description:
WT pEKExL-cg3287-GFP (1 mM IPTG) vs. WT pEKExL-cg3287-GFP (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

source_name: WT pEKExL-cg3287-GFP (1 mM IPTG)

value: WT pEKExL-cg3287-GFP (signal peptide from copO + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

source_name: WT pEKExL-cg3287-GFP (w/o IPTG)

value: wild type + control

value: WT pEKExL-cg3287-GFP (signal peptide from copO + GFP) harvested during exponential growth,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


status: Public on Jul 22 2022

type: RNA

city: Juelich

first: Tino

last: Polen

state: NRW

address: Wilhelm-Johnen-Str 1

department: IBG-1: Biotechnology

country: Germany

institute: Forschungszentrum Jülich GmbH

description:
WT pEKExL-cg3287-GFP (1 mM IPTG) vs. WT pEKExL-cg3287-GFP (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

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

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 + overexpression

tag: condition


description:
WT pEKExL-cg0955-GFP (1 mM IPTG, 30 min) vs. WT pEKExL-cg0955-GFP (w/o IPTG, 30 min)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase 30 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

source_name: WT pEKExL-cg0955-GFP (w/o IPTG, 30 min)

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


title: Control Mint-ChIP-seq from HCT116 (ENCLB646XDP)

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/ENCSR848XKY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR848XKY
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB646XDP

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 SMARCA5

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

value: Bradley Bernstein, Broad

tag: source

value: Erez Aiden

tag: link

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 natural killer cell (ENCLB504RBW)

description:
https://www.encodeproject.org/experiments/ENCSR639NIG/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR639NIG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR430XVL
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB504RBW

source_name: Homo sapiens female adult (41 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...

tag: antibody

value: natural killer cell

value: primary cell

value: 41 year

value: female

value: John Stamatoyannopoulos

tag: treatments

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: ENCBS492DTF at ENCODE; https://www.encodeproject.org/ENCBS492DTF/

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


title: Mint-ChIP-seq from natural killer cell (ENCLB336UYH)

description:
https://www.encodeproject.org/experiments/ENCSR639NIG/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR639NIG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR430XVL
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB336UYH


description:
WT pEKExL-cg3287-GFP (1 mM IPTG) vs. WT pEKExL-cg3287-GFP (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKExL-cg3287-GFP (signal peptide from copO + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

value: wild type + control

value: WT pEKExL-cg3287-GFP (signal peptide from copO + GFP) harvested during exponential growth,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


description:
WT pEKExL-cg0955-GFP (1 mM IPTG, 30 min) vs. WT pEKExL-cg0955-GFP (w/o IPTG, 30 min)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase 30 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


title: Control Mint-ChIP-seq from HCT116 (ENCLB437DKD)

description:
https://www.encodeproject.org/experiments/ENCSR848XKY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR848XKY
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB437DKD

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB877HTI)

description:
https://www.encodeproject.org/experiments/ENCSR847FDL/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR847FDL
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR528KGH
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB877HTI

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

value: primary cell

value: 42 year

value: John Stamatoyannopoulos

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

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


description:
WT pEKExL-cg0955-GFP (1 mM IPTG, 30 min) vs. WT pEKExL-cg0955-GFP (w/o IPTG, 30 min)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression


description:
WT pEKExL-cg0955-GFP (1 mM IPTG) vs. WT pEKExL-cg0955-GFP (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: WT pEKExL-cg0955-GFP (1 mM IPTG)

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

source_name: WT pEKExL-cg0955-GFP (w/o IPTG)

value: wild type + control

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


description:
WT pEKExL-cg0955-GFP (1 mM IPTG) vs. WT pEKExL-cg0955-GFP (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from HCT116 (ENCLB216ERU)

description:
https://www.encodeproject.org/experiments/ENCSR445VHE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR445VHE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR801URS
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB216ERU

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: 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: Control Mint-ChIP-seq from HCT116 (ENCLB721RZX)

description:
https://www.encodeproject.org/experiments/ENCSR846UXS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR846UXS
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB721RZX

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

value: cell line

value: 48 year

value: male

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


title: Control Mint-ChIP-seq from HCT116 (ENCLB704BBS)

description:
https://www.encodeproject.org/experiments/ENCSR846UXS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR846UXS
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB704BBS

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden


title: Mint-ChIP-seq from HCT116 (ENCLB145WTF)

description:
https://www.encodeproject.org/experiments/ENCSR445VHE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR445VHE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR801URS
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB145WTF


title: Mint-ChIP-seq from naive B cell (ENCLB705LPY)

description:
https://www.encodeproject.org/experiments/ENCSR842WWX/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 Mint-ChIP-seq on human naive B cell.
experiment encode accession: ENCSR842WWX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111MNI
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB705LPY
fragmentation methods: none
instrument models: Illumina NextSeq 500,Illumina NovaSeq 6000,Illumina HiSeq 2500

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

value: naive B cell

value: primary cell

tag: description

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

value: not collected

value: multiple sclerosis

value: unknown

value: David Hafler

value: ENCBS743ZAV at ENCODE; https://www.encodeproject.org/ENCBS743ZAV/

value: Derived from ENCODE donor ENCDO187BUH; https://www.encodeproject.org/ENCDO187BUH/


description:
WT pEKExL-cg0955-GFP (1 mM IPTG) vs. WT pEKExL (1 mM IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2009-10/2010-01

source_name: WT pEKExL (1 mM IPTG)

value: WT pEKExL harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2009-10/2010-01


title: Control ChIP-seq from middle frontal area 46 (ENCLB221PGP)

description:
https://www.encodeproject.org/experiments/ENCSR846OTK/
***************
biological replicate number: 1
technical replicate number: 1
description: Control ChIP-seq on middle frontal area 46 tissue male adult (90 or above years) with mild cognitive impairment.
experiment encode accession: ENCSR846OTK
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2021-12-08
lab: Bradley Bernstein, Broad
library encode accession: ENCLB221PGP
size range: 200-600

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

value: middle frontal area 46

value: tissue

value: 89 year

value: female

value: Rush University

value: ENCBS647UCT at ENCODE; https://www.encodeproject.org/ENCBS647UCT/

value: Derived from ENCODE donor ENCDO853VGZ; https://www.encodeproject.org/ENCDO853VGZ/


description:
WT pEKExL-cg0955-GFP (1 mM IPTG) vs. WT pEKExL (1 mM IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from naive B cell (ENCLB379TNS)

description:
https://www.encodeproject.org/experiments/ENCSR842WWX/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 Mint-ChIP-seq on human naive B cell.
experiment encode accession: ENCSR842WWX
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111MNI
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB379TNS
fragmentation methods: none
instrument models: Illumina NextSeq 500,Illumina NovaSeq 6000,Illumina HiSeq 2500

value: naive B cell

value: primary cell

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

value: Bradley Bernstein, Broad


description:
WT pEKEx2-TorA-cg2705 (1 mM IPTG, 4 hours) vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pEKEx2-TorA-cg2705 (signal peptide from torA + malE) harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-11/2010-12

source_name: WT pEKEx2

value: wild type + control

value: WT pEKEx2-TorA-cg2705 (signal peptide from torA + malE) harvested during exponential growth,  CGXII glucose, w/o IPTG, date of experiment:2010-11/2010-12


description:
WT pEKEx2-TorA-cg2705 (1 mM IPTG, 4 hours) vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: wild type + overexpression


title: WT pEKEx2-TorA-Soxy vs. WT pEKEx2-rep2

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

source_name: WT pEKEx2-TorA-Soxy

value: WT pEKEx2-TorA-soxy (signal peptide from torA + sorbitol/xylitol oxidase from Streptomyces coelicor) harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-01/2009-07/2009-08/2010-01

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-01/2009-07/2009-08/2010-01


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB268WIR)

description:
https://www.encodeproject.org/experiments/ENCSR260EVS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR260EVS
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR663BWX
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB268WIR

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

value: 48 year

value: male

value: adult

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

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


description:
WT pEKEx2-TorA-cg2705 (1 mM IPTG, 1 hour) vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pEKEx2-TorA-cg2705 (signal peptide from torA + malE) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-11

value: WT pEKEx2-TorA-cg2705 (signal peptide from torA + malE) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11


description:
WT pEKEx2-TorA-cg2705 (1 mM IPTG, 4 hours) vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB567XBR)

description:
https://www.encodeproject.org/experiments/ENCSR260EVS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR260EVS
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR663BWX
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB567XBR

value: primary cell


description:
WT pEKEx2-TorA-cg2705 (1 mM IPTG, 1 hour) vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB465OTF)

description:
https://www.encodeproject.org/experiments/ENCSR842MIP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR842MIP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111BQQ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB465OTF

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

value: 38 year

value: Bradley Bernstein, Broad

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

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


description:
WT pEKEx2-TorA-cg2705 (1 mM IPTG, 1 hour) vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression

value: wild type + control


description:
WT pEKExL-cg0955-GFP (1 mM IPTG) vs. WT pEKExL-cg0955-GFP (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB032DLU)

description:
https://www.encodeproject.org/experiments/ENCSR847FDL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR847FDL
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR528KGH
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB032DLU

value: male

value: 42 year

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

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


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB326EKO)

description:
https://www.encodeproject.org/experiments/ENCSR842MIP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR842MIP
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111BQQ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB326EKO

value: adult

value: John Stamatoyannopoulos


title: Control ChIP-seq from middle frontal area 46 (ENCLB393IGA)

description:
https://www.encodeproject.org/experiments/ENCSR846OTK/
***************
biological replicate number: 1
technical replicate number: 2
description: Control ChIP-seq on middle frontal area 46 tissue male adult (90 or above years) with mild cognitive impairment.
experiment encode accession: ENCSR846OTK
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2021-12-08
lab: Bradley Bernstein, Broad
library encode accession: ENCLB393IGA
size range: 200-600

value: middle frontal area 46

value: tissue

value: 89 year

value: female

value: Rush University

value: ENCBS647UCT at ENCODE; https://www.encodeproject.org/ENCBS647UCT/

value: Derived from ENCODE donor ENCDO853VGZ; https://www.encodeproject.org/ENCDO853VGZ/


description:
WT pEKExL-cg0955-GFP (1 mM IPTG) vs. WT pEKExL (1 mM IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKExL-cg0955-GFP (signal peptide from cg0955 + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2009-10/2010-01

value: WT pEKExL harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2009-10/2010-01


title: Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB237KAS)

description:
https://www.encodeproject.org/experiments/ENCSR254KHN/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR254KHN
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR414ZUR
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB237KAS

source_name: Homo sapiens male adult (36 years) stimulated activated naive CD8-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 72 hours, 100 ng/mL Interleukin-15 for 72 hours

value: primary cell

value: 36 year

value: Bradley Bernstein, Broad

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:72; duration_units:hour; treatment_term_id:UniProtKB:P40933; treatment_term_name:Interleukin-15; treatment_type:protein; duration:72; duration_units:hour;

value: ENCBS253TXN at ENCODE; https://www.encodeproject.org/ENCBS253TXN/

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 (ENCLB474KVV)

description:
https://www.encodeproject.org/experiments/ENCSR259FEJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR259FEJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR404OWA
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB474KVV

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

value: 38 year

value: male

value: adult

value: John Stamatoyannopoulos

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

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


description:
WT pEKEx2-TorA-GFP (1 mM IPTG) vs. WT pEKEx2-TorA-GFP (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: WT pEKEx2-TorA-GFP (1 mM IPTG)

value: WT pEKEx2-TorA-GFP (signal peptide from torA + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

source_name: WT pEKEx2-TorA-GFP (w/o IPTG)

value: wild type + control

value: WT pEKEx2-TorA-GFP (signal peptide from torA + GFP) harvested during exponential growth phase,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


description:
WT pEKEx2-TorA-GFP (1 mM IPTG) vs. WT pEKEx2-TorA-GFP (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression


title: Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB111EJQ)

description:
https://www.encodeproject.org/experiments/ENCSR254KHN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR254KHN
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR414ZUR
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB111EJQ


title: TF ChIP-seq from middle frontal area 46 (ENCLB836CLB)

description:
https://www.encodeproject.org/experiments/ENCSR841XDW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR841XDW
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB836CLB
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: female

value: Rush University

value: ENCBS112RAT at ENCODE; https://www.encodeproject.org/ENCBS112RAT/

value: Derived from ENCODE donor ENCDO597SRH; https://www.encodeproject.org/ENCDO597SRH/


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB689DIC)

description:
https://www.encodeproject.org/experiments/ENCSR259FEJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR259FEJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR404OWA
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB689DIC

value: primary cell

value: 38 year

value: male

value: Bradley Bernstein, Broad


title: WT pEKEx2-cgtR10 vs. WT pEKEx2-rep1

description:
WT pEKEx2-cgtR10 vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL15451

source_name: WT pEKEx2-cgtR10

value: WT pEKEx2-cgtSR10 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2011-08

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2011-08


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG, 4 hours) vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: WT pEKEx2-PhoD-GFP (1 mM IPTG, 4 hours)

value: WT pEKEx2-PhoD-GFP (signal peptide from Bacillus subtilis + GFP) harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10

value: WT pEKEx2 harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG, 4 hours) vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression


title: TF ChIP-seq from middle frontal area 46 (ENCLB364XUS)

description:
https://www.encodeproject.org/experiments/ENCSR841XDW/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR841XDW
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB364XUS
size range: 200-600

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

value: CTCF

value: adult

value: ENCBS825MDV at ENCODE; https://www.encodeproject.org/ENCBS825MDV/


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG, 1 hour) vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-PhoD-GFP (1 mM IPTG, 1 hour)

value: WT pEKEx2-PhoD-GFP (signal peptide from Bacillus subtilis + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10

value: WT pEKEx2 harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG, 1 hour) vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: TF ChIP-seq from middle frontal area 46 (ENCLB027SSZ)

description:
https://www.encodeproject.org/experiments/ENCSR841XDW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR841XDW
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB027SSZ
size range: 200-600

value: middle frontal area 46

value: tissue

value: 90 or above year

value: female

value: Rush University


title: TF ChIP-seq from middle frontal area 46 (ENCLB941MAE)

description:
https://www.encodeproject.org/experiments/ENCSR841XDW/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR841XDW
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB941MAE
size range: 200-600

value: Derived from ENCODE donor ENCDO597SRH; https://www.encodeproject.org/ENCDO597SRH/


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG, 1 hour) vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL15451


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG) vs. WT pEKEx2-PhoD-GFP (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-PhoD-GFP (1 mM IPTG)

value: WT pEKEx2-PhoD-GFP (signal peptide from Bacillus subtilis + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-05/2010-06/2010-07

source_name: WT pEKEx2-PhoD-GFP (w/o IPTG)

value: wild type + control

value: WT pEKEx2-PhoD-GFP (signal peptide from Bacillus subtilis + GFP) harvested during exponential growth phase,  CGXII glucose, w/o IPTG, date of experiment:2010-05/2010-06/2010-07


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG) vs. WT pEKEx2-PhoD-GFP (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB169PFA)

description:
https://www.encodeproject.org/experiments/ENCSR635VUW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR635VUW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR239ZVK
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB169PFA

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: male

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

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


title: Histone ChIP-seq from heart right ventricle (ENCLB300VLG)

description:
https://www.encodeproject.org/experiments/ENCSR253WND/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR253WND
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR597PTH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB300VLG
size range: 200-600

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

value: heart right ventricle

value: 55 year

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

value: adult

value: Shin Lin

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

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


title: Histone ChIP-seq from heart right ventricle (ENCLB827WLS)

description:
https://www.encodeproject.org/experiments/ENCSR253WND/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR253WND
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR597PTH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB827WLS
size range: 200-600

value: tissue


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG) vs. WT pEKEx2-PhoD-GFP (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-PhoD-GFP (signal peptide from Bacillus subtilis + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-05/2010-06/2010-07

value: wild type + control


description:
WT pEKEx2-PhoD-GFP (1 mM IPTG, 4 hours) vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pEKEx2-PhoD-GFP (signal peptide from Bacillus subtilis + GFP) harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10

source_name: WT pEKEx2

value: WT pEKEx2 harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB019WCJ)

description:
https://www.encodeproject.org/experiments/ENCSR635VUW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR635VUW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR239ZVK
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB019WCJ

value: primary cell

value: 33 year

value: male

value: Bradley Bernstein, Broad


description:
WT pEKEx2-phoA (1 mM IPTG) vs. WT pEKEx2-phoA (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-phoA (1 mM IPTG)

value: WT pEKEx2-phoA (Escherichia coli) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-10

source_name: WT pEKEx2-phoA (w/o IPTG)

value: WT pEKEx2-phoA (Escherichia coli) harvested during exponential growth phase,  CGXII glucose, w/o IPTG, date of experiment:2010-10


description:
WT pEKEx2-phoA (1 mM IPTG) vs. WT pEKEx2-phoA (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB528BRU)

description:
https://www.encodeproject.org/experiments/ENCSR635DUW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR635DUW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111BQQ
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB528BRU

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

value: 38 year

value: John Stamatoyannopoulos

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

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


description:
WT pEKEx2-phoA (1 mM IPTG) vs. WT pEKEx2-phoA (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: Histone ChIP-seq from placenta (ENCLB290TLS)

description:
https://www.encodeproject.org/experiments/ENCSR840FCT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR840FCT
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR918ESG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB290TLS
size range: 200-600

source_name: Homo sapiens male embryo placenta tissue

value: placenta

value: unknown

value: embryonic

value: ENCBS834VHU at ENCODE; https://www.encodeproject.org/ENCBS834VHU/

value: Derived from ENCODE donor ENCDO225QCT; https://www.encodeproject.org/ENCDO225QCT/


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB939GVP)

description:
https://www.encodeproject.org/experiments/ENCSR635DUW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR635DUW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR111BQQ
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB939GVP

value: adult


title: Histone ChIP-seq from middle frontal area 46 (ENCLB361XKC)

description:
https://www.encodeproject.org/experiments/ENCSR634DME/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (89 years) with Alzheimer's disease
experiment encode accession: ENCSR634DME
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR846OTK
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB361XKC
size range: 200-600

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

value: middle frontal area 46

value: tissue

value: 89 year

value: female

value: Rush University

value: ENCBS647UCT at ENCODE; https://www.encodeproject.org/ENCBS647UCT/

value: Derived from ENCODE donor ENCDO853VGZ; https://www.encodeproject.org/ENCDO853VGZ/


description:
WT pEKEx2-GFP (1 mM IPTG) vs. WT pEKEx2-GFP (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-GFP (1 mM IPTG)

value: wild type + overexpression

value: WT pEKEx2-GFP harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-06/2010-07/2010-08

source_name: WT pEKEx2-GFP (w/o IPTG)

value: wild type + control

value: WT pEKEx2-GFP harvested during exponential growth phase, CGXII glucose, w/o IPTG, date of experiment:2010-06/2010-07/2010-08


title: Histone ChIP-seq from middle frontal area 46 (ENCLB938OBC)

description:
https://www.encodeproject.org/experiments/ENCSR634DME/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (89 years) with Alzheimer's disease
experiment encode accession: ENCSR634DME
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR846OTK
encode release date: 2022-01-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB938OBC
size range: 200-600

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from placenta (ENCLB766THI)

description:
https://www.encodeproject.org/experiments/ENCSR840FCT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR840FCT
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR918ESG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB766THI
size range: 200-600

value: placenta

value: unknown

value: male

value: John Stamatoyannopoulos


description:
WT pEKEx2-TorA-GFP (1 mM IPTG) vs. WT pEKEx2-TorA-GFP (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-TorA-GFP (1 mM IPTG)

value: WT pEKEx2-TorA-GFP (signal peptide from torA + GFP) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-03/2010-04

source_name: WT pEKEx2-TorA-GFP (w/o IPTG)

value: WT pEKEx2-TorA-GFP (signal peptide from torA + GFP) harvested during exponential growth phase,  CGXII glucose, w/o IPTG, date of experiment:2010-03/2010-04


title: GRS41_51 pEKEx2-NprE-Cut (1 mM IPTG, w/o urea & MOPS, stationary phase) vs. Same strain (w/o IPTG)-Bioreac-rep1

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled, stationary phase) vs. ∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, stationary phase)-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a + overexpression

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Bioreactor, CGXII glucose, 100 µM IPTG, w/o urea and MOPS, pH controlled, date of experiment:2017-09

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Bioreactor, CGXII glucose, 100 µM IPTG, date of experiment:2017-09


description:
WT pEKEx2-GFP (1 mM IPTG) vs. WT pEKEx2-GFP (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: GRS41_51 pEKEx2-NprE-Cut (1 mM IPTG, w/o urea & MOPS, stationary phase) vs. Same strain (w/o IPTG)-Bioreac-rep2

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled, stationary phase) vs. ∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, stationary phase)-rep2
Biological replicate 2 of 2
original platform:
GPL22561


description:
WT pEKEx2-GFP (1 mM IPTG) vs. WT pEKEx2-GFP (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from stimulated activated memory B cell (ENCLB194MPZ)

description:
https://www.encodeproject.org/experiments/ENCSR439SOW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR439SOW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR655TYY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB194MPZ

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: adult

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: Control ChIP-seq from heart left ventricle (ENCLB648ROL)

description:
https://www.encodeproject.org/experiments/ENCSR632MPN/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR632MPN
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB648ROL
size range: 200-600

source_name: Homo sapiens male adult (69 years) heart left ventricle tissue

value: heart left ventricle

value: tissue

value: 69 year

value: ischemic (EF 25% LVEDD 5.7; RV mildly dilated, moderate dysfunction)

value: Bradley Bernstein, Broad

value: Shin Lin

value: ENCBS987PRB at ENCODE; https://www.encodeproject.org/ENCBS987PRB/

value: Derived from ENCODE donor ENCDO477WED; https://www.encodeproject.org/ENCDO477WED/


title: GRS41_51 pEKEx2-NprE-Cut (1 mM IPTG, w/o urea & MOPS, stationary phase) vs. Same strain (w/o IPTG)-Biolec-rep3

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled, stationary phase) vs. WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled,  stationary phase)-rep3
Biological replicate 3 of 4
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a + overexpression

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Bioreactor, CGXII glucose, 100 µM IPTG, w/o urea and MOPS, pH controlled, date of experiment:2017-09

value: wild type + overexpression

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Bioreactor, CGXII glucose 100 µM IPTG, w/o urea and MOPS, date of experiment:2017-09


title: GRS41_51 pEKEx2-NprE-Cut (1 mM IPTG, w/o urea & MOPS, stationary phase) vs. Same strain (w/o IPTG)-Biolec-rep1

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled, stationary phase) vs. WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled,  stationary phase)-rep1
Biological replicate 1 of 4
original platform:
GPL22561


title: GRS41_51 pEKEx2-NprE-Cut (1 mM IPTG, w/o urea & MOPS, stationary phase) vs. Same strain (w/o IPTG)-Biolec-rep2

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled, stationary phase) vs. WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled,  stationary phase)-rep2
Biological replicate 2 of 4
original platform:
GPL22561


title: Control ChIP-seq from heart left ventricle (ENCLB960XCL)

description:
https://www.encodeproject.org/experiments/ENCSR632MPN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR632MPN
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB960XCL
size range: 200-600

value: male


title: CGP123 iscg12 ccrB-cg2828 rrnC-tnp19a (GRS41_51) pEKEx2-NprE-Cut (1 mM IPTG) vs. WT pEKEx2-NprE-Cut (1 mM IPTG)-rep2

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG) vs. WT pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG)-rep2
Biological replicate 2 of 2
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Biolector, CGXII glucose, 100 µM IPTG, date of experiment:2017-09

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Biolector, CGXII glucose 100 µM IPTG, date of experiment:2017-09


title: Mint-ChIP-seq from activated T-cell (ENCLB044DPX)

description:
https://www.encodeproject.org/experiments/ENCSR632BON/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR632BON
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB044DPX

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: primary cell

value: 21 year

value: female

value: adult

value: John Stamatoyannopoulos

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

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

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


title: Mint-ChIP-seq from activated T-cell (ENCLB336WCD)

description:
https://www.encodeproject.org/experiments/ENCSR632BON/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR632BON
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB336WCD

value: Bradley Bernstein, Broad


description:
∆CGP123 ∆iscg12 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (1 mM IPTG) vs. WT pEKEx2-NprE-Cutinase (1 mM IPTG)-rep2
Biological replicate 2 of 2
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_rrnC-tnp19a + overexpression

value: delta_CGP123 delta_iscg12 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2017-09

source_name: WT pEKEx2-NprE-Cutinase (1 mM IPTG)

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, CGXII glucose 100 µM IPTG, date of experiment:2017-09


title: Mint-ChIP-seq from stimulated activated naive B cell (ENCLB299IQL)

description:
https://www.encodeproject.org/experiments/ENCSR839UGR/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR839UGR
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR546DAT
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB299IQL

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

value: stimulated activated naive B cell

value: 39 year

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

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

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


title: Histone ChIP-seq from upper lobe of right lung (ENCLB937KCF)

description:
https://www.encodeproject.org/experiments/ENCSR439BIB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR439BIB
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR750BQT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB937KCF
size range: 200-600

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

value: upper lobe of right lung

value: tissue

value: 60 year

value: male

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

value: Shin Lin

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

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


title: Mint-ChIP-seq from stimulated activated memory B cell (ENCLB944LIL)

description:
https://www.encodeproject.org/experiments/ENCSR439SOW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR439SOW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR655TYY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB944LIL

value: stimulated activated memory B cell

value: primary cell

value: 40 year

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

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


description:
∆CGP123 ∆iscg12 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (1 mM IPTG) vs. WT pEKEx2-NprE-Cutinase (1 mM IPTG)-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_rrnC-tnp19a + overexpression

value: delta_CGP123 delta_iscg12 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2017-09

value: wild type + overexpression

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, CGXII glucose 100 µM IPTG, date of experiment:2017-09


title: Histone ChIP-seq from upper lobe of right lung (ENCLB471QJR)

description:
https://www.encodeproject.org/experiments/ENCSR439BIB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR439BIB
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR750BQT
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB471QJR
size range: 200-600

value: upper lobe of right lung

value: tissue

value: 60 year

value: male


title: Mint-ChIP-seq from stimulated activated naive B cell (ENCLB939GKA)

description:
https://www.encodeproject.org/experiments/ENCSR839UGR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR839UGR
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR546DAT
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB939GKA

value: stimulated activated naive B cell

value: 39 year

value: female

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

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

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


title: TF ChIP-seq from right lobe of liver (ENCLB222TQK)

description:
https://www.encodeproject.org/experiments/ENCSR839NFL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR839NFL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR309LQG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB222TQK
size range: 200-600

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

value: CTCF

value: right lobe of liver

value: 41 year

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

value: adult

value: Bradley Bernstein, Broad

value: Shin Lin

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

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


title: TF ChIP-seq from right lobe of liver (ENCLB996UDZ)

description:
https://www.encodeproject.org/experiments/ENCSR839NFL/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR839NFL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR309LQG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB996UDZ
size range: 200-600

value: tissue


title: GRS41_51 pEKEx2-NprE-Cut (1 mM IPTG, w/o urea & MOPS, stationary phase) vs. Same strain (w/o IPTG)-Biolec-rep4

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled, stationary phase) vs. WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled,  stationary phase)-rep4
Biological replicate 4 of 4
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a + overexpression

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Bioreactor, CGXII glucose, 100 µM IPTG, w/o urea and MOPS, pH controlled, date of experiment:2017-09

value: wild type + overexpression

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Bioreactor, CGXII glucose 100 µM IPTG, w/o urea and MOPS, date of experiment:2017-09


title: TF ChIP-seq from right lobe of liver (ENCLB160SFE)

description:
https://www.encodeproject.org/experiments/ENCSR837OOH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR837OOH
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR683VJG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB160SFE
size range: 200-600

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

value: 16 year

value: female

value: child

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 activated T-cell (ENCLB696PRQ)

description:
https://www.encodeproject.org/experiments/ENCSR439ATJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR439ATJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR619MIA
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB696PRQ

source_name: Homo sapiens male adult (43 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: primary cell

value: 43 year

value: male

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: ENCBS496KUK at ENCODE; https://www.encodeproject.org/ENCBS496KUK/

value: Derived from ENCODE donor ENCDO106CDP; https://www.encodeproject.org/ENCDO106CDP/


title: TF ChIP-seq from right lobe of liver (ENCLB615CTY)

description:
https://www.encodeproject.org/experiments/ENCSR837OOH/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR837OOH
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR683VJG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB615CTY
size range: 200-600

value: CTCF

value: right lobe of liver

value: tissue

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

value: Bradley Bernstein, Broad

value: Shin Lin


title: CGP123 iscg12 ccrB-cg2828 rrnC-tnp19a (GRS41_51) pEKEx2-NprE-Cut (1 mM IPTG) vs. WT pEKEx2-NprE-Cut (1 mM IPTG)-rep1

description:
∆CGP123 ∆iscg12 ∆ccrB-cg2828 ∆rrnC-tnp19a pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG) vs. WT pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG)-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a + overexpression

value: delta_CGP123 delta_iscg12 delta_ccrB-cg2828 delta_rrnC-tnp19a pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Biolector, CGXII glucose, 100 µM IPTG, date of experiment:2017-09

value: wild type + overexpression

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Biolector, CGXII glucose 100 µM IPTG, date of experiment:2017-09


title: Mint-ChIP-seq from dendritic cell (ENCLB719HTI)

description:
https://www.encodeproject.org/experiments/ENCSR630SSL/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR630SSL
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR992JBX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB719HTI

source_name: Homo sapiens male adult (51 years) dendritic primary cell

value: dendritic cell

value: primary cell

value: 51 year

value: adult

value: Charles Lee

value: ENCBS682CBV at ENCODE; https://www.encodeproject.org/ENCBS682CBV/

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


title: WT pJC1-ilvBNCD vs. WT pJC1-rep4

description:
WT pJC1-ilvBNCD vs. WT pJC1-rep4
Biological replicate 4 of 5
GAL file:
CG_GAL_PCR_Layout_07.gal

source_name: WT pJC1-il

value: WT pJC1-ilvBNCD harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2002-03/2002-05

source_name: BNCD

value: wild type + control

value: WT pJC1 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2002-03/2002-05


description:
WT pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG, w/o urea) vs. WT pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG)-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase, Biolector, CGXII glucose 100 µM IPTG, w/o urea, date of experiment:2017-09


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG, 4 hours) vs. WT pEKEx2 (1 mM IPTG, 4 hours)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pEKEx2-NprE-cutinase (Fusarium solani) harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-11

source_name: WT pEKEx2 (1 mM IPTG, 4 hours)

value: WT pEKEx2 harvested during exponential growth phase 4 hours after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-11


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG, 4 hours) vs. WT pEKEx2 (1 mM IPTG, 4 hours)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


description:
WT pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG, w/o urea) vs. WT pEKEx2-NprE-Cutinase (BioLector, 1 mM IPTG)-rep2
Biological replicate 2 of 2
original platform:
GPL22561


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG, 4 hours) vs. WT pEKEx2 (1 mM IPTG, 4 hours)-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from dendritic cell (ENCLB413SXJ)

description:
https://www.encodeproject.org/experiments/ENCSR630SSL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR630SSL
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR992JBX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB413SXJ

value: male

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from psoas muscle (ENCLB604BVE)

description:
https://www.encodeproject.org/experiments/ENCSR837HEG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR837HEG
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB604BVE
size range: 200-600

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

value: psoas muscle

value: tissue

value: 41 year

value: female

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

value: Shin Lin

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

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


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG, 1 hour) vs. WT pEKEx2 (1 mM IPTG, 1 hour)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-NprE-cutinase (Fusarium solani) harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-11

source_name: WT pEKEx2 (1 mM IPTG, 1 hour)

value: WT pEKEx2 harvested during exponential growth phase 60 min after addition of 100 µM IPTG,  CGXII glucose, date of experiment:2010-11


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG, 1 hour) vs. WT pEKEx2 (1 mM IPTG, 1 hour)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + control


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG, 1 hour) vs. WT pEKEx2 (1 mM IPTG, 1 hour)-rep3
Biological replicate 3 of 3
original platform:
GPL15451


title: 234_WT pEKEx2-NprE-Cutinase-rep2

description:
WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled) vs. WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG)-rep2
Biological replicate 2 of 2
original platform:
GPL22561

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase OD 40, Bioreactor, CGXII glucose 100 µM IPTG, w/o urea and MOPS, pH controlled, date of experiment:2017-09

value: WT pEKEx2-NprE-Cutinase  (Fusarium solani) harvested during stationary growth phase OD 40, Bioreactor, CGXII glucose 100 µM IPTG, w/o urea, date of experiment:2017-09


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG) vs. WT pEKEX2-NprE-Cutinase (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pEKEx2-NprE-cutinase (Fusarium solani) (100 µM IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11, GEO:GSE140735

source_name: WT pEKEX2-NprE-Cutinase (w/o IPTG)

value: WT pEKEx2-NprE-cutinase (Fusarium solani) (w/o IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11, GEO:GSE140735


title: Mint-ChIP-seq from HCT116 (ENCLB616UXA)

description:
https://www.encodeproject.org/experiments/ENCSR253KLE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR253KLE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR898CSY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB616UXA

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

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

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

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

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


title: 233_WT pEKEx2-NprE-Cutinase-rep1

description:
WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG, w/o urea and MOPS, pH controlled) vs. WT pEKEx2-NprE-Cutinase (Bioreactor, 1 mM IPTG)-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: wild type + overexpression


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG) vs. WT pEKEX2-NprE-Cutinase (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: Histone ChIP-seq from psoas muscle (ENCLB429LXL)

description:
https://www.encodeproject.org/experiments/ENCSR837HEG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR837HEG
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR456AMX
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB429LXL
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/


description:
WT pEKEx2-NprE-Cutinase (1 mM IPTG) vs. WT pEKEX2-NprE-Cutinase (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: WT pEKEx2-NprE-cutinase (Fusarium solani) (100 µM IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11, GEO:GSE140735

value: WT pEKEx2-NprE-cutinase (Fusarium solani) (w/o IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11, GEO:GSE140735


description:
WT pEKEx2-amyH vs. WT pEKEx2-amyH (w/o SP)-rep2
Biological replicate 2 of 2
original platform:
GPL15451

source_name: WT pEKEx2-amyH

value: WT pEKEx2-amyH harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08

source_name: WT pEKEx2-amyH (w/o SP)

value: WT pEKEx2-amyH (w/o signal peptide) harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08


title: Histone ChIP-seq from lower lobe of right lung (ENCLB755XKT)

description:
https://www.encodeproject.org/experiments/ENCSR837DVF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR837DVF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR454FJM
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB755XKT
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: adult

value: Bradley Bernstein, Broad

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

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


description:
WT pEKEx2-amyH vs. WT pEKEx2-amyH (w/o SP)-rep1
Biological replicate 1 of 2
original platform:
GPL15451

value: wild type + overexpression


title: Mint-ChIP-seq from HCT116 (ENCLB161OOD)

description:
https://www.encodeproject.org/experiments/ENCSR253KLE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR253KLE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR898CSY
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB161OOD

value: cell line

value: 48 year

value: colorectal carcinoma

value: Erez Aiden

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

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

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


description:
WT pEKEx2-amyH (w/o SP) vs. WT pEKEx2-rep4
Biological replicate 4 of 4
original platform:
GPL15451

value: WT pEKEx2-amyH (w/o signal peptide) harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/200910

source_name: WT pEKEx2

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/200910


title: Histone ChIP-seq from lower lobe of right lung (ENCLB853WNK)

description:
https://www.encodeproject.org/experiments/ENCSR837DVF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR837DVF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR454FJM
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB853WNK
size range: 200-600

value: lower lobe of right lung

value: tissue

value: 60 year

value: male

value: Shin Lin


title: Control ChIP-seq from B cell (ENCLB441SRJ)

description:
https://www.encodeproject.org/experiments/ENCSR437VOU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR437VOU
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB441SRJ
size range: 200-600

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

value: B cell

value: primary cell

value: 22 year

value: adult

value: Bradley Bernstein, Broad

value: Charles Lee

value: ENCBS822FPE at ENCODE; https://www.encodeproject.org/ENCBS822FPE/

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB308YWZ)

description:
https://www.encodeproject.org/experiments/ENCSR252TQC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR252TQC
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR993YSN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB308YWZ
size range: 200-600

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

value: middle frontal area 46

value: 89 year

value: female

value: Rush University

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

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB142GGP)

description:
https://www.encodeproject.org/experiments/ENCSR252TQC/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR252TQC
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR993YSN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB142GGP
size range: 200-600

value: tissue


title: Histone ChIP-seq from placenta (ENCLB231DNW)

description:
https://www.encodeproject.org/experiments/ENCSR836FLX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR836FLX
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR889ZOH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB231DNW
size range: 200-600

source_name: Homo sapiens female embryo placenta tissue

value: placenta

value: unknown

value: embryonic

value: John Stamatoyannopoulos

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

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


description:
WT pEKEx2-amyH (w/o SP) vs. WT pEKEx2-rep3
Biological replicate 3 of 4
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-amyH (w/o signal peptide) harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/200910

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/200910


description:
WT pEKEx2-amyH (w/o SP) vs. WT pEKEx2-rep1
Biological replicate 1 of 4
original platform:
GPL15451


title: Control ChIP-seq from Caco-2 (ENCLB840ZQX)

description:
https://www.encodeproject.org/experiments/ENCSR436HPW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR436HPW
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB840ZQX
size range: 200-600

source_name: Homo sapiens Caco-2 cell line

value: cell line

value: 72 year

value: male

value: colorectal adenocarcinoma

value: adult

value: Bradley Bernstein, Broad

value: Mats Ljungman

value: ENCBS202UKI at ENCODE; https://www.encodeproject.org/ENCBS202UKI/

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


description:
WT pEKEx2-amyH (w/o SP) vs. WT pEKEx2-rep2
Biological replicate 2 of 4
original platform:
GPL15451


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

description:
WT pEKEx2-amyH vs. WT pEKEx2-rep4
Biological replicate 4 of 5
original platform:
GPL15451

value: WT pEKEx2-amyH harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/2009-10/2010-01

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/2009-10/2010-01


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

description:
WT pEKEx2-amyH vs. WT pEKEx2-rep3
Biological replicate 3 of 5
original platform:
GPL15451


title: Control ChIP-seq from Caco-2 (ENCLB493CZN)

description:
https://www.encodeproject.org/experiments/ENCSR436HPW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR436HPW
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB493CZN
size range: 200-600


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

description:
WT pEKEx2-amyH vs. WT pEKEx2-rep2
Biological replicate 2 of 5
original platform:
GPL15451


title: Mint-ChIP-seq from Calu3 (ENCLB250NHX)

description:
https://www.encodeproject.org/experiments/ENCSR433UIY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR433UIY
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR372VUZ
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB250NHX

source_name: Homo sapiens Calu3 cell line

value: 25 year

value: Lung adenocarcinoma

value: ENCBS827USO at ENCODE; https://www.encodeproject.org/ENCBS827USO/

value: Derived from ENCODE donor ENCDO109DGE; https://www.encodeproject.org/ENCDO109DGE/


title: Mint-ChIP-seq from activated T-cell (ENCLB446QCW)

description:
https://www.encodeproject.org/experiments/ENCSR439ATJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR439ATJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR619MIA
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB446QCW

source_name: Homo sapiens male adult (43 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: primary cell

value: 43 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: ENCBS496KUK at ENCODE; https://www.encodeproject.org/ENCBS496KUK/

value: Derived from ENCODE donor ENCDO106CDP; https://www.encodeproject.org/ENCDO106CDP/


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

description:
WT pEKEx2-amyH vs. WT pEKEx2-rep1
Biological replicate 1 of 5
original platform:
GPL15451

value: wild type + overexpression

value: wild type + control


title: Mint-ChIP-seq from HCT116 (ENCLB017OAO)

description:
https://www.encodeproject.org/experiments/ENCSR251QIO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR251QIO
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR853IEG
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB017OAO

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: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

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

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


description:
WT pEKEx2-amyE(D217N) (1 mM IPTG) vs. WT pEKEx2-amyE (D217N) (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: WT pEKEx2-amyE(D217N) (1 mM IPTG)

value: WT pEKEx2-amyE (amino acid exchange:D217N) (100 µM IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11/2011-11

source_name: WT pEKEx2-amyE (D217N) (w/o IPTG)

value: WT pEKEx2-amyE (amino acid exchange:D217N) (w/o IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-11/2011-11


description:
WT pEKEx2-amyE(D217N) (1 mM IPTG) vs. WT pEKEx2-amyE (D217N) (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451


description:
WT pEKEx2-amyE w/o SP (1 mM IPTG) vs. WT pEKEx2-amyE w/o SP (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: WT pEKEx2-amyE w/o SP (1 mM IPTG)

value: WT pEKEx2-amyE w/o signal peptide (100 µM IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2011-08, GEO:GSE140735

source_name: WT pEKEx2-amyE w/o SP (w/o IPTG)

value: WT pEKEx2-amyE w/o SP (w/o IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2011-08, GEO:GSE140735


title: Control ChIP-seq from B cell (ENCLB236HKZ)

description:
https://www.encodeproject.org/experiments/ENCSR437VOU/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR437VOU
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB236HKZ
size range: 200-600

value: B cell

value: primary cell

value: 22 year

value: Charles Lee

value: ENCBS822FPE at ENCODE; https://www.encodeproject.org/ENCBS822FPE/

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


description:
WT pEKEx2-amyE(D217N) (1 mM IPTG) vs. WT pEKEx2-amyE (D217N) (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression


title: Histone ChIP-seq from middle frontal area 46 (ENCLB744NYL)

description:
https://www.encodeproject.org/experiments/ENCSR433PYM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR433PYM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB744NYL
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: ENCBS112RAT at ENCODE; https://www.encodeproject.org/ENCBS112RAT/

value: Derived from ENCODE donor ENCDO597SRH; https://www.encodeproject.org/ENCDO597SRH/


title: Mint-ChIP-seq from HCT116 (ENCLB683QMR)

description:
https://www.encodeproject.org/experiments/ENCSR251QIO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR251QIO
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR853IEG
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB683QMR

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Bradley Bernstein, Broad

value: Erez Aiden

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

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


title: Histone ChIP-seq from placenta (ENCLB258ZTI)

description:
https://www.encodeproject.org/experiments/ENCSR836FLX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR836FLX
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR889ZOH
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB258ZTI
size range: 200-600

value: placenta

value: unknown

value: embryonic

value: John Stamatoyannopoulos

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 middle frontal area 46 (ENCLB094UMM)

description:
https://www.encodeproject.org/experiments/ENCSR433PYM/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR433PYM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB094UMM
size range: 200-600

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

value: middle frontal area 46

value: tissue

value: 90 or above year

value: female

value: Rush University

value: ENCBS825MDV at ENCODE; https://www.encodeproject.org/ENCBS825MDV/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB793OWJ)

description:
https://www.encodeproject.org/experiments/ENCSR433PYM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR433PYM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB793OWJ
size range: 200-600

value: adult

value: ENCBS112RAT at ENCODE; https://www.encodeproject.org/ENCBS112RAT/

value: Derived from ENCODE donor ENCDO597SRH; https://www.encodeproject.org/ENCDO597SRH/


description:
WT pEKEx2-amyE w/o SP (1 mM IPTG) vs. WT pEKEx2-amyE w/o SP (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-amyE w/o signal peptide (100 µM IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2011-08, GEO:GSE140735

value: WT pEKEx2-amyE w/o SP (w/o IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2011-08, GEO:GSE140735


title: WT pEKEx2-amyH vs. WT pEKEx2-rep5

description:
WT pEKEx2-amyH vs. WT pEKEx2-rep5
Biological replicate 5 of 5
original platform:
GPL15451

source_name: WT pEKEx2-amyH

value: WT pEKEx2-amyH harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/2009-10/2010-01

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-08/2009-09/2009-10/2010-01


description:
WT pEKEx2-amyE w/o SP (1 mM IPTG) vs. WT pEKEx2-amyE w/o SP (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: Histone ChIP-seq from middle frontal area 46 (ENCLB497DFB)

description:
https://www.encodeproject.org/experiments/ENCSR433PYM/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR433PYM
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB497DFB
size range: 200-600

value: Bradley Bernstein, Broad


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB633ABS)

description:
https://www.encodeproject.org/experiments/ENCSR833ZKV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR833ZKV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB633ABS

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

value: primary cell

value: 33 year

value: male

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 pEKEx2-amyE (1 mM IPTG) vs. WT pEKEx2-amyE (w/o IPTG)-rep2
Biological replicate 2 of 3
original platform:
GPL15451

source_name: WT pEKEx2-amyE (1 mM IPTG)

value: WT pEKEx2-amyE (100 µM IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-07, GEO:GSE140735

source_name: WT pEKEx2-amyE (w/o IPTG)

value: WT pEKEx2-amyE (w/o IPTG) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-07, GEO:GSE140735


description:
WT pEKEx2-amyE (1 mM IPTG) vs. WT pEKEx2-amyE (w/o IPTG)-rep1
Biological replicate 1 of 3
original platform:
GPL15451


title: TF ChIP-seq from heart left ventricle (ENCLB683HUL)

description:
https://www.encodeproject.org/experiments/ENCSR834XPX/
***************
biological replicate number: 1
technical replicate number: 2
description: CTCF TF ChIP-seq on heart left ventricle tissue male adult (55 years).
experiment encode accession: ENCSR834XPX
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR979YKY
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB683HUL
size range: 200-600

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

value: CTCF

value: heart left ventricle

value: tissue

value: adult

value: 55 year

value: Shin Lin

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

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

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


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB171GSI)

description:
https://www.encodeproject.org/experiments/ENCSR833ZKV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR833ZKV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB171GSI

value: primary cell

value: Bradley Bernstein, Broad


description:
WT pEKEx2-amyE (1 mM IPTG) vs. WT pEKEx2-amyE (w/o IPTG)-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: wild type + overexpression


title: TF ChIP-seq from heart left ventricle (ENCLB774TZC)

description:
https://www.encodeproject.org/experiments/ENCSR834XPX/
***************
biological replicate number: 1
technical replicate number: 1
description: CTCF TF ChIP-seq on heart left ventricle tissue male adult (55 years).
experiment encode accession: ENCSR834XPX
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR979YKY
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB774TZC
size range: 200-600

value: male


title: Mint-ChIP-seq from Calu3 (ENCLB739MZA)

description:
https://www.encodeproject.org/experiments/ENCSR433UIY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR433UIY
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR372VUZ
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB739MZA

value: cell line

value: 25 year

value: Lung adenocarcinoma

value: Mats Ljungman

value: ENCBS827USO at ENCODE; https://www.encodeproject.org/ENCBS827USO/

value: Derived from ENCODE donor ENCDO109DGE; https://www.encodeproject.org/ENCDO109DGE/


title: Mint-ChIP-seq from activated T-cell (ENCLB257SJK)

description:
https://www.encodeproject.org/experiments/ENCSR251IKC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR251IKC
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB257SJK

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

value: activated T-cell

value: 21 year

value: female

value: John Stamatoyannopoulos

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

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

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


description:
WT (5 mM 4-hydroxybenzoic acid, 30 min) vs. WT-rep1
Biological replicate 1 of 2
original platform:
GPL22561

source_name: WT (5 mM 4-hydroxybenzoic acid, 30 min)

value: wild type

value: WT harvested during exponential growth phase 30 min after addition of 5 mM 4-hydroxybenzoic acid, CGXII glucose, date of experiment:2015-01, GEO:GSE69413

source_name: WT

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2015-01, GEO:GSE69413


title: Mint-ChIP-seq from activated T-cell (ENCLB487TIP)

description:
https://www.encodeproject.org/experiments/ENCSR251IKC/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR251IKC
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB487TIP

value: primary cell

value: adult

value: Bradley Bernstein, Broad


title: Mint-ChIP-seq from activated T-cell (ENCLB192UMO)

description:
https://www.encodeproject.org/experiments/ENCSR251IKC/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR251IKC
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB192UMO


description:
WT (5 mM 3-(4-hydroxyphenyl) propionic acid, 30 min) vs. WT-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: WT harvested during exponential growth phase 30 min after addition of 5 mM 3-(4-hydroxyphenyl) propionic acid, CGXII glucose, date of experiment:2015-01, GEO:GSE69413


title: Mint-ChIP-seq from activated naive CD8-positive, alpha-beta T cell (ENCLB988KJR)

description:
https://www.encodeproject.org/experiments/ENCSR626ZPK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR626ZPK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR803FCO
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB988KJR

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

value: male

value: 30 year

value: Yijun Ruan, JAX

value: AllCells

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

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

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


title: Mint-ChIP-seq from activated T-cell (ENCLB254YTL)

description:
https://www.encodeproject.org/experiments/ENCSR251IKC/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR251IKC
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR798SDW
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB254YTL

value: activated T-cell

value: 21 year

value: female

value: John Stamatoyannopoulos

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