mM valine, date of experiment:2002-08/2002-09

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-08/2002-09


title: ∆ramB (CGXII, 1% glucose) vs. WT (CGXII, 1% glucose)-rep4

description: Biological replicate 4 of 4


title: Control ChIP-seq from middle frontal area 46 (ENCLB180KGJ)

description:
https://www.encodeproject.org/experiments/ENCSR405BDN/
***************
biological replicate number: 1
technical replicate number: 1
description: Control ChIP-seq on middle frontal area 46 tissue female adult (82 years).
experiment encode accession: ENCSR405BDN
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2021-09-21
lab: Bradley Bernstein, Broad
library encode accession: ENCLB180KGJ
size range: 200-600


title: Mint-ChIP-seq from naive B cell (ENCLB874HQG)

description:
https://www.encodeproject.org/experiments/ENCSR585WRJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR585WRJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR575ZCX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB874HQG

value: naive B cell

value: primary cell

value: 39 year

value: John Stamatoyannopoulos

value: ENCBS531INH at ENCODE; https://www.encodeproject.org/ENCBS531INH/

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


title: ∆ramB (CGXII, 1% glucose) vs. WT (CGXII, 1% glucose)-rep3

description: Biological replicate 3 of 4


title: Control Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB465XIB)

description:
https://www.encodeproject.org/experiments/ENCSR404OWA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR404OWA
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB465XIB

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

value: 38 year

value: male

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

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


title: ∆lrp (200 mM valine) vs. ∆lrp-rep2

description: Biological replicate 2 of 2


title: Control Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB274YTN)

description:
https://www.encodeproject.org/experiments/ENCSR404OWA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR404OWA
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB274YTN

value: Bradley Bernstein, Broad


title: ∆lrp (200 mM valine) vs. WT (200 mM valine)-rep2

description: Biological replicate 2 of 2

value: WT harvested during exponential growth phase, CGXII glucose 200 mM valine, date of experiment:2002-08/2002-09


title: ∆lrp (200 mM valine) vs. WT (200 mM valine)-rep1

description: Biological replicate 1 of 2


title: Mint-ChIP-seq from MCF 10A (ENCLB409PVA)

description:
https://www.encodeproject.org/experiments/ENCSR585PIL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR585PIL
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR550WPO
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB409PVA

source_name: Homo sapiens MCF 10A cell line

value: MCF 10A

value: cell line

value: 36 year

value: female

value: fibrocystic disease

value: adult

value: Mats Ljungman

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

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


title: ∆lrp (50 mM valine) vs. ∆lrp-rep2

description: Biological replicate 2 of 2

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM valine, date of experiment:2002-10/2002-11

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-10/2002-11


title: Mint-ChIP-seq from MCF 10A (ENCLB305XYR)

description:
https://www.encodeproject.org/experiments/ENCSR585PIL/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR585PIL
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR550WPO
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB305XYR


title: Histone ChIP-seq from adrenal gland (ENCLB681TAF)

description:
https://www.encodeproject.org/experiments/ENCSR404HTG/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 ChIP-seq on adrenal gland tissue female adult (41 years)
experiment encode accession: ENCSR404HTG
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR071ILJ
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB681TAF
size range: 200-600

source_name: Homo sapiens female adult (41 years) adrenal gland tissue

value: adrenal gland

value: tissue

value: 41 year

value: Shin Lin

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

value: ENCBS648AMG at ENCODE; https://www.encodeproject.org/ENCBS648AMG/

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


title: ∆lrp (50 mM valine) vs. ∆lrp-rep1

description: Biological replicate 1 of 2


title: Control ChIP-seq from middle frontal area 46 (ENCLB395XFO)

description:
https://www.encodeproject.org/experiments/ENCSR405NKC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR405NKC
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB395XFO
size range: 200-600

value: middle frontal area 46

value: 90 or above year

value: Bradley Bernstein, Broad

value: Rush University

value: ENCBS873GIH at ENCODE; https://www.encodeproject.org/ENCBS873GIH/

value: Derived from ENCODE donor ENCDO730UYW; https://www.encodeproject.org/ENCDO730UYW/


title: Histone ChIP-seq from adrenal gland (ENCLB501MVC)

description:
https://www.encodeproject.org/experiments/ENCSR404HTG/
***************
biological replicate number: 2
technical replicate number: 2
description: H3K36me3 ChIP-seq on adrenal gland tissue female adult (41 years)
experiment encode accession: ENCSR404HTG
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR071ILJ
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB501MVC
size range: 200-600

value: female

value: adult


title: Histone ChIP-seq from adrenal gland (ENCLB195EQH)

description:
https://www.encodeproject.org/experiments/ENCSR404HTG/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K36me3 ChIP-seq on adrenal gland tissue female adult (41 years)
experiment encode accession: ENCSR404HTG
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR071ILJ
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB195EQH
size range: 200-600

source_name: Homo sapiens female adult (41 years) adrenal gland tissue, preserved by flash-freezing

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS491ORA at ENCODE; https://www.encodeproject.org/ENCBS491ORA/


title: ∆lrp (50 mM valine) vs. WT (50 mM valine)-rep1

description: Biological replicate 1 of 3

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM valine, date of experiment:2002-10/2002-11

value: WT harvested during exponential growth phase, CGXII glucose 50 mM valine, date of experiment:2002-10/2002-11


title: ∆lrp (50 mM valine) vs. WT (50 mM valine)-rep3

description: Biological replicate 3 of 3


title: Histone ChIP-seq from adrenal gland (ENCLB210RST)

description:
https://www.encodeproject.org/experiments/ENCSR404HTG/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K36me3 ChIP-seq on adrenal gland tissue female adult (41 years)
experiment encode accession: ENCSR404HTG
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR071ILJ
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB210RST
size range: 200-600

value: adrenal gland

value: tissue

value: 41 year


title: ∆lrp (50 mM isoleucine) vs. ∆lrp-rep2

description: Biological replicate 2 of 3

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM isoleucine, date of experiment:2002-10/2002-12

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-10/2002-12


title: Control ChIP-seq from ovary (ENCLB280UEK)

description:
https://www.encodeproject.org/experiments/ENCSR583MIW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR583MIW
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB280UEK
size range: 200-600

source_name: Homo sapiens female adult (41 years) ovary tissue

value: ovary

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

value: Shin Lin

value: ENCBS327NVM at ENCODE; https://www.encodeproject.org/ENCBS327NVM/

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


title: ∆lrp (50 mM isoleucine) vs. ∆lrp-rep3

description: Biological replicate 3 of 3


title: ∆lrp (50 mM isoleucine) vs. ∆lrp-rep1

description: Biological replicate 1 of 3


title: Control ChIP-seq from ovary (ENCLB210HLL)

description:
https://www.encodeproject.org/experiments/ENCSR583MIW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR583MIW
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB210HLL
size range: 200-600

value: female

value: Bradley Bernstein, Broad


title: Mint-ChIP-seq from HCT116 (ENCLB979RIO)

description:
https://www.encodeproject.org/experiments/ENCSR581LUB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR581LUB
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR848XKY
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB979RIO

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: adult

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 T-cell (ENCLB215WPD)

description:
https://www.encodeproject.org/experiments/ENCSR582VRV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR582VRV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR367LFV
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB215WPD

source_name: Homo sapiens female adult (21 years) T-cell primary cell

value: T-cell

value: primary cell

value: 21 year

value: John Stamatoyannopoulos

value: ENCBS891XZS at ENCODE; https://www.encodeproject.org/ENCBS891XZS/

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


title: Mint-ChIP-seq from T-cell (ENCLB544JKB)

description:
https://www.encodeproject.org/experiments/ENCSR582VRV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR582VRV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR367LFV
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB544JKB


title: ∆lrp (50 mM isoleucine) vs. WT (50 mM isoleucine)-rep2

description: Biological replicate 2 of 3

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM isoleucine, date of experiment:2002-10/2002-12

value: WT harvested during exponential growth phase, CGXII glucose 50 mM isoleucine, date of experiment:2002-10/2002-12


title: ∆lrp (50 mM isoleucine) vs. WT (50 mM isoleucine)-rep1

description: Biological replicate 1 of 3


title: ∆lrp (50 mM leucine) vs. ∆lrp-rep2

description: Biological replicate 2 of 3

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM leucine, date of experiment:2002-10/2002-11/2002-12

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-10/2002-11/2002-12


title: Control Mint-ChIP-seq from HCT116 (ENCLB594PMZ)

description:
https://www.encodeproject.org/experiments/ENCSR801URS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR801URS
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB594PMZ

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens MED14 treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

value: cell line

value: 48 year

value: Bradley Bernstein, Broad

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

value: ENCBS067KQC at ENCODE; https://www.encodeproject.org/ENCBS067KQC/


title: ∆lrp (50 mM leucine) vs. WT (50 mM leucine)-rep3

description: Biological replicate 3 of 3

value: WT harvested during exponential growth phase, CGXII glucose 50 mM leucine, date of experiment:2002-10/2002-11/2002-12


title: ∆lrp (50 mM leucine) vs. ∆lrp-rep3

description: Biological replicate 3 of 3


title: ∆lrp (50 mM leucine) vs. WT (50 mM leucine)-rep2

description: Biological replicate 2 of 3


title: ∆lrp (50 mM leucine) vs. ∆lrp-rep1

description: Biological replicate 1 of 3


title: Control Mint-ChIP-seq from activated T-cell (ENCLB100GFE)

description:
https://www.encodeproject.org/experiments/ENCSR798SDW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR798SDW
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-04-26
lab: Bradley Bernstein, Broad
library encode accession: ENCLB100GFE

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: female

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


title: Mint-ChIP-seq from HCT116 (ENCLB885DRK)

description:
https://www.encodeproject.org/experiments/ENCSR581LUB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR581LUB
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR848XKY
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB885DRK

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 naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB573FXF)

description:
https://www.encodeproject.org/experiments/ENCSR797POI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR797POI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR239ZVK
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB573FXF

source_name: Homo sapiens male adult (33 years) naive thymus-derived CD8-positive, alpha-beta T primary cell

value: primary cell

value: 33 year

value: John Stamatoyannopoulos

value: ENCBS538USD at ENCODE; https://www.encodeproject.org/ENCBS538USD/

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


title: ∆lrp (25 mM leucine) vs. ∆lrp-rep2

description: Biological replicate 2 of 2

value: delta_lrp harvested during exponential growth phase, CGXII glucose 25 mM leucine, date of experiment:2002-11/2002-12

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-11/2002-12


title: ∆lrp (50 mM isoleucine) vs. WT (50 mM isoleucine)-rep3

description: Biological replicate 3 of 3

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM isoleucine, date of experiment:2002-10/2002-12

value: WT harvested during exponential growth phase, CGXII glucose 50 mM isoleucine, date of experiment:2002-10/2002-12


title: Histone ChIP-seq from middle frontal area 46 (ENCLB279CCI)

description:
https://www.encodeproject.org/experiments/ENCSR581KPP/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27ac ChIP-seq on middle frontal area 46 tissue male adult (83 years)
experiment encode accession: ENCSR581KPP
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR772LYM
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB279CCI
size range: 200-600

source_name: Homo sapiens male adult (83 years) middle frontal area 46 tissue

value: middle frontal area 46

value: tissue

value: 83 year

value: adult

value: Bradley Bernstein, Broad

value: Rush University

value: ENCBS485UEI at ENCODE; https://www.encodeproject.org/ENCBS485UEI/

value: Derived from ENCODE donor ENCDO736YJH; https://www.encodeproject.org/ENCDO736YJH/


title: ∆lrp (50 mM leucine) vs. WT (50 mM leucine)-rep1

description: Biological replicate 1 of 3

source_name: deletion mutant

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM leucine, date of experiment:2002-10/2002-11/2002-12

value: WT harvested during exponential growth phase, CGXII glucose 50 mM leucine, date of experiment:2002-10/2002-11/2002-12


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB456ERH)

description:
https://www.encodeproject.org/experiments/ENCSR795NQU/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR795NQU
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR007JEX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB456ERH

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: male

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: ∆lrp (25 mM leucine) vs. ∆lrp-rep1

description: Biological replicate 1 of 2

value: delta_lrp harvested during exponential growth phase, CGXII glucose 25 mM leucine, date of experiment:2002-11/2002-12

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-11/2002-12


title: ∆lrp (25 mM leucine) vs. WT (25 mM leucine)-rep1

description: Biological replicate 1 of 2

source_name: wild type

value: WT harvested during exponential growth phase, CGXII glucose 25 mM leucine, date of experiment:2002-11/2002-12


title: Control Mint-ChIP-seq from HCT116 (ENCLB873SED)

description:
https://www.encodeproject.org/experiments/ENCSR801URS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR801URS
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB873SED

value: cell line

value: 48 year

value: colorectal carcinoma

value: adult

value: Erez Aiden

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

value: ENCBS067KQC at ENCODE; https://www.encodeproject.org/ENCBS067KQC/

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


title: Histone ChIP-seq from psoas muscle (ENCLB741VAT)

description:
https://www.encodeproject.org/experiments/ENCSR403PZH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR403PZH
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB741VAT
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: Bradley Bernstein, Broad

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 activated naive CD4-positive, alpha-beta T cell (ENCLB121PVE)

description:
https://www.encodeproject.org/experiments/ENCSR795NQU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR795NQU
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR007JEX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB121PVE

value: primary cell

value: 38 year

value: male

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: ∆lrp vs. WT-rep6

description: Biological replicate 6 of 6

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-08/2002-09/2002-10

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-08/2002-09/2002-10


title: ∆lrp (50 mM valine) vs. WT (50 mM valine)-rep2

description: Biological replicate 2 of 3

value: delta_lrp harvested during exponential growth phase, CGXII glucose 50 mM valine, date of experiment:2002-10/2002-11

value: WT harvested during exponential growth phase, CGXII glucose 50 mM valine, date of experiment:2002-10/2002-11


title: ∆lrp vs. WT-rep5

description: Biological replicate 5 of 6


title: ∆lrp vs. WT-rep4

description: Biological replicate 4 of 6


title: ∆lrp vs. WT-rep3

description: Biological replicate 3 of 6


title: Histone ChIP-seq from psoas muscle (ENCLB093XWO)

description:
https://www.encodeproject.org/experiments/ENCSR403PZH/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR403PZH
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB093XWO
size range: 200-600

value: psoas muscle

value: tissue

value: 41 year

value: female

value: adult


title: Mint-ChIP-seq from IgD-negative memory B cell (ENCLB098FGD)

description:
https://www.encodeproject.org/experiments/ENCSR790NQG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR790NQG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR737MLQ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB098FGD

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

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/


title: ∆lrp vs. WT-rep2

description: Biological replicate 2 of 6

value: delta_lrp harvested during exponential growth phase, CGXII glucose, date of experiment:2002-08/2002-09/2002-10

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-08/2002-09/2002-10


title: Histone ChIP-seq from middle frontal area 46 (ENCLB288ALF)

description:
https://www.encodeproject.org/experiments/ENCSR403PHS/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me3 ChIP-seq on middle frontal area 46 tissue male adult (90 or above years) with mild cognitive impairment
experiment encode accession: ENCSR403PHS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR105CRB
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB288ALF
size range: 200-600

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

value: middle frontal area 46

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/


title: ∆lrp vs. WT-rep1

description: Biological replicate 1 of 6


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep6

description: Biological replicate 6 of 7

source_name: deletion mutant + overexpression

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose 40 mM valine, 100 µM IPTG, date of experiment:2001-11/2001-12/2002-04

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose, date of experiment:2001-11/2001-12/2002-04


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep7

description: Biological replicate 7 of 7


title: TF ChIP-seq from MCF 10A (ENCLB231XXI)

description:
https://www.encodeproject.org/experiments/ENCSR193SZD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR193SZD
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR011HCN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB231XXI
size range: 200-600

source_name: Homo sapiens MCF 10A cell line

value: CTCF

value: MCF 10A

value: cell line

value: 36 year

value: female

value: fibrocystic disease

value: adult

value: Mats Ljungman

value: ENCBS491FRZ at ENCODE; https://www.encodeproject.org/ENCBS491FRZ/

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB023ZIG)

description:
https://www.encodeproject.org/experiments/ENCSR403PHS/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K4me3 ChIP-seq on middle frontal area 46 tissue male adult (90 or above years) with mild cognitive impairment
experiment encode accession: ENCSR403PHS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR105CRB
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB023ZIG
size range: 200-600

value: middle frontal area 46

value: tissue

value: 90 or above year

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from lower lobe of right lung (ENCLB606IOT)

description:
https://www.encodeproject.org/experiments/ENCSR788WNE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR788WNE
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR454FJM
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB606IOT
size range: 200-600

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

value: lower lobe of right lung

value: 60 year

value: male

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

value: Shin Lin

value: ENCBS706XDW at ENCODE; https://www.encodeproject.org/ENCBS706XDW/

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


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep4

description: Biological replicate 4 of 7

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose 40 mM valine, 100 µM IPTG, date of experiment:2001-11/2001-12/2002-04

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose, date of experiment:2001-11/2001-12/2002-04


title: Mint-ChIP-seq from IgD-negative memory B cell (ENCLB649XCS)

description:
https://www.encodeproject.org/experiments/ENCSR790NQG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR790NQG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR737MLQ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB649XCS

value: IgD-negative memory B cell

value: primary cell

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

value: not collected

value: healthy

value: unknown

value: David Hafler

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

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


title: Histone ChIP-seq from lower lobe of right lung (ENCLB606BVK)

description:
https://www.encodeproject.org/experiments/ENCSR788WNE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR788WNE
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR454FJM
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB606BVK
size range: 200-600

value: lower lobe of right lung

value: tissue

value: 60 year

value: adult

value: Bradley Bernstein, Broad


title: TF ChIP-seq from MCF 10A (ENCLB899WFA)

description:
https://www.encodeproject.org/experiments/ENCSR193SZD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR193SZD
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR011HCN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB899WFA
size range: 200-600

value: CTCF

value: MCF 10A

value: cell line

value: 36 year

value: female

value: fibrocystic disease

value: Mats Ljungman

value: ENCBS491FRZ at ENCODE; https://www.encodeproject.org/ENCBS491FRZ/

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


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB179PDM)

description:
https://www.encodeproject.org/experiments/ENCSR797POI/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR797POI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR239ZVK
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB179PDM

value: primary cell

value: 33 year

value: male

value: John Stamatoyannopoulos

value: ENCBS538USD at ENCODE; https://www.encodeproject.org/ENCBS538USD/

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


title: ∆lrp (25 mM leucine) vs. WT (25 mM leucine)-rep2

description: Biological replicate 2 of 2

value: delta_lrp harvested during exponential growth phase, CGXII glucose 25 mM leucine, date of experiment:2002-11/2002-12

value: WT harvested during exponential growth phase, CGXII glucose 25 mM leucine, date of experiment:2002-11/2002-12


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep2

description: Biological replicate 2 of 7

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose 40 mM valine, 100 µM IPTG, date of experiment:2001-11/2001-12/2002-04

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose, date of experiment:2001-11/2001-12/2002-04


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep3

description: Biological replicate 3 of 7


title: Mint-ChIP-seq from HCT116 (ENCLB269MOO)

description:
https://www.encodeproject.org/experiments/ENCSR191ULN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR191ULN
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR071RJS
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB269MOO

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens BRD4

value: cell line

value: 48 year

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

value: ENCBS816ZRZ at ENCODE; https://www.encodeproject.org/ENCBS816ZRZ/

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


title: Mint-ChIP-seq from HCT116 (ENCLB632GGK)

description:
https://www.encodeproject.org/experiments/ENCSR191ULN/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR191ULN
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR071RJS
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB632GGK


title: Histone ChIP-seq from middle frontal area 46 (ENCLB255GUE)

description:
https://www.encodeproject.org/experiments/ENCSR185BMK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR185BMK
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR405NKC
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB255GUE
size range: 200-600

source_name: Homo sapiens female adult (90 or above years) with Alzheimer's disease; middle frontal area 46 tissue

value: middle frontal area 46

value: tissue

value: 90 or above year

value: female

value: Rush University

value: ENCBS873GIH at ENCODE; https://www.encodeproject.org/ENCBS873GIH/

value: Derived from ENCODE donor ENCDO730UYW; https://www.encodeproject.org/ENCDO730UYW/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB940IMO)

description:
https://www.encodeproject.org/experiments/ENCSR185BMK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR185BMK
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR405NKC
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB940IMO
size range: 200-600


title: Histone ChIP-seq from right lobe of liver (ENCLB642MNL)

description:
https://www.encodeproject.org/experiments/ENCSR400GCO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR400GCO
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR886ATT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB642MNL
size range: 200-600

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

value: right lobe of liver

value: 47 year

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

value: Shin Lin

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

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


title: ∆citAB pXMJ19-citH vs. ∆citAB-rep2

description: Biological replicate 2 of 3

value: delta_citAB pXMJ19-citH harvested during exponential growth phase, CGXII 50 mM sodium citrate, 100 µM IPTG, date of experiment:2002-11/2004-01/2004-04

value: delta_citAB harvested during exponential growth phase, CGXII 50 mM sodium citrate, 100 µM IPTG, date of experiment:2002-11/2004-01/2004-04


title: Histone ChIP-seq from right lobe of liver (ENCLB936EPF)

description:
https://www.encodeproject.org/experiments/ENCSR400GCO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR400GCO
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR886ATT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB936EPF
size range: 200-600

value: adult

value: Bradley Bernstein, Broad


title: Mint-ChIP-seq from Caco-2 (ENCLB641EBL)

description:
https://www.encodeproject.org/experiments/ENCSR182ZML/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR182ZML
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR662AMW
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB641EBL

source_name: Homo sapiens Caco-2 cell line

value: cell line

value: 72 year

value: male

value: colorectal adenocarcinoma

value: Mats Ljungman

value: ENCBS257JWV at ENCODE; https://www.encodeproject.org/ENCBS257JWV/

value: Derived from ENCODE donor ENCDO000ACR; https://www.encodeproject.org/ENCDO000ACR/


title: Mint-ChIP-seq from Caco-2 (ENCLB927IFD)

description:
https://www.encodeproject.org/experiments/ENCSR182ZML/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR182ZML
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR662AMW
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB927IFD


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4) vs. WT-rep2

description: Biological replicate 2 of 2

value: WT harvested during exponential growth, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2001-10

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-10


title: WT 0.13 mM sodium phosphate (NaH2PO4 + Na2HPO4) vs WT 13.08 mM sodium phosphate (NaH2PO4 + Na2HPO4)-rep2

description: Biological replicate 2 of 2

value: WT harvested during exponential growth, CGXII glucose w/o KH2PO4, w/o K2HPO4, 0.13 mM sodium phosphate (NaH2PO4 + Na2HPO4), date of experiment:2002-05

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM sodium phosphate (NaH2PO4 + Na2HPO4), date of experiment:2002-05


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 180 min) vs. WT-rep3

description: Biological replicate 3 of 3

value: WT harvested during exponential growth phase 180 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB038FHC)

description:
https://www.encodeproject.org/experiments/ENCSR400AXJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR400AXJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR007JEX
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB038FHC

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: Histone ChIP-seq from heart right ventricle (ENCLB239EZR)

description:
https://www.encodeproject.org/experiments/ENCSR788CIY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR788CIY
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR597PTH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB239EZR
size range: 200-600

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

value: heart right ventricle

value: tissue

value: 55 year

value: male

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

value: adult

value: Bradley Bernstein, Broad

value: Shin Lin

value: ENCBS377GPP at ENCODE; https://www.encodeproject.org/ENCBS377GPP/

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


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4) vs. WT-rep1

description: Biological replicate 1 of 2

value: WT harvested during exponential growth, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2001-10

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-10


title: WT 0.13 mM sodium phosphate (NaH2PO4 + Na2HPO4) vs WT 13.08 mM sodium phosphate (NaH2PO4 + Na2HPO4)-rep1

description: Biological replicate 1 of 2

value: WT harvested during exponential growth, CGXII glucose w/o KH2PO4, w/o K2HPO4, 0.13 mM sodium phosphate (NaH2PO4 + Na2HPO4), date of experiment:2002-05

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM sodium phosphate (NaH2PO4 + Na2HPO4), date of experiment:2002-05


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 120 min) vs. WT-rep2

description: Biological replicate 2 of 3

value: WT harvested during exponential growth phase 120 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01/2002-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01/2002-11


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB711VVO)

description:
https://www.encodeproject.org/experiments/ENCSR787ZCK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR787ZCK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR358BNI
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB711VVO

source_name: Homo sapiens male adult (48 years) naive thymus-derived CD4-positive, alpha-beta T primary cell

value: primary cell

value: 48 year

value: John Stamatoyannopoulos

value: ENCBS684ANF at ENCODE; https://www.encodeproject.org/ENCBS684ANF/

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


title: Histone ChIP-seq from heart right ventricle (ENCLB241FVL)

description:
https://www.encodeproject.org/experiments/ENCSR788CIY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR788CIY
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR597PTH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB241FVL
size range: 200-600

value: heart right ventricle

value: tissue

value: 55 year

value: male

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


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 90 min) vs. WT-rep2

description: Biological replicate 2 of 3

value: WT harvested during exponential growth phase 90 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01/2002/04

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01/2002/04


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep5

description: Biological replicate 5 of 7

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose 40 mM valine, 100 µM IPTG, date of experiment:2001-11/2001-12/2002-04

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose, date of experiment:2001-11/2001-12/2002-04


title: Mint-ChIP-seq from central memory CD8-positive, alpha-beta T cell (ENCLB184FMP)

description:
https://www.encodeproject.org/experiments/ENCSR181MKJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR181MKJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR308NMT
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB184FMP

source_name: Homo sapiens male adult (36 years) central memory CD8-positive, alpha-beta T primary cell

value: 36 year

value: adult

value: Bradley Bernstein, Broad

value: ENCBS900WYP at ENCODE; https://www.encodeproject.org/ENCBS900WYP/

value: Derived from ENCODE donor ENCDO424UPQ; https://www.encodeproject.org/ENCDO424UPQ/


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 180 min) vs. WT-rep2

description: Biological replicate 2 of 3

value: WT harvested during exponential growth phase 180 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB312FLI)

description:
https://www.encodeproject.org/experiments/ENCSR400AXJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR400AXJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR007JEX
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB312FLI

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: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 180 min) vs. WT-rep1

description: Biological replicate 1 of 3


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 120 min) vs. WT-rep3

description: Biological replicate 3 of 3

value: WT harvested during exponential growth phase 120 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01/2002-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01/2002-11


title: ∆citAB pXMJ19-citH vs. ∆citAB-rep3

description: Biological replicate 3 of 3

value: delta_citAB pXMJ19-citH harvested during exponential growth phase, CGXII 50 mM sodium citrate, 100 µM IPTG, date of experiment:2002-11/2004-01/2004-04

value: delta_citAB harvested during exponential growth phase, CGXII 50 mM sodium citrate, 100 µM IPTG, date of experiment:2002-11/2004-01/2004-04


title: Mint-ChIP-seq from HCT116 (ENCLB034NZF)

description:
https://www.encodeproject.org/experiments/ENCSR787WSK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR787WSK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR853IEG
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB034NZF

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens MED14

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Erez Aiden

value: ENCBS828BDT at ENCODE; https://www.encodeproject.org/ENCBS828BDT/

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


title: ∆citAB pXMJ19-citH vs. ∆citAB-rep1

description: Biological replicate 1 of 3

source_name: deletion mutant


title: Mint-ChIP-seq from central memory CD8-positive, alpha-beta T cell (ENCLB149NZW)

description:
https://www.encodeproject.org/experiments/ENCSR181MKJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR181MKJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR308NMT
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB149NZW

value: primary cell

value: 36 year

value: adult

value: Bradley Bernstein, Broad

value: ENCBS900WYP at ENCODE; https://www.encodeproject.org/ENCBS900WYP/

value: Derived from ENCODE donor ENCDO424UPQ; https://www.encodeproject.org/ENCDO424UPQ/


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB742AHA)

description:
https://www.encodeproject.org/experiments/ENCSR787ZCK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR787ZCK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR358BNI
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB742AHA

value: John Stamatoyannopoulos

value: ENCBS684ANF at ENCODE; https://www.encodeproject.org/ENCBS684ANF/

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


title: Mint-ChIP-seq from HCT116 (ENCLB149EFJ)

description:
https://www.encodeproject.org/experiments/ENCSR787WSK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR787WSK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR853IEG
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB149EFJ


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 90 min) vs. WT-rep3

description: Biological replicate 3 of 3

value: WT harvested during exponential growth phase 90 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01/2002/04

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01/2002/04


title: Mint-ChIP-seq from HCT116 (ENCLB143SQO)

description:
https://www.encodeproject.org/experiments/ENCSR396QVA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR396QVA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR508TCS
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB143SQO

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens CDK7 treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

value: cell line

value: 48 year

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

value: ENCBS271TPC at ENCODE; https://www.encodeproject.org/ENCBS271TPC/


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 60 min) vs. WT-rep3

description: Biological replicate 3 of 3

source_name: wild type

value: WT harvested during exponential growth phase 60 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2001-12

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-12


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 90 min) vs. WT-rep1

description: Biological replicate 1 of 3


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 60 min) vs. WT-rep1

description: Biological replicate 1 of 3


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 30 min) vs. WT-rep3

description: Biological replicate 3 of 3

value: WT harvested during exponential growth phase 30 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01


title: Histone ChIP-seq from placenta (ENCLB859EBF)

description:
https://www.encodeproject.org/experiments/ENCSR181DTX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR181DTX
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR889ZOH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB859EBF
size range: 200-600

source_name: Homo sapiens female embryo placenta tissue

value: placenta

value: tissue

value: unknown

value: female

value: embryonic

value: ENCBS506MMH at ENCODE; https://www.encodeproject.org/ENCBS506MMH/

value: Derived from ENCODE donor ENCDO353NXC; https://www.encodeproject.org/ENCDO353NXC/


title: Histone ChIP-seq from placenta (ENCLB802NQA)

description:
https://www.encodeproject.org/experiments/ENCSR181DTX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR181DTX
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR889ZOH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB802NQA
size range: 200-600

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos


title: Histone ChIP-seq from psoas muscle (ENCLB917WUN)

description:
https://www.encodeproject.org/experiments/ENCSR578VID/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR578VID
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB917WUN
size range: 200-600

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

value: psoas muscle

value: 41 year

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

value: adult

value: Shin Lin

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

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


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 120 min) vs. WT-rep1

description: Biological replicate 1 of 3

value: WT harvested during exponential growth phase 120 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01/2002-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01/2002-11


title: Mint-ChIP-seq from HCT116 (ENCLB598XJR)

description:
https://www.encodeproject.org/experiments/ENCSR396QVA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR396QVA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR508TCS
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB598XJR

value: cell line

value: 48 year

value: male

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: ENCBS271TPC at ENCODE; https://www.encodeproject.org/ENCBS271TPC/

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


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 60 min) vs. WT-rep2

description: Biological replicate 2 of 3

value: WT harvested during exponential growth phase 60 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2001-12

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-12


title: Mint-ChIP-seq from central memory CD8-positive, alpha-beta T cell (ENCLB281YGN)

description:
https://www.encodeproject.org/experiments/ENCSR579TWP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR579TWP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR308NMT
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB281YGN

value: primary cell

value: 36 year

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: ENCBS900WYP at ENCODE; https://www.encodeproject.org/ENCBS900WYP/

value: Derived from ENCODE donor ENCDO424UPQ; https://www.encodeproject.org/ENCDO424UPQ/


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 30 min) vs. WT-rep2

description: Biological replicate 2 of 3

value: WT harvested during exponential growth phase 30 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01


title: Mint-ChIP-seq from central memory CD8-positive, alpha-beta T cell (ENCLB372OKH)

description:
https://www.encodeproject.org/experiments/ENCSR579TWP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR579TWP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR308NMT
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB372OKH

value: adult


title: Mint-ChIP-seq from natural killer cell (ENCLB624OMZ)

description:
https://www.encodeproject.org/experiments/ENCSR395WHQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR395WHQ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR387IEL
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB624OMZ

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: 47 year

value: male

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 effector memory CD8-positive, alpha-beta T cell (ENCLB683XJF)

description:
https://www.encodeproject.org/experiments/ENCSR179EBA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR179EBA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR995LKY
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB683XJF

source_name: Homo sapiens male adult (36 years) effector memory CD8-positive, alpha-beta T primary cell

value: ENCBS527GUI at ENCODE; https://www.encodeproject.org/ENCBS527GUI/


title: Histone ChIP-seq from psoas muscle (ENCLB393OPW)

description:
https://www.encodeproject.org/experiments/ENCSR578VID/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR578VID
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB393OPW
size range: 200-600

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: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 10 min) vs. WT-rep2

description: Biological replicate 2 of 3

value: WT harvested during exponential growth phase 10 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2001-12

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-12


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 10 min) vs. WT-rep3

description: Biological replicate 3 of 3


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 30 min) vs. WT-rep1

description: Biological replicate 1 of 3

value: WT harvested during exponential growth phase 30 min after switch to phosphate limitation, CGXII glucose 0.13 mM (KH2PO4, K2HPO4), date of experiment:2002-01

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-01


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM sn-gylcerol-3-phosphate) vs. WT-rep1

description: Biological replicate 1 of 2

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM sn-gylcerol-3-phosphate, date of experiment:2002-03

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-03


title: WT (P-Limit 0.13 mM (KH2PO4, K2HPO4), 10 min) vs. WT-rep1

description: Biological replicate 1 of 3


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB517IOQ)

description:
https://www.encodeproject.org/experiments/ENCSR179EBA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR179EBA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR995LKY
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB517IOQ

value: primary cell

value: 36 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

value: Derived from ENCODE donor ENCDO424UPQ; https://www.encodeproject.org/ENCDO424UPQ/


title: Mint-ChIP-seq from natural killer cell (ENCLB642FYQ)

description:
https://www.encodeproject.org/experiments/ENCSR395WHQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR395WHQ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR387IEL
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB642FYQ

value: natural killer cell

value: 47 year

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: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM sn-gylcerol-3-phosphate) vs. WT-rep2

description: Biological replicate 2 of 2


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM D(-)3-phosphogylceric acid) vs. WT-rep1

description: Biological replicate 1 of 2

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM D(-)3-phosphogylceric acid, date of experiment:2002-04

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-04


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM glucose-6-phosphate) vs. WT-rep1

description: Biological replicate 1 of 2

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM glucose-6-phosphate, date of experiment:2002-04


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM phosphoenolypyruvate) vs. WT-rep2

description: Biological replicate 2 of 2

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM phosphoenolypyruvate, date of experiment:2002-03


title: Control Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB085HOV)

description:
https://www.encodeproject.org/experiments/ENCSR995LKY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR995LKY
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB085HOV

value: ENCBS527GUI at ENCODE; https://www.encodeproject.org/ENCBS527GUI/


title: WT (750 mM NaCl, harvest after 180 min) vs. WT-rep3

description: Biological replicate 3 of 3

value: WT harvested during exponential growth phase 3 h after addition of NaCl, CGXII glucose, date of experiment:2001-12/2002-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-12/2002-11


title: Mint-ChIP-seq from Caco-2 (ENCLB119MQG)

description:
https://www.encodeproject.org/experiments/ENCSR995MHN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR995MHN
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR662AMW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB119MQG

value: cell line

value: 72 year

value: male

value: colorectal adenocarcinoma

value: Mats Ljungman

value: ENCBS257JWV at ENCODE; https://www.encodeproject.org/ENCBS257JWV/

value: Derived from ENCODE donor ENCDO000ACR; https://www.encodeproject.org/ENCDO000ACR/


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM phosphoenolypyruvate) vs. WT-rep1

description: Biological replicate 1 of 2

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-03


title: Mint-ChIP-seq from HCT116 (ENCLB544KCP)

description:
https://www.encodeproject.org/experiments/ENCSR175TRD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR175TRD
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR642FUX
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB544KCP

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

value: 48 year

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

value: ENCBS891BUF at ENCODE; https://www.encodeproject.org/ENCBS891BUF/

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


title: Histone ChIP-seq from right lobe of liver (ENCLB970XMF)

description:
https://www.encodeproject.org/experiments/ENCSR786ALM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR786ALM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR683VJG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB970XMF
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: Shin Lin

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

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


title: Mint-ChIP-seq from HCT116 (ENCLB266FXI)

description:
https://www.encodeproject.org/experiments/ENCSR175TRD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR175TRD
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR642FUX
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB266FXI

value: cell line

value: male


title: Mint-ChIP-seq from activated T-helper 17 cell (ENCLB690YVD)

description:
https://www.encodeproject.org/experiments/ENCSR393WAV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR393WAV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR122NDV
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB690YVD

source_name: Homo sapiens male adult (50 years) activated T-helper 17 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-helper 17 cell

value: primary cell

value: 50 year

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: ENCBS307XMP at ENCODE; https://www.encodeproject.org/ENCBS307XMP/

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


title: WT (750 mM NaCl, harvest after 180 min) vs. WT-rep1

description: Biological replicate 1 of 3

value: WT harvested during exponential growth phase 3 h after addition of NaCl, CGXII glucose, date of experiment:2001-12/2002-11

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2001-12/2002-11


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM glucose-1-phosphate) vs. WT-rep2

description: Biological replicate 2 of 2

value: WT harvested during exponential growth phase, CGXII glucose w/o KH2PO4, w/o K2HPO4, 13.08 mM glucose-1-phosphate, date of experiment:2002-04

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2002-04


title: Mint-ChIP-seq from activated T-helper 17 cell (ENCLB792MFO)

description:
https://www.encodeproject.org/experiments/ENCSR393WAV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR393WAV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR122NDV
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB792MFO

value: adult

value: Bradley Bernstein, Broad


title: WT (w/o KH2PO4, w/o K2HPO4, 13.08 mM glucose-1-phosphate) vs. WT-rep1

description: Biological replicate 1 of 2


title: Histone ChIP-seq from right lobe of liver (ENCLB721NSV)

description:
https://www.encodeproject.org/experiments/ENCSR786ALM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR786ALM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR683VJG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB721NSV
size range: 200-600

value: right lobe of liver

value: tissue

value: 16 year

value: female

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

value: child

value: Shin Lin

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


title: Histone ChIP-seq from heart right ventricle (ENCLB399XUG)

description:
https://www.encodeproject.org/experiments/ENCSR175ABH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR175ABH
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR597PTH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB399XUG
size range: 200-600

value: heart right ventricle

value: 55 year

value: male

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

value: ENCBS377GPP at ENCODE; https://www.encodeproject.org/ENCBS377GPP/

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


title: ∆panBC ∆ilvA pJC1-ilvBNCD (40 mM valine) vs. ∆panBC ∆ilvA pJC1-ilvBNCD-rep1

description: Biological replicate 1 of 7

source_name: deletion mutant + overexpression

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose 40 mM valine, 100 µM IPTG, date of experiment:2001-11/2001-12/2002-04

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII glucose, date of experiment:2001-11/2001-12/2002-04