title: TF ChIP-seq from lower lobe of right lung (ENCLB864ZDR)

description:
https://www.encodeproject.org/experiments/ENCSR863HZM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR863HZM
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR454FJM
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB864ZDR
size range: 200-600

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

value: CTCF

value: lower lobe of right lung

value: 60 year

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

value: Shin Lin

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

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


title: 369_∆panBC ∆ilvA pJC1-ilvBNCDvs. ∆panBC ∆ilvA pJC1 (0.9 mM isoleucine, 0.5 µM pantothenate)-rep3

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:
∆panBC ∆ilvA pJC1-ilvBNCD (0.9 mM isoleucine, 0.5 µM pantothenate) vs. ∆panBC ∆ilvA pJC1 (0.9 mM isoleucine, 0.5 µM pantothenate)-rep3
Biological replicate 3 of 9
GAL file:
CG_GAL_PCR_Layout_06.gal

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

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

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

molecule: total RNA

organism: Corynebacterium glutamicum

source_name: ∆panBC ∆il

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: deletion mutant + overexpression

tag: condition

value: delta_panBC delta_ilvA pJC1-ilvBNCD harvested during exponential growth phase, CGXII 0.9 mM isoleucine, 0.5 µM pantothenate, 100 µM IPTG, date of experiment:2002-01/2002-03

source_name: A pJC1-il

value: deletion mutant + control

value: delta_panBC delta_ilvA pJC1 harvested during exponential growth phase, CGXII 0.9 mM isoleucine, 0.5 µM pantothenate, date of experiment:2002-01/2002-03


title: Histone ChIP-seq from middle frontal area 46 (ENCLB653ASD)

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/ENCSR262JRZ/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR262JRZ
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB653ASD
size range: 200-600

library_source: genomic

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

molecule: genomic DNA

organism: Homo sapiens

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

tag: antibody

value: middle frontal area 46

value: tissue

tag: biosample encode accession

tag: age

value: 90 or above year

tag: Sex

value: female

tag: dev stage

value: adult

tag: lab

value: Bradley Bernstein, Broad

tag: source

value: Rush University

tag: link

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

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB441DXQ)

description:
https://www.encodeproject.org/experiments/ENCSR262JRZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR262JRZ
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB441DXQ
size range: 200-600

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

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


title: Mint-ChIP-seq from HCT116 (ENCLB283GZX)

description:
https://www.encodeproject.org/experiments/ENCSR263BZK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR263BZK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR614CRT
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB283GZX

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens BRD4 treated with 1uM 5-Phenyl-1H-indole-3-acetic acid for 6 hours

tag: line

value: cell line

value: 48 year

value: male

tag: health state

value: colorectal carcinoma

value: Erez Aiden

tag: treatments

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

value: ENCBS087RNX at ENCODE; https://www.encodeproject.org/ENCBS087RNX/

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB017XCN)

description:
https://www.encodeproject.org/experiments/ENCSR262JRZ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR262JRZ
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB017XCN
size range: 200-600

value: middle frontal area 46

value: tissue


title: Mint-ChIP-seq from HCT116 (ENCLB249CGC)

description:
https://www.encodeproject.org/experiments/ENCSR265SCJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR265SCJ
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR500IKB
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB249CGC

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

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB613PAU)

description:
https://www.encodeproject.org/experiments/ENCSR262JRZ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR262JRZ
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR103IXF
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB613PAU
size range: 200-600

value: 90 or above year

value: female

value: adult


description:
WT pAN6-citH (50 mM sodium citrate, 5 mM CaCl2) vs. WT pAN6-citH-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pAN6-citH harvested during exponential growth phase 20 min after addition of 50 mM sodium citrate, CGXII, 5 mM CaCl2, 1 mM IPTG, date of experiment:2010-03

source_name: WT pAN6-citH

value: wild type + control

value: WT pAN6-citH harvested during exponential growth phase, CGXII, date of experiment:2010-03


description:
WT pAN6-citH (50 mM sodium citrate, 5 mM CaCl2) vs. WT pAN6-citH-rep2
Biological replicate 2 of 3
original platform:
GPL15451


title: Mint-ChIP-seq from naive B cell (ENCLB783NRI)

description:
https://www.encodeproject.org/experiments/ENCSR472MLI/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 Mint-ChIP-seq on human naive B cell
experiment encode accession: ENCSR472MLI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR119CTT
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB783NRI
fragmentation methods: none

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

value: naive B cell

value: primary cell

tag: description

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

value: not collected

value: healthy

value: unknown

value: Bradley Bernstein, Broad

value: David Hafler

value: ENCBS182GUX at ENCODE; https://www.encodeproject.org/ENCBS182GUX/

value: Derived from ENCODE donor ENCDO922TOC; https://www.encodeproject.org/ENCDO922TOC/


description:
∆esrSR pEKEx2-AmyE vs. WT pEKEx2-AmyE-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: ∆esrSR pEKEx2-AmyE

value: deletion mutant + overexpression

value: delta_esrSR pEKEx2-amyE (Bacillus subtilis) harvested during exponential growth phase 30 min after addition of 1 mM IPTG, CGXII glucose, date of experiment:2010-10/2011-07

source_name: WT pEKEx2-AmyE

value: WT pEKEx2-amyE (Bacillus subtilis) harvested during exponential growth phase 30 min after addition of 1 mM IPTG, CGXII glucose, date of experiment:2010-10/2011-07


description:
WT pAN6 (50 mM sodium citrate, 5 mM CaCl2) vs. WT pAN6-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: WT pAN6 harvested during exponential growth phase 20 min after addition of 50 mM sodium citrate, CGXII, 5 mM CaCl2, 1 mM IPTG, date of experiment:2010-03

source_name: WT pAN6

value: WT pAN6 harvested during exponential growth phase, CGXII, date of experiment:2010-03


title: Mint-ChIP-seq from HCT116 (ENCLB182KTV)

description:
https://www.encodeproject.org/experiments/ENCSR263BZK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR263BZK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR614CRT
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB182KTV

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Erez Aiden

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

value: ENCBS087RNX at ENCODE; https://www.encodeproject.org/ENCBS087RNX/

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


description:
WT pAN6 (50 mM sodium citrate, 5 mM CaCl2) vs. WT pAN6-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: wild type + control


description:
WT pAN6-citH (50 mM sodium citrate, 5 mM CaCl2) vs. WT pAN6-citH-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: wild type + overexpression

value: WT pAN6-citH harvested during exponential growth phase 20 min after addition of 50 mM sodium citrate, CGXII, 5 mM CaCl2, 1 mM IPTG, date of experiment:2010-03

value: WT pAN6-citH harvested during exponential growth phase, CGXII, date of experiment:2010-03


title: Mint-ChIP-seq from naive B cell (ENCLB838BTV)

description:
https://www.encodeproject.org/experiments/ENCSR472MLI/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 Mint-ChIP-seq on human naive B cell
experiment encode accession: ENCSR472MLI
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR119CTT
encode release date: 2022-04-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB838BTV
fragmentation methods: none

value: naive B cell

value: primary cell

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

value: not collected

value: healthy

value: unknown

value: Bradley Bernstein, Broad

value: David Hafler

value: ENCBS182GUX at ENCODE; https://www.encodeproject.org/ENCBS182GUX/

value: Derived from ENCODE donor ENCDO922TOC; https://www.encodeproject.org/ENCDO922TOC/


description:
WT pAN6 (50 mM sodium citrate, 5 mM CaCl2) vs. WT pAN6-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: WT pAN6 harvested during exponential growth phase 20 min after addition of 50 mM sodium citrate, CGXII, 5 mM CaCl2, 1 mM IPTG, date of experiment:2010-03

value: WT pAN6 harvested during exponential growth phase, CGXII, date of experiment:2010-03


title: ∆citAB vs. WT-rep1

description:
∆citAB vs. WT-rep1
Biological replicate 1 of 4
original platform:
GPL15451

source_name: ∆citAB

value: deletion mutant

value: delta_citAB harvested during exponential growth phase, CGXII glucose, date of experiment:2007-08/2007-09

source_name: WT

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-08/2007-09


title: ∆citAB vs. WT-rep3

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


title: ∆citAB vs. WT-rep2

description:
∆citAB vs. WT-rep2
Biological replicate 2 of 4
original platform:
GPL15451


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB213EAT)

description:
https://www.encodeproject.org/experiments/ENCSR656EAG/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K4me1 Mint-ChIP-seq on human naive thymus-derived CD8-positive, alpha-beta T cell
experiment encode accession: ENCSR656EAG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR546UUS
encode release date: 2021-11-18
lab: Bradley Bernstein, Broad
library encode accession: ENCLB213EAT
fragmentation methods: none

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

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

value: ENCBS872QPK at ENCODE; https://www.encodeproject.org/ENCBS872QPK/


title: TF ChIP-seq from lower lobe of right lung (ENCLB486XAK)

description:
https://www.encodeproject.org/experiments/ENCSR863HZM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR863HZM
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR454FJM
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB486XAK
size range: 200-600

value: CTCF

value: lower lobe of right lung

value: tissue

value: 60 year

value: male

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

value: adult

value: Shin Lin

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

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


title: TF ChIP-seq from CD4-positive, alpha-beta T cell (ENCLB607ERO)

description:
https://www.encodeproject.org/experiments/ENCSR470KCE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR470KCE
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR679HAK
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB607ERO
size range: 200-600

source_name: Homo sapiens male adult (20 years) CD4-positive, alpha-beta T primary cell

value: CD4-positive, alpha-beta T cell

value: primary cell

value: 20 year

value: Bradley Bernstein, Broad

value: Charles Lee

value: ENCBS636BLJ at ENCODE; https://www.encodeproject.org/ENCBS636BLJ/

value: Derived from ENCODE donor ENCDO394DKX; https://www.encodeproject.org/ENCDO394DKX/


title: Mint-ChIP-seq from HCT116 (ENCLB607NVS)

description:
https://www.encodeproject.org/experiments/ENCSR861IAK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR861IAK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR801URS
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB607NVS

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

value: cell line

value: 48 year

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

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


title: Mint-ChIP-seq from naive B cell (ENCLB813IFW)

description:
https://www.encodeproject.org/experiments/ENCSR859TJT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR859TJT
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR056PPJ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB813IFW

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

value: naive B cell

value: 40 year

value: male

value: adult

value: John Stamatoyannopoulos

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

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


title: Mint-ChIP-seq from HCT116 (ENCLB894EZB)

description:
https://www.encodeproject.org/experiments/ENCSR470GVV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR470GVV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR642FUX
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB894EZB

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens RAD21

value: Bradley Bernstein, Broad

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


title: Control Mint-ChIP-seq from HCT116 (ENCLB986NSA)

description:
https://www.encodeproject.org/experiments/ENCSR861TAI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR861TAI
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB986NSA

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

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


title: WT pEKEx2-Hfq (K2) vs. WT pEKEx2-rep1

description:
WT pEKEx2-Hfq (K2) vs. WT pEKEx2-rep1
Biological replicate 1 of 2
original platform:
GPL22792

source_name: WT pEKEx2-Hfq (K2)

value: wild type + overexpression

value: WT pEKEx2-hfq (Escherichia coli) harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12

source_name: WT pEKEx2

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12


title: Mint-ChIP-seq from naive B cell (ENCLB208KXV)

description:
https://www.encodeproject.org/experiments/ENCSR859TJT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR859TJT
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR056PPJ
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB208KXV

value: primary cell


title: ∆citAB vs. WT-rep4

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

value: deletion mutant

value: delta_citAB harvested during exponential growth phase, CGXII glucose, date of experiment:2007-08/2007-09

value: wild type

value: WT harvested during exponential growth phase, CGXII glucose, date of experiment:2007-08/2007-09


title: Control Mint-ChIP-seq from HCT116 (ENCLB387WUT)

description:
https://www.encodeproject.org/experiments/ENCSR861TAI/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR861TAI
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB387WUT

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Erez Aiden

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

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


title: WT pEKEx2-Hfq (K3) vs. WT pEKEx2-rep1

description:
WT pEKEx2-Hfq (K3) vs. WT pEKEx2-rep1
Biological replicate 1 of 2
original platform:
GPL22792

source_name: WT pEKEx2-Hfq (K3)


title: Mint-ChIP-seq from HCT116 (ENCLB657PBS)

description:
https://www.encodeproject.org/experiments/ENCSR470GVV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR470GVV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR642FUX
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB657PBS

value: adult

value: Bradley Bernstein, Broad

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


title: Mint-ChIP-seq from HCT116 (ENCLB322XVP)

description:
https://www.encodeproject.org/experiments/ENCSR861IAK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR861IAK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR801URS
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB322XVP

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


title: TF ChIP-seq from CD4-positive, alpha-beta T cell (ENCLB436LGE)

description:
https://www.encodeproject.org/experiments/ENCSR470KCE/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR470KCE
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR679HAK
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB436LGE
size range: 200-600

value: CTCF

value: CD4-positive, alpha-beta T cell

value: 20 year

value: Charles Lee

value: ENCBS636BLJ at ENCODE; https://www.encodeproject.org/ENCBS636BLJ/

value: Derived from ENCODE donor ENCDO394DKX; https://www.encodeproject.org/ENCDO394DKX/


title: Mint-ChIP-seq from naive thymus-derived CD8-positive, alpha-beta T cell (ENCLB522UIL)

description:
https://www.encodeproject.org/experiments/ENCSR656EAG/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 Mint-ChIP-seq on human naive thymus-derived CD8-positive, alpha-beta T cell
experiment encode accession: ENCSR656EAG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR546UUS
encode release date: 2021-11-18
lab: Bradley Bernstein, Broad
library encode accession: ENCLB522UIL
fragmentation methods: none

value: primary cell

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

value: not collected

value: healthy

value: unknown

value: David Hafler

value: ENCBS872QPK at ENCODE; https://www.encodeproject.org/ENCBS872QPK/

value: Derived from ENCODE donor ENCDO922TOC; https://www.encodeproject.org/ENCDO922TOC/


title: Control Mint-ChIP-seq from stimulated activated memory B cell (ENCLB784TDJ)

description:
https://www.encodeproject.org/experiments/ENCSR655TYY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR655TYY
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-04-26
lab: Bradley Bernstein, Broad
library encode accession: ENCLB784TDJ

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: 40 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

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

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


title: WT pEKEx2-Hfq (K3) vs. WT pEKEx2-rep2

description:
WT pEKEx2-Hfq (K3) vs. WT pEKEx2-rep2
Biological replicate 2 of 2
original platform:
GPL22792

value: wild type + overexpression

value: WT pEKEx2-hfq (Escherichia coli) harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12


title: TF ChIP-seq from CD4-positive, alpha-beta T cell (ENCLB900NWY)

description:
https://www.encodeproject.org/experiments/ENCSR470KCE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR470KCE
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR679HAK
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB900NWY
size range: 200-600

value: CTCF

value: CD4-positive, alpha-beta T cell

value: primary cell

value: 20 year

value: Charles Lee

value: ENCBS636BLJ at ENCODE; https://www.encodeproject.org/ENCBS636BLJ/

value: Derived from ENCODE donor ENCDO394DKX; https://www.encodeproject.org/ENCDO394DKX/


title: WT pEKEx2-int2 vs. WT pEKEx2-rep3

description:
WT pEKEx2-int2 vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-int2

value: WT pEKEx2-int2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03


title: Control Mint-ChIP-seq from stimulated activated memory B cell (ENCLB311YOL)

description:
https://www.encodeproject.org/experiments/ENCSR655TYY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR655TYY
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-04-26
lab: Bradley Bernstein, Broad
library encode accession: ENCLB311YOL

value: stimulated activated memory B cell

value: 40 year

value: male

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos


title: WT pEKEx2-Hfq (K1) vs. WT pEKEx2-rep2

description:
WT pEKEx2-Hfq (K1) vs. WT pEKEx2-rep2
Biological replicate 2 of 2
original platform:
GPL22792

source_name: WT pEKEx2-Hfq (K1)

value: wild type + overexpression

value: WT pEKEx2-hfq (Escherichia coli) harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12

value: wild type + control


title: WT pEKEx2-malR vs. WT-rep1

description:
WT pEKEx2-malR vs. WT-rep1
Biological replicate 1 of 3
original platform:
GPL22561

source_name: WT pEKEx2-malR

value: WT pEKEx2-malR harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2017-05, GEO:GSE116655

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2017-05, GEO:GSE116655


title: WT pEKEx2-Hfq (K2) vs. WT pEKEx2-rep2

description:
WT pEKEx2-Hfq (K2) vs. WT pEKEx2-rep2
Biological replicate 2 of 2
original platform:
GPL22792

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12


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

description:
WT pEKEx2-cpdA vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL22794

source_name: WT pEKEx2-cpdA

value: WT pEKEx2-cpdA harvested during exponential growth phase, CGXII glucose, 250 µM IPTG, date of experiment:2015-08, GEO:GSE81004

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 250 µM IPTG, date of experiment:2015-08, GEO:GSE81004


title: WT pEKEx2-malR vs. WT-rep3

description:
WT pEKEx2-malR vs. WT-rep3
Biological replicate 3 of 3
original platform:
GPL22561


title: WT pEKEx2-malR vs. WT-rep2

description:
WT pEKEx2-malR vs. WT-rep2
Biological replicate 2 of 3
original platform:
GPL22561


title: Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB975MQH)

description:
https://www.encodeproject.org/experiments/ENCSR651PFT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR651PFT
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR897UBR
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB975MQH

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 , 10 ng/mL Interleukin-2

value: primary cell

value: 30 year

value: Yijun Ruan, JAX

value: AllCells

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

value: ENCBS715FVA at ENCODE; https://www.encodeproject.org/ENCBS715FVA/

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


title: Mint-ChIP-seq from Caco-2 (ENCLB770MHM)

description:
https://www.encodeproject.org/experiments/ENCSR468FIA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR468FIA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR662AMW
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB770MHM

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

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


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB104NOX)

description:
https://www.encodeproject.org/experiments/ENCSR261QIE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR261QIE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB104NOX

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

value: 33 year

value: John Stamatoyannopoulos

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

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB144KNS)

description:
https://www.encodeproject.org/experiments/ENCSR858ASK/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (90 or above years) with Alzheimer's disease.
experiment encode accession: ENCSR858ASK
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR968MKZ
encode release date: 2022-02-04
lab: Bradley Bernstein, Broad
library encode accession: ENCLB144KNS
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: female

value: 90 or above year

value: Rush University

value: ENCBS788LTG at ENCODE; https://www.encodeproject.org/ENCBS788LTG/

value: Derived from ENCODE donor ENCDO865EMM; https://www.encodeproject.org/ENCDO865EMM/


title: WT pEKEx2-cgtR6 vs. WT pEKEX2-rep2

description:
WT pEKEx2-cgtR6 vs. WT pEKEX2-rep2
Biological replicate 2 of 4
original platform:
GPL15451

source_name: WT pEKEx2-cgtR6

value: wild type + overexpression

value: WT pEKEx2-cgtR6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2011-11/2012-01

source_name: WT pEKEX2

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2011-11/2012-01


title: WT pEKEx2-cgtR6 vs. WT pEKEX2-rep3

description:
WT pEKEx2-cgtR6 vs. WT pEKEX2-rep3
Biological replicate 3 of 4
original platform:
GPL15451


title: WT pAN6-cg1978 vs. WT pAN6-rep7

description:
WT pAN6-cg1978 vs. WT pAN6-rep7
Biological replicate 7 of 7
original platform:
GPL22794

source_name: WT pAN6-cg1978

value: WT pAN6-cg1978 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

source_name: WT pAN6

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2018-08


title: Histone ChIP-seq from middle frontal area 46 (ENCLB576JYS)

description:
https://www.encodeproject.org/experiments/ENCSR858ASK/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (90 or above years) with Alzheimer's disease.
experiment encode accession: ENCSR858ASK
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR968MKZ
encode release date: 2022-02-04
lab: Bradley Bernstein, Broad
library encode accession: ENCLB576JYS
size range: 200-600

value: adult

value: Bradley Bernstein, Broad


title: WT pEKEx2-cgtR6 vs. WT pEKEX2-rep1

description:
WT pEKEx2-cgtR6 vs. WT pEKEX2-rep1
Biological replicate 1 of 4
original platform:
GPL15451


title: WT pEKEx2-Hfq (K1) vs. WT pEKEx2-rep1

description:
WT pEKEx2-Hfq (K1) vs. WT pEKEx2-rep1
Biological replicate 1 of 2
original platform:
GPL22792

value: WT pEKEx2-hfq (Escherichia coli) harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 700 µM IPTG, date of experiment:2013-12


title: WT pEKEx2-cgtR6 vs. WT pEKEX2-rep4

description:
WT pEKEx2-cgtR6 vs. WT pEKEX2-rep4
Biological replicate 4 of 4
original platform:
GPL15451


title: Mint-ChIP-seq from HCT116 (ENCLB756CSY)

description:
https://www.encodeproject.org/experiments/ENCSR260MFW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR260MFW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR861TAI
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB756CSY

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

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Erez Aiden

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

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

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


title: WT pAN6-cg1978 vs. WT pAN6-rep4

description:
WT pAN6-cg1978 vs. WT pAN6-rep4
Biological replicate 4 of 7
original platform:
GPL22794

value: wild type + overexpression


title: Mint-ChIP-seq from HCT116 (ENCLB974GII)

description:
https://www.encodeproject.org/experiments/ENCSR649DZS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR649DZS
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR933ZIE
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB974GII

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

value: ENCBS169OGM at ENCODE; https://www.encodeproject.org/ENCBS169OGM/


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

description:
WT pEKEx2-cpdA vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL22794

value: WT pEKEx2-cpdA harvested during exponential growth phase, CGXII glucose, 250 µM IPTG, date of experiment:2015-08, GEO:GSE81004

source_name: WT pEKEx2

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 250 µM IPTG, date of experiment:2015-08, GEO:GSE81004


title: WT pAN6-cg1978 vs. WT pAN6-rep3

description:
WT pAN6-cg1978 vs. WT pAN6-rep3
Biological replicate 3 of 7
original platform:
GPL22794

value: WT pAN6-cg1978 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2018-08


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

description:
WT pEKEx2-cpdA vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL22794


title: WT pEKEx2-int2 vs. WT pEKEx2-rep2

description:
WT pEKEx2-int2 vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: WT pEKEx2-int2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB061QWU)

description:
https://www.encodeproject.org/experiments/ENCSR261QIE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR261QIE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB061QWU

value: primary cell

value: 33 year

value: adult

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

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


title: WT pAN6-cg1978 vs. WT pAN6-rep6

description:
WT pAN6-cg1978 vs. WT pAN6-rep6
Biological replicate 6 of 7
original platform:
GPL22794


description:
WT Pcg1974-eyfp pAN6-N-cgpS (150 µM IPTG) vs. WT Pcg1974-eyfp pAN6-N-cgpS (w/o IPTG)-rep2
Biological replicate 2 of 2
original platform:
GPL22794

value: wild type (promoter-fusion) + overexpression

value: WT Pcg1974-eyfp pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2016-03

source_name: WT Pcg1974-eyfp pAN6-N-cgpS (w/o IPTG)

value: wild type (promoter-fusion) + control

value: WT Pcg1974-eyfp pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, w/o IPTG, date of experiment:2016-03


title: WT pEKEx2-int2 vs. WT pEKEx2-rep1

description:
WT pEKEx2-int2 vs. WT pEKEx2-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: wild type + overexpression

value: wild type + control


title: Mint-ChIP-seq from HCT116 (ENCLB309TRR)

description:
https://www.encodeproject.org/experiments/ENCSR260MFW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR260MFW
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR861TAI
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB309TRR

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Erez Aiden

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

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

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


title: WT pAN6-cg1978 vs. WT pAN6-rep5

description:
WT pAN6-cg1978 vs. WT pAN6-rep5
Biological replicate 5 of 7
original platform:
GPL22794

value: WT pAN6-cg1978 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2018-08


title: Mint-ChIP-seq from HCT116 (ENCLB729MMG)

description:
https://www.encodeproject.org/experiments/ENCSR649DZS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR649DZS
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR933ZIE
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB729MMG

value: adult

value: Bradley Bernstein, Broad

value: ENCBS169OGM at ENCODE; https://www.encodeproject.org/ENCBS169OGM/


title: Histone ChIP-seq from middle frontal area 46 (ENCLB125NNC)

description:
https://www.encodeproject.org/experiments/ENCSR857HWF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR857HWF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR243LHN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB125NNC
size range: 200-600

value: middle frontal area 46

value: tissue

value: 90 or above year

value: female

value: Rush University

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

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB768YYW)

description:
https://www.encodeproject.org/experiments/ENCSR857HWF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR857HWF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR243LHN
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB768YYW
size range: 200-600


title: Mint-ChIP-seq from Caco-2 (ENCLB472CZN)

description:
https://www.encodeproject.org/experiments/ENCSR468FIA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR468FIA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR662AMW
encode release date: 2022-06-02
lab: Bradley Bernstein, Broad
library encode accession: ENCLB472CZN

value: cell line

value: 72 year

value: male

value: colorectal adenocarcinoma

value: Mats Ljungman

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

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


title: WT pAN6-cg1978 vs. WT pAN6-rep1

description:
WT pAN6-cg1978 vs. WT pAN6-rep1
Biological replicate 1 of 7
original platform:
GPL22794

value: wild type + overexpression

value: WT pAN6-cg1978 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

value: wild type + control

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2018-08


description:
WT pAN6-N terminal-cgpS vs. WT pAN6-rep2
Biological replicate 2 of 3
original platform:
GPL22561

source_name: WT pAN6-N terminal-cgpS

value: WT pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2015-03, GEO:GSE80674

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2015-03, GEO:GSE80674


title: Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB757TJY)

description:
https://www.encodeproject.org/experiments/ENCSR651PFT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR651PFT
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR897UBR
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB757TJY

value: primary cell

value: adult

value: 30 year

value: Yijun Ruan, JAX

value: AllCells

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

value: ENCBS715FVA at ENCODE; https://www.encodeproject.org/ENCBS715FVA/

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


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB173YMS)

description:
https://www.encodeproject.org/experiments/ENCSR855OKE/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR855OKE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR885JZJ
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB173YMS

source_name: Homo sapiens male adult (50 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: 50 year

value: male

value: Bradley Bernstein, Broad

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: ENCBS572PDL at ENCODE; https://www.encodeproject.org/ENCBS572PDL/

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


description:
WT Pcg1974-eyfp pAN6-N-cgpS (150 µM IPTG) vs. WT Pcg1974-eyfp pAN6-N-cgpS (w/o IPTG)-rep1
Biological replicate 1 of 2
original platform:
GPL22794

value: wild type (promoter-fusion) + overexpression

value: WT Pcg1974-eyfp pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2016-03

value: wild type (promoter-fusion) + control

value: WT Pcg1974-eyfp pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, w/o IPTG, date of experiment:2016-03


title: TF ChIP-seq from natural killer cell (ENCLB811BQO)

description:
https://www.encodeproject.org/experiments/ENCSR856TKC/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR856TKC
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR731SZG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB811BQO
size range: 200-600

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

value: CTCF

value: natural killer cell

value: primary cell

value: 33 year

value: adult

value: Charles Lee

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

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


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB041EKT)

description:
https://www.encodeproject.org/experiments/ENCSR855OKE/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR855OKE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR885JZJ
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB041EKT

value: 50 year

value: male

value: Bradley Bernstein, Broad


description:
WT pEKEx2-ihf vs. WT pEKEx2 Operon-Oligo-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-ihf

value: wild type + overexpression

value: WT pEKEx2-ihf harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03

source_name: WT pEKEx2 Operon-Oligo

value: wild type + control

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03


title: TF ChIP-seq from natural killer cell (ENCLB527JOS)

description:
https://www.encodeproject.org/experiments/ENCSR856TKC/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR856TKC
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR731SZG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB527JOS
size range: 200-600


title: Histone ChIP-seq from placenta (ENCLB071SXO)

description:
https://www.encodeproject.org/experiments/ENCSR648GKF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR648GKF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR918ESG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB071SXO
size range: 200-600

source_name: Homo sapiens male embryo placenta tissue

value: placenta

value: tissue

value: unknown

value: embryonic

value: John Stamatoyannopoulos

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

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


title: WT pAN6-cg1914 vs. WT pAN6-rep2

description:
WT pAN6-cg1914 vs. WT pAN6-rep2
Biological replicate 2 of 3
original platform:
GPL22794

source_name: WT pAN6-cg1914

value: WT pAN6-cg1914 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08


title: Control ChIP-seq from WTC11 (ENCLB724AUH)

description:
https://www.encodeproject.org/experiments/ENCSR463ZLQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR463ZLQ
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB724AUH
size range: 200-600

source_name: Homo sapiens WTC11 cell line

value: cell line

value: adult

value: 30 year

value: Yin Shen

tag: passage number

value: ENCBS532TBS at ENCODE; https://www.encodeproject.org/ENCBS532TBS/

value: Derived from ENCODE donor ENCDO882UJI; https://www.encodeproject.org/ENCDO882UJI/


title: Histone ChIP-seq from placenta (ENCLB955OYX)

description:
https://www.encodeproject.org/experiments/ENCSR648GKF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR648GKF
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR918ESG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB955OYX
size range: 200-600

value: male

value: Bradley Bernstein, Broad


description:
WT pAN6-N terminal-cgpS vs. WT pAN6-rep3
Biological replicate 3 of 3
original platform:
GPL22561

value: wild type + overexpression

value: WT pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2015-03, GEO:GSE80674

value: wild type + control

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2015-03, GEO:GSE80674


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB786ZEU)

description:
https://www.encodeproject.org/experiments/ENCSR855OKE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR855OKE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR885JZJ
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB786ZEU

value: primary cell

value: 50 year

value: John Stamatoyannopoulos

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

value: ENCBS572PDL at ENCODE; https://www.encodeproject.org/ENCBS572PDL/

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


title: Control ChIP-seq from WTC11 (ENCLB358ECY)

description:
https://www.encodeproject.org/experiments/ENCSR463ZLQ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR463ZLQ
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB358ECY
size range: 200-600

value: cell line

value: adult

value: ENCBS869UGY at ENCODE; https://www.encodeproject.org/ENCBS869UGY/


description:
WT pEKEx2-ihf vs. WT pEKEx2 Agilent-Oligo-rep3
Biological replicate 3 of 3
original platform:
GPL17304

value: WT pEKEx2-ihf harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-04

source_name: WT pEKEx2 Agilent-Oligo

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-04


description:
WT pEKEx2-ihf vs. WT pEKEx2 Operon-Oligo-rep2
Biological replicate 2 of 3
original platform:
GPL15451

value: WT pEKEx2-ihf harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03


title: WT pAN6-cgpS-Strep vs. WT pAN6-rep2

description:
WT pAN6-cgpS-Strep vs. WT pAN6-rep2
Biological replicate 2 of 2
original platform:
GPL22561

source_name: WT pAN6-cgpS-Strep

value: wild type + overexpression

value: WT pAN6-cgpS-Strep harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2014-08

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2014-08


title: Mint-ChIP-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB571DHD)

description:
https://www.encodeproject.org/experiments/ENCSR855OKE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR855OKE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR885JZJ
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB571DHD

value: male

value: Bradley Bernstein, Broad


title: WT pAN6-cgpS-Strep vs. WT pAN6-rep1

description:
WT pAN6-cgpS-Strep vs. WT pAN6-rep1
Biological replicate 1 of 2
original platform:
GPL22561

value: wild type + control


description:
WT pAN6-N terminal-cgpS vs. WT pAN6-rep1
Biological replicate 1 of 3
original platform:
GPL22561

value: WT pAN6-N terminal-cgpS harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2015-03, GEO:GSE80674

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2015-03, GEO:GSE80674


title: TF ChIP-seq from natural killer cell (ENCLB088MEP)

description:
https://www.encodeproject.org/experiments/ENCSR856TKC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR856TKC
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR731SZG
encode release date: 2022-06-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB088MEP
size range: 200-600

value: CTCF

value: natural killer cell

value: primary cell

value: 33 year

value: Charles Lee

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

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


description:
WT pEKEx2-ihf vs. WT pEKEx2 Agilent-Oligo-rep1
Biological replicate 1 of 3
original platform:
GPL17304

value: WT pEKEx2-ihf harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-04

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-04


title: Control ChIP-seq from WTC11 (ENCLB285IBF)

description:
https://www.encodeproject.org/experiments/ENCSR463ZLQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR463ZLQ
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB285IBF
size range: 200-600

value: cell line

value: adult

value: 30 year

value: Yin Shen

value: ENCBS532TBS at ENCODE; https://www.encodeproject.org/ENCBS532TBS/

value: Derived from ENCODE donor ENCDO882UJI; https://www.encodeproject.org/ENCDO882UJI/


title: Control Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB830EMK)

description:
https://www.encodeproject.org/experiments/ENCSR457KLD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR457KLD
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB830EMK

source_name: Homo sapiens male adult (33 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: male

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

value: ENCBS261THR at ENCODE; https://www.encodeproject.org/ENCBS261THR/

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


title: WT pAN6-cg1914 vs. WT pAN6-rep3

description:
WT pAN6-cg1914 vs. WT pAN6-rep3
Biological replicate 3 of 3
original platform:
GPL22794

value: wild type + overexpression

value: WT pAN6-cg1914 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

value: wild type + control

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08


title: WT pAN6-cg1914 vs. WT pAN6-rep1

description:
WT pAN6-cg1914 vs. WT pAN6-rep1
Biological replicate 1 of 3
original platform:
GPL22794


title: WT pEKEx2-cgtR10 vs. WT pEKEx2-rep2

description:
WT pEKEx2-cgtR10 vs. WT pEKEx2-rep2
Biological replicate 2 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-ihf vs. WT pEKEx2 Operon-Oligo-rep1
Biological replicate 1 of 3
original platform:
GPL15451

value: WT pEKEx2-ihf harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-03


title: WT pAN6-cg1978 vs. WT pAN6-rep2

description:
WT pAN6-cg1978 vs. WT pAN6-rep2
Biological replicate 2 of 7
original platform:
GPL22794

source_name: WT pAN6-cg1978

value: WT pAN6-cg1978 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2018-08

source_name: WT pAN6

value: WT pAN6 harvested during exponential growth phase, CGXII glucose, 150 µM IPTG, date of experiment:2018-08


title: Control Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB834VEH)

description:
https://www.encodeproject.org/experiments/ENCSR457KLD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR457KLD
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB834VEH

value: primary cell

value: 33 year

value: adult


title: Control Mint-ChIP-seq from natural killer cell (ENCLB449ZLV)

description:
https://www.encodeproject.org/experiments/ENCSR457FTM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR457FTM
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB449ZLV

value: natural killer cell

value: male

value: Bradley Bernstein, Broad

value: Charles Lee

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

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


title: WT pEKEx2-cgtR10 vs. WT pEKEx2-rep3

description:
WT pEKEx2-cgtR10 vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

value: wild type + overexpression

value: wild type + control


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB399RAX)

description:
https://www.encodeproject.org/experiments/ENCSR855NRE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR855NRE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR358BNI
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB399RAX

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

value: 48 year

value: John Stamatoyannopoulos

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

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


description:
WT pEKEx2-ihf vs. WT pEKEx2 Agilent-Oligo-rep2
Biological replicate 2 of 3
original platform:
GPL17304

value: WT pEKEx2-ihf harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-04

value: WT pEKEx2 harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2012-04


title: Control ChIP-seq from psoas muscle (ENCLB656HKZ)

description:
https://www.encodeproject.org/experiments/ENCSR456AMX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR456AMX
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB656HKZ
size range: 200-600

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

value: psoas muscle

value: tissue

value: 41 year

value: female

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

value: Shin Lin

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

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


title: Mint-ChIP-seq from activated naive CD8-positive, alpha-beta T cell (ENCLB337GGV)

description:
https://www.encodeproject.org/experiments/ENCSR454THA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR454THA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR803FCO
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB337GGV

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: primary cell

value: male

value: adult

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: Control ChIP-seq from lower lobe of right lung (ENCLB771EKC)

description:
https://www.encodeproject.org/experiments/ENCSR454FJM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR454FJM
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB771EKC
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: DM:no; HTN:yes; CAD:no; lungs with severe emphysema

value: Bradley Bernstein, Broad

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

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


title: Control ChIP-seq from psoas muscle (ENCLB650JJH)

description:
https://www.encodeproject.org/experiments/ENCSR456AMX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR456AMX
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB650JJH
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/


title: WT pJC1-accBC vs. WT pJC1-rep2

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

source_name: WT pJC1-accBC

value: wild type + overexpression

value: WT pJC1-accBC harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2014-02

source_name: WT pJC1

value: wild type + control

value: WT pJC1 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2014-02


title: WT pEKEx2-cgtR1 vs. WT pEKEx2-rep2

description:
WT pEKEx2-cgtR1 vs. WT pEKEx2-rep2
Biological replicate 2 of 4
original platform:
GPL15451

source_name: WT pEKEx2-cgtR1

value: WT pEKEx2-cgtR1 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2011-10/2011-11/2012-01

source_name: WT pEKEx2

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2011-10/2011-11/2012-01


title: Mint-ChIP-seq from activated naive CD8-positive, alpha-beta T cell (ENCLB492SJG)

description:
https://www.encodeproject.org/experiments/ENCSR454THA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR454THA
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR803FCO
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB492SJG

value: primary cell

value: male

value: adult

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 effector memory CD8-positive, alpha-beta T cell (ENCLB837BIN)

description:
https://www.encodeproject.org/experiments/ENCSR644HZK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR644HZK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB837BIN

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

value: 33 year

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

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


title: WT pEKEx2-cgtR1 vs. WT pEKEx2-rep1

description:
WT pEKEx2-cgtR1 vs. WT pEKEx2-rep1
Biological replicate 1 of 4
original platform:
GPL15451

value: wild type + overexpression

value: wild type + control


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB404OUW)

description:
https://www.encodeproject.org/experiments/ENCSR855NRE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR855NRE
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR358BNI
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB404OUW

value: 48 year

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

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


title: Control ChIP-seq from lower lobe of right lung (ENCLB392SQI)

description:
https://www.encodeproject.org/experiments/ENCSR454FJM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR454FJM
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB392SQI
size range: 200-600

value: lower lobe of right lung

value: tissue

value: 60 year

value: male

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

value: adult

value: Shin Lin

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

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


description:
WT pJC1-ilvBNCD (OD 22-23) vs. WT pJC1  (OD 22-23)-rep1
Biological replicate 1 of 2
GAL file:
CG_GAL_PCR_Layout_08.gal

source_name: WT pJC1-il

value: WT pJC1-ilvBNCD harvested OD 22-23,  CGXII glucose, 100 µM IPTG, date of experiment:2001-11

value: WT pJC1 harvested OD 22-23,  CGXII glucose, 100 µM IPTG, date of experiment:2001-11


title: WT pJC1-accBC vs. WT pJC1-rep1

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

value: WT pJC1-accBC harvested during exponential growth phase, CGXII glucose, 100 µM IPTG, date of experiment:2014-02

value: WT pJC1 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2014-02


description:
WT pJC1-ilvBNCD (OD 17-18) vs. WT pJC1  (OD 17-18)-rep2
Biological replicate 2 of 2
GAL file:
CG_GAL_PCR_Layout_08.gal

value: wild type + overexpression

value: WT pJC1-ilvBNCD harvested OD 17-18,  CGXII glucose, 100 µM IPTG, date of experiment:2002-01

value: wild type + control

value: WT pJC1 harvested OD 17-18,  CGXII glucose, 100 µM IPTG, date of experiment:2002-01


description:
WT pJC1-ilvBNCD (OD 22-23) vs. WT pJC1  (OD 22-23)-rep2
Biological replicate 2 of 2
GAL file:
CG_GAL_PCR_Layout_06.gal


title: Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB123FBH)

description:
https://www.encodeproject.org/experiments/ENCSR453MVF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR453MVF
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR457KLD
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB123FBH

value: primary cell

value: 33 year

value: Bradley Bernstein, Broad

value: John Stamatoyannopoulos

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

value: ENCBS261THR at ENCODE; https://www.encodeproject.org/ENCBS261THR/

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


title: WT pJC1-ilvBNCD vs. WT pJC1-rep5

description:
WT pJC1-ilvBNCD vs. WT pJC1-rep5
Biological replicate 5 of 5
GAL file:
CG_GAL_PCR_Layout_06.gal

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


title: WT pEKEx2-cgtR1 vs. WT pEKEx2-rep3

description:
WT pEKEx2-cgtR1 vs. WT pEKEx2-rep3
Biological replicate 3 of 4
original platform:
GPL15451

value: WT pEKEx2-cgtR1 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2011-10/2011-11/2012-01

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2011-10/2011-11/2012-01


title: Mint-ChIP-seq from stimulated activated naive CD8-positive, alpha-beta T cell (ENCLB501HAQ)

description:
https://www.encodeproject.org/experiments/ENCSR453MVF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR453MVF
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR457KLD
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB501HAQ

value: male

value: adult


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB820ZLN)

description:
https://www.encodeproject.org/experiments/ENCSR642LQG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR642LQG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR212ZBB
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB820ZLN

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

value: 50 year

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

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


title: Mint-ChIP-seq from effector memory CD8-positive, alpha-beta T cell (ENCLB939QNU)

description:
https://www.encodeproject.org/experiments/ENCSR644HZK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR644HZK
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR809CJF
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB939QNU

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


title: Histone ChIP-seq from heart left ventricle (ENCLB547IVS)

description:
https://www.encodeproject.org/experiments/ENCSR854TXC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR854TXC
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR945LPX
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB547IVS
size range: 200-600

source_name: Homo sapiens male adult (40 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

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

value: 40 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS649GUV at ENCODE; https://www.encodeproject.org/ENCBS649GUV/

value: Derived from ENCODE donor ENCDO392CRK; https://www.encodeproject.org/ENCDO392CRK/


title: TF ChIP-seq from neural progenitor cell (ENCLB328BFT)

description:
https://www.encodeproject.org/experiments/ENCSR260FAS/
***************
biological replicate number: 1
technical replicate number: 1
description: CTCF ChIP-seq on neural progenitor cell
experiment encode accession: ENCSR260FAS
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR322GAX
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB328BFT
size range: 200-600

source_name: Homo sapiens female embryo (5 days) neural progenitor in vitro differentiated cells

value: CTCF

value: neural progenitor cell

value: in vitro differentiated cells

value: rapid NPCs, NGN2 +patterning; these are a form of neural progenitor cell -- see more here:https://docs.google.com/document/d/1VDqqe1h1WrG4kDADTFBROGCJrrNvYw5IHCNyMTYUASw/edit#heading=h.gjdgxs

value: female

value: healthy

value: embryonic

value: 5 day

value: Bradley Bernstein, Broad

value: Kevin Eggan and Ralda Nehme

value: ENCBS167WAM at ENCODE; https://www.encodeproject.org/ENCBS167WAM/

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


title: Mint-ChIP-seq from naive thymus-derived CD4-positive, alpha-beta T cell (ENCLB248SDO)

description:
https://www.encodeproject.org/experiments/ENCSR642LQG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR642LQG
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR212ZBB
encode release date: 2022-04-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB248SDO

value: primary cell

value: 50 year

value: male

value: adult

value: John Stamatoyannopoulos

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

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


title: TF ChIP-seq from neural progenitor cell (ENCLB616YEL)

description:
https://www.encodeproject.org/experiments/ENCSR260FAS/
***************
biological replicate number: 1
technical replicate number: 2
description: CTCF ChIP-seq on neural progenitor cell
experiment encode accession: ENCSR260FAS
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR322GAX
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB616YEL
size range: 200-600

value: CTCF

value: neural progenitor cell

value: in vitro differentiated cells


title: Control Mint-ChIP-seq from HCT116 (ENCLB558XYA)

description:
https://www.encodeproject.org/experiments/ENCSR853IEG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR853IEG
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB558XYA

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: colorectal carcinoma

value: Erez Aiden

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

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


title: WT pJC1-ilvBNCD vs. WT pJC1-rep1

description:
WT pJC1-ilvBNCD vs. WT pJC1-rep1
Biological replicate 1 of 5
GAL file:
CG_GAL_PCR_Layout_06.gal

value: wild type + overexpression

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

value: wild type + control

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


title: WT pJC1-ilvBNCD vs. WT pJC1-rep2

description:
WT pJC1-ilvBNCD vs. WT pJC1-rep2
Biological replicate 2 of 5
GAL file:
CG_GAL_PCR_Layout_06.gal


title: TF ChIP-seq from neural progenitor cell (ENCLB380NLU)

description:
https://www.encodeproject.org/experiments/ENCSR260FAS/
***************
biological replicate number: 2
technical replicate number: 1
description: CTCF ChIP-seq on neural progenitor cell
experiment encode accession: ENCSR260FAS
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR322GAX
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB380NLU
size range: 200-600

value: rapid NPCs, NGN2 +patterning; these are a form of neural progenitor cell -- see more here:https://docs.google.com/document/d/1VDqqe1h1WrG4kDADTFBROGCJrrNvYw5IHCNyMTYUASw/edit#heading=h.gjdgxs

value: female

value: healthy

value: embryonic

value: 5 day

value: Bradley Bernstein, Broad

value: Kevin Eggan and Ralda Nehme

value: ENCBS959UMI at ENCODE; https://www.encodeproject.org/ENCBS959UMI/

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


title: TF ChIP-seq from neural progenitor cell (ENCLB336FCL)

description:
https://www.encodeproject.org/experiments/ENCSR260FAS/
***************
biological replicate number: 2
technical replicate number: 2
description: CTCF ChIP-seq on neural progenitor cell
experiment encode accession: ENCSR260FAS
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR322GAX
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB336FCL
size range: 200-600

value: CTCF

value: neural progenitor cell

value: in vitro differentiated cells


description:
WT pEKEx2-inactivated TorA-Soxy vs. WT pEKEx2-rep3
Biological replicate 3 of 3
original platform:
GPL15451

source_name: WT pEKEx2-inacti

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

source_name: ated TorA-Soxy

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


title: Control Mint-ChIP-seq from HCT116 (ENCLB473KSL)

description:
https://www.encodeproject.org/experiments/ENCSR853IEG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR853IEG
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB473KSL

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Erez Aiden

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

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


title: WT pJC1-ilvBNCD vs. WT pJC1-rep3

description:
WT pJC1-ilvBNCD vs. WT pJC1-rep3
Biological replicate 3 of 5
GAL file:
CG_GAL_PCR_Layout_06.gal

value: wild type + overexpression

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

value: wild type + control

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


title: WT pEKEx2-cgtR1 vs. WT pEKEx2-rep4

description:
WT pEKEx2-cgtR1 vs. WT pEKEx2-rep4
Biological replicate 4 of 4
original platform:
GPL15451

value: WT pEKEx2-cgtR1 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2011-10/2011-11/2012-01

value: WT pEKEx2 harvested during exponential growth phase,  CGXII glucose, 100 µM IPTG, date of experiment:2011-10/2011-11/2012-01


description:
WT pEKEx2-TorA-Soxy vs. WT pEKEx2-Soxy-rep1
Biological replicate 1 of 2
original platform:
GPL15451

source_name: WT pEKEx2-TorA-Soxy

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

source_name: WT pEKEx2-Soxy

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


description:
WT pEKEx2-inactivated TorA-Soxy vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451

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

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


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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB707XIA)

description:
https://www.encodeproject.org/experiments/ENCSR852AYS/
***************
biological replicate number: 2
technical replicate number: 2
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR852AYS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB707XIA
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: Bradley Bernstein, Broad

value: Rush University

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

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


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

value: wild type + overexpression


title: WT pEKEx2-TorA-Soxy vs. WT pEKEx2-rep4

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

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: wild type + control

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


description:
WT pJC1-ilvBNCD (OD 17-18) vs. WT pJC1  (OD 17-18)-rep1
Biological replicate 1 of 2
GAL file:
CG_GAL_PCR_Layout_08.gal

value: WT pJC1-ilvBNCD harvested OD 17-18,  CGXII glucose, 100 µM IPTG, date of experiment:2002-01

value: WT pJC1 harvested OD 17-18,  CGXII glucose, 100 µM IPTG, date of experiment:2002-01


title: Histone ChIP-seq from middle frontal area 46 (ENCLB060FKZ)

description:
https://www.encodeproject.org/experiments/ENCSR852AYS/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR852AYS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB060FKZ
size range: 200-600

value: adult

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


title: Histone ChIP-seq from middle frontal area 46 (ENCLB050DPV)

description:
https://www.encodeproject.org/experiments/ENCSR852AYS/
***************
biological replicate number: 1
technical replicate number: 2
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR852AYS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB050DPV
size range: 200-600


title: Histone ChIP-seq from middle frontal area 46 (ENCLB151JZK)

description:
https://www.encodeproject.org/experiments/ENCSR852AYS/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K27me3 ChIP-seq on middle frontal area 46 tissue female adult (90 or above years)
experiment encode accession: ENCSR852AYS
assay title: Histone ChIP-seq
assembly: GRCh38
possible controls: ENCSR576VXL
encode release date: 2022-02-05
lab: Bradley Bernstein, Broad
library encode accession: ENCLB151JZK
size range: 200-600


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB514ZHX)

description:
https://www.encodeproject.org/experiments/ENCSR851RJV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR851RJV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR963EAC
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB514ZHX

source_name: Homo sapiens with multiple sclerosis; CD4-positive, CD25-positive, alpha-beta regulatory T primary cell, preserved by cryopreservation

value: primary cell

value: Treg CD3+ CD4+ CD8- CD25+ CD127-

value: not collected

value: multiple sclerosis

value: unknown

value: David Hafler

value: ENCBS781DHR at ENCODE; https://www.encodeproject.org/ENCBS781DHR/

value: Derived from ENCODE donor ENCDO157PKH; https://www.encodeproject.org/ENCDO157PKH/


title: Control Mint-ChIP-seq from HCT116 (ENCLB390CEE)

description:
https://www.encodeproject.org/experiments/ENCSR642FUX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR642FUX
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB390CEE

source_name: Homo sapiens HCT116 cell line genetically modified (insertion) using CRISPR inserting O. sativa LOC4335696, genetically modified (insertion) using CRISPR targeting H. sapiens RAD21

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: Bradley Bernstein, Broad

value: Erez Aiden

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

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


title: WT pEKEx2-TorA-Soxy vs. WT pEKEx2-rep1

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

value: wild type + overexpression

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: wild type + control

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


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

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

value: WT pEKEx2-soxy (sorbitol/xylitol oxidase from Streptomyces coelicor) harvested during exponential growth phase,  CGXII glucose, date of experiment:2010-01

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


title: Mint-ChIP-seq from CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB188JCV)

description:
https://www.encodeproject.org/experiments/ENCSR851RJV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR851RJV
assay title: Mint-ChIP-seq
assembly: GRCh38
possible controls: ENCSR963EAC
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB188JCV

value: primary cell

value: Treg CD3+ CD4+ CD8- CD25+ CD127-

value: not collected

value: multiple sclerosis

value: unknown

value: David Hafler


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

description:
WT pEKEx2-Soxy vs. WT pEKEx2-rep2
Biological replicate 2 of 3
original platform:
GPL15451


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

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


title: Control ChIP-seq from WTC11 (ENCLB208JMZ)

description:
https://www.encodeproject.org/experiments/ENCSR463ZLQ/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR463ZLQ
assay title: Control ChIP-seq
assembly: GRCh38
encode release date: 2022-06-07
lab: Bradley Bernstein, Broad
library encode accession: ENCLB208JMZ
size range: 200-600

source_name: Homo sapiens WTC11 cell line

value: cell line

value: male

value: adult

value: 30 year

value: Yin Shen

value: ENCBS869UGY at ENCODE; https://www.encodeproject.org/ENCBS869UGY/

value: Derived from ENCODE donor ENCDO882UJI; https://www.encodeproject.org/ENCDO882UJI/


title: WT pEKEx2-TorA-Soxy vs. WT pEKEx2-rep3

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

value: wild type + overexpression

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: wild type + control


title: Control Mint-ChIP-seq from natural killer cell (ENCLB801PMJ)

description:
https://www.encodeproject.org/experiments/ENCSR457FTM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR457FTM
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB801PMJ

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

value: natural killer cell

value: 33 year

value: Bradley Bernstein, Broad

value: Charles Lee

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

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


title: Mint-ChIP-seq from natural killer cell (ENCLB946KFJ)

description:
https://www.encodeproject.org/experiments/ENCSR639NIG/
***************
biological replicate number: 1
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: ENCLB946KFJ

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...

value: primary cell

value: 41 year

value: female

value: John Stamatoyannopoulos

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

value: ENCBS623MIU at ENCODE; https://www.encodeproject.org/ENCBS623MIU/

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


title: Control Mint-ChIP-seq from HCT116 (ENCLB759UGQ)

description:
https://www.encodeproject.org/experiments/ENCSR642FUX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR642FUX
assay title: Control Mint-ChIP-seq
assembly: GRCh38
encode release date: 2022-03-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB759UGQ

value: cell line

value: 48 year

value: male

value: colorectal carcinoma

value: adult

value: Erez Aiden

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

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


title: Mint-ChIP-seq from natural killer cell (ENCLB376CZE)

description:
https://www.encodeproject.org/experiments/ENCSR639NIG/
***************
biological replicate number: 1
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: ENCLB376CZE

value: natural killer cell

value: Bradley Bernstein, Broad


title: WT pEKEx2-Soxy vs. WT-rep1

description:
WT pEKEx2-Soxy vs. WT-rep1
Biological replicate 1 of 2
original platform:
GPL15451

value: wild type + overexpression

value: WT pEKEx2-soxy (sorbitol/xylitol oxidase from Streptomyces coelicor) harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-04

source_name: WT

value: wild type

value: WT harvested during exponential growth phase,  CGXII glucose, date of experiment:2009-04


title: WT pEKEx2-Soxy vs. WT-rep2

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