title: Histone ChIP-seq from Peyer's patch (ENCLB852VRU)

description:
https://www.encodeproject.org/experiments/ENCSR718LSM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR718LSM
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR118FQN
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB852VRU
fragmentation methods: sonication (generic)
size range: 200-600

value: male

value: ENCBS524MUK at ENCODE; https://www.encodeproject.org/ENCBS524MUK/


title: Histone ChIP-seq from gastrocnemius medialis (ENCLB120PIP)

status: Public on Jan 06 2020

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/ENCSR716TNU/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR716TNU
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR138WRC
encode release date: 2018-12-19
lab: Bradley Bernstein, Broad
library encode accession: ENCLB120PIP
fragmentation methods: sonication (generic)
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 (51 year) gastrocnemius medialis tissue

tag: antibody

value: gastrocnemius medialis

value: tissue

tag: description

value: i.e. REMC 6, 13, 14 and 15; EnTEX:Muscle - Skeletal also gastrocnemius medialis

tag: biosample encode accession

tag: Sex

value: female

tag: dev stage

value: adult

tag: age

value: 51 year

tag: lab

value: Bradley Bernstein, Broad

tag: source

value: Kristin Ardlie

tag: link

value: ENCBS731GTN at ENCODE; https://www.encodeproject.org/ENCBS731GTN/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from gastrocnemius medialis (ENCLB393NVY)

description:
https://www.encodeproject.org/experiments/ENCSR716TNU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR716TNU
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR138WRC
encode release date: 2018-12-19
lab: Bradley Bernstein, Broad
library encode accession: ENCLB393NVY
fragmentation methods: sonication (generic)
size range: 200-600


title: Histone ChIP-seq from Peyer's patch (ENCLB661DAI)

description:
https://www.encodeproject.org/experiments/ENCSR758KRK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR758KRK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR118FQN
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB661DAI
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) Peyer's patch tissue

value: Peyer's patch

value: EnTEX:Small Intestine - Terminal Ileum

value: 54 year

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Control ChIP-seq from tibial artery (ENCLB158OOC)

description:
https://www.encodeproject.org/experiments/ENCSR714GXC/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR714GXC
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB158OOC
size range: 200-600

source_name: Homo sapiens female adult (51 year) tibial artery tissue

value: tibial artery

value: EnTEX:Artery - Tibial

value: ENCBS636NCW at ENCODE; https://www.encodeproject.org/ENCBS636NCW/


title: Control ChIP-seq from tibial artery (ENCLB856GNV)

description:
https://www.encodeproject.org/experiments/ENCSR714GXC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR714GXC
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB856GNV
size range: 200-600


title: Control ChIP-seq from spleen (ENCLB731SHD)

description:
https://www.encodeproject.org/experiments/ENCSR711URW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR711URW
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB731SHD
size range: 200-600

source_name: Homo sapiens female adult (51 year) spleen tissue

value: spleen

value: ENCBS363GBQ at ENCODE; https://www.encodeproject.org/ENCBS363GBQ/


title: Control ChIP-seq from spleen (ENCLB308FUO)

description:
https://www.encodeproject.org/experiments/ENCSR711URW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR711URW
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB308FUO
size range: 200-600

value: tissue


title: Histone ChIP-seq from spleen (ENCLB777WCM)

description:
https://www.encodeproject.org/experiments/ENCSR709APF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR709APF
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR803JPO
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB777WCM
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) spleen tissue

value: male

value: ENCBS223WIE at ENCODE; https://www.encodeproject.org/ENCBS223WIE/


title: Histone ChIP-seq from spleen (ENCLB672VKM)

description:
https://www.encodeproject.org/experiments/ENCSR709APF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR709APF
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR803JPO
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB672VKM
fragmentation methods: none
size range: 200-600

extract_protocol: not provided

value: adult


title: Histone ChIP-seq from esophagus muscularis mucosa (ENCLB564EAU)

description:
https://www.encodeproject.org/experiments/ENCSR705BTW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR705BTW
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR777AJC
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB564EAU
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) esophagus muscularis mucosa tissue

value: esophagus muscularis mucosa

value: EnTEX:Esophagus - Muscularis

value: Bradley Bernstein, Broad

value: ENCBS390MKW at ENCODE; https://www.encodeproject.org/ENCBS390MKW/


title: Histone ChIP-seq from esophagus muscularis mucosa (ENCLB702TQU)

description:
https://www.encodeproject.org/experiments/ENCSR705BTW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR705BTW
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR777AJC
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB702TQU
fragmentation methods: sonication (generic)
size range: 200-600

value: Kristin Ardlie


title: Histone ChIP-seq from upper lobe of left lung (ENCLB939LFX)

description:
https://www.encodeproject.org/experiments/ENCSR701FGA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR701FGA
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR774MLK
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB939LFX
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) upper lobe of left lung tissue

value: upper lobe of left lung

value: ENCBS401SWW at ENCODE; https://www.encodeproject.org/ENCBS401SWW/


title: Control ChIP-seq from body of pancreas (ENCLB398AUW)

description:
https://www.encodeproject.org/experiments/ENCSR700CAX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR700CAX
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB398AUW
size range: 200-600

source_name: Homo sapiens female adult (51 year) body of pancreas tissue

value: body of pancreas

value: female

value: 51 year

value: ENCBS535XPM at ENCODE; https://www.encodeproject.org/ENCBS535XPM/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from upper lobe of left lung (ENCLB334CWV)

description:
https://www.encodeproject.org/experiments/ENCSR701FGA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR701FGA
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR774MLK
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB334CWV
fragmentation methods: sonication (generic)
size range: 200-600

value: 54 year

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Control ChIP-seq from body of pancreas (ENCLB986EJH)

description:
https://www.encodeproject.org/experiments/ENCSR700CAX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR700CAX
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB986EJH
size range: 200-600

value: tissue


title: Histone ChIP-seq from Peyer's patch (ENCLB904LBY)

description:
https://www.encodeproject.org/experiments/ENCSR735VKO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR735VKO
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR118FQN
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB904LBY
fragmentation methods: sonication (generic)
size range: 200-600

value: Peyer's patch

value: EnTEX:Small Intestine - Terminal Ileum

value: male

value: ENCBS524MUK at ENCODE; https://www.encodeproject.org/ENCBS524MUK/


title: TF ChIP-seq from body of pancreas (ENCLB894NFF)

description:
https://www.encodeproject.org/experiments/ENCSR687APM/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR687APM
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR099LGH
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB894NFF
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) body of pancreas tissue

value: CTCF

value: adult

value: Bradley Bernstein, Broad

value: ENCBS658YAJ at ENCODE; https://www.encodeproject.org/ENCBS658YAJ/


title: TF ChIP-seq from uterus (ENCLB300QQQ)

description:
https://www.encodeproject.org/experiments/ENCSR684PGO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR684PGO
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR979XBX
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB300QQQ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (53 years) uterus tissue

value: uterus

value: 53 year

value: Kristin Ardlie

value: ENCBS754FVJ at ENCODE; https://www.encodeproject.org/ENCBS754FVJ/

value: Derived from ENCODE donor ENCDO793LXB; https://www.encodeproject.org/ENCDO793LXB/


title: Histone ChIP-seq from Peyer's patch (ENCLB017JOW)

description:
https://www.encodeproject.org/experiments/ENCSR684EPX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR684EPX
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR773UBR
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB017JOW
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) Peyer's patch tissue

value: female

value: 51 year

value: ENCBS654VYQ at ENCODE; https://www.encodeproject.org/ENCBS654VYQ/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: TF ChIP-seq from uterus (ENCLB921IMZ)

description:
https://www.encodeproject.org/experiments/ENCSR684PGO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR684PGO
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR979XBX
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB921IMZ
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue


title: Histone ChIP-seq from Peyer's patch (ENCLB862YIB)

description:
https://www.encodeproject.org/experiments/ENCSR684EPX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR684EPX
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR773UBR
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB862YIB
fragmentation methods: sonication (generic)
size range: 200-600

value: Peyer's patch

value: EnTEX:Small Intestine - Terminal Ileum


title: Histone ChIP-seq from tibial nerve (ENCLB674FDI)

description:
https://www.encodeproject.org/experiments/ENCSR677MOE/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR677MOE
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR059VTG
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB674FDI
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) tibial nerve tissue

value: tibial nerve

value: EnTEX:Nerve - Tibial

value: ENCBS925LQY at ENCODE; https://www.encodeproject.org/ENCBS925LQY/


title: Histone ChIP-seq from tibial nerve (ENCLB363JVX)

description:
https://www.encodeproject.org/experiments/ENCSR677MOE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR677MOE
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR059VTG
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB363JVX
fragmentation methods: sonication (generic)
size range: 200-600

value: adult

value: Bradley Bernstein, Broad


title: Control ChIP-seq from transverse colon (ENCLB468GOY)

description:
https://www.encodeproject.org/experiments/ENCSR651ISB/
***************
biological replicate number: 3
technical replicate number: 2
description:
experiment encode accession: ENCSR651ISB
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB468GOY
size range: 200-600

source_name: Homo sapiens male adult (54 years) transverse colon tissue

value: transverse colon

value: EnTEX:Colon - Transverse

value: male

value: 54 year

value: ENCBS989UNA at ENCODE; https://www.encodeproject.org/ENCBS989UNA/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from esophagus squamous epithelium (ENCLB689WUZ)

description:
https://www.encodeproject.org/experiments/ENCSR658EVN/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR658EVN
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR514EZP
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB689WUZ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) esophagus squamous epithelium tissue

value: esophagus squamous epithelium

value: EnTEX:Esophagus - Mucosa

value: female

value: 51 year

value: Kristin Ardlie

value: ENCBS467KQD at ENCODE; https://www.encodeproject.org/ENCBS467KQD/


title: Histone ChIP-seq from esophagus squamous epithelium (ENCLB797TYK)

description:
https://www.encodeproject.org/experiments/ENCSR658EVN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR658EVN
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR514EZP
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB797TYK
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Control ChIP-seq from transverse colon (ENCLB165HAI)

description:
https://www.encodeproject.org/experiments/ENCSR651ISB/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR651ISB
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB165HAI
size range: 200-600

value: ENCBS121FBL at ENCODE; https://www.encodeproject.org/ENCBS121FBL/


title: Control ChIP-seq from transverse colon (ENCLB706VQB)

description:
https://www.encodeproject.org/experiments/ENCSR651ISB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR651ISB
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB706VQB
size range: 200-600

value: adult

value: ENCBS633KVX at ENCODE; https://www.encodeproject.org/ENCBS633KVX/


title: Control ChIP-seq from transverse colon (ENCLB133PVE)

description:
https://www.encodeproject.org/experiments/ENCSR651ISB/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR651ISB
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB133PVE
size range: 200-600

value: transverse colon

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from transverse colon (ENCLB100LPZ)

description:
https://www.encodeproject.org/experiments/ENCSR643KID/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR643KID
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB100LPZ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (37 years) transverse colon tissue

value: EnTEX:Colon - Transverse

value: male

value: 37 year

value: ENCBS816BKF at ENCODE; https://www.encodeproject.org/ENCBS816BKF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Histone ChIP-seq from vagina (ENCLB681BHZ)

description:
https://www.encodeproject.org/experiments/ENCSR647HAQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR647HAQ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR607UWA
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB681BHZ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) vagina tissue

value: vagina

value: ENCBS468YOF at ENCODE; https://www.encodeproject.org/ENCBS468YOF/


title: Histone ChIP-seq from vagina (ENCLB516UWO)

description:
https://www.encodeproject.org/experiments/ENCSR647HAQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR647HAQ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR607UWA
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB516UWO
fragmentation methods: sonication (generic)
size range: 200-600

value: female

value: 51 year


title: Histone ChIP-seq from transverse colon (ENCLB595NCU)

description:
https://www.encodeproject.org/experiments/ENCSR643KID/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR643KID
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB595NCU
fragmentation methods: sonication (generic)
size range: 200-600

value: Kristin Ardlie


title: Control ChIP-seq from gastroesophageal sphincter (ENCLB140PBA)

description:
https://www.encodeproject.org/experiments/ENCSR642QDW/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR642QDW
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB140PBA
size range: 200-600

source_name: Homo sapiens female adult (51 year) gastroesophageal sphincter tissue

value: gastroesophageal sphincter

value: tissue

value: EnTEX:Esophagus - Gastroesophageal Junction

value: ENCBS617FGB at ENCODE; https://www.encodeproject.org/ENCBS617FGB/


title: Histone ChIP-seq from sigmoid colon (ENCLB786WWT)

description:
https://www.encodeproject.org/experiments/ENCSR641SDI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR641SDI
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR316ZPQ
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB786WWT
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) sigmoid colon tissue

value: sigmoid colon

value: EnTEX:Colon - Sigmoid

value: adult

value: ENCBS474RXX at ENCODE; https://www.encodeproject.org/ENCBS474RXX/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Control ChIP-seq from gastroesophageal sphincter (ENCLB799CFA)

description:
https://www.encodeproject.org/experiments/ENCSR642QDW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR642QDW
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB799CFA
size range: 200-600

value: Bradley Bernstein, Broad

value: ENCBS910MIF at ENCODE; https://www.encodeproject.org/ENCBS910MIF/


title: TF ChIP-seq from body of pancreas (ENCLB713FSN)

description:
https://www.encodeproject.org/experiments/ENCSR687APM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR687APM
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR099LGH
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB713FSN
fragmentation methods: sonication (generic)
size range: 200-600

value: CTCF

value: body of pancreas

value: male

value: 54 year

value: ENCBS658YAJ at ENCODE; https://www.encodeproject.org/ENCBS658YAJ/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from transverse colon (ENCLB860GCK)

description:
https://www.encodeproject.org/experiments/ENCSR640XRV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR640XRV
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-10-30
lab: Bradley Bernstein, Broad
library encode accession: ENCLB860GCK
fragmentation methods: sonication (generic)
size range: 200-600

value: transverse colon

value: EnTEX:Colon - Transverse

value: 37 year

value: Kristin Ardlie

value: ENCBS816BKF at ENCODE; https://www.encodeproject.org/ENCBS816BKF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Histone ChIP-seq from spleen (ENCLB806ZWC)

description:
https://www.encodeproject.org/experiments/ENCSR635IRN/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR635IRN
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR803JPO
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB806ZWC
fragmentation methods: none
size range: 200-600

value: spleen

value: tissue

value: adult

value: ENCBS223WIE at ENCODE; https://www.encodeproject.org/ENCBS223WIE/


title: Histone ChIP-seq from transverse colon (ENCLB200AMF)

description:
https://www.encodeproject.org/experiments/ENCSR640XRV/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR640XRV
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-10-30
lab: Bradley Bernstein, Broad
library encode accession: ENCLB200AMF
fragmentation methods: sonication (generic)
size range: 200-600

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from sigmoid colon (ENCLB050VUF)

description:
https://www.encodeproject.org/experiments/ENCSR641SDI/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR641SDI
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR316ZPQ
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB050VUF
fragmentation methods: sonication (generic)
size range: 200-600

value: sigmoid colon

value: EnTEX:Colon - Sigmoid

value: female

value: 51 year

value: ENCBS474RXX at ENCODE; https://www.encodeproject.org/ENCBS474RXX/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from spleen (ENCLB675XEP)

description:
https://www.encodeproject.org/experiments/ENCSR635IRN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR635IRN
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR803JPO
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB675XEP
fragmentation methods: sonication (generic)
size range: 200-600

value: male

value: 54 year

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Control ChIP-seq from breast epithelium (ENCLB209HRA)

description:
https://www.encodeproject.org/experiments/ENCSR620GYX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR620GYX
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-09-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB209HRA
size range: 200-600

source_name: Homo sapiens male adult (37 years) breast epithelium tissue

value: breast epithelium

value: EnTEX:Breast - Mammary Tissue updated Feb 2019 with updated term name and ID from DCC.

value: 37 year

value: Kristin Ardlie

value: ENCBS706JPK at ENCODE; https://www.encodeproject.org/ENCBS706JPK/


title: Histone ChIP-seq from testis (ENCLB492DCS)

description:
https://www.encodeproject.org/experiments/ENCSR619EZG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR619EZG
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR385ODY
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB492DCS
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) testis tissue

value: testis

value: tissue

value: adult

value: ENCBS849BBS at ENCODE; https://www.encodeproject.org/ENCBS849BBS/


title: Histone ChIP-seq from tibial nerve (ENCLB389DOJ)

description:
https://www.encodeproject.org/experiments/ENCSR635DAS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR635DAS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR059VTG
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB389DOJ
fragmentation methods: sonication (generic)
size range: 200-600

value: tibial nerve

value: EnTEX:Nerve - Tibial

value: Bradley Bernstein, Broad

value: ENCBS925LQY at ENCODE; https://www.encodeproject.org/ENCBS925LQY/


title: Control ChIP-seq from breast epithelium (ENCLB370WGE)

description:
https://www.encodeproject.org/experiments/ENCSR620GYX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR620GYX
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-09-06
lab: Bradley Bernstein, Broad
library encode accession: ENCLB370WGE
size range: 200-600

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Histone ChIP-seq from tibial nerve (ENCLB649WWR)

description:
https://www.encodeproject.org/experiments/ENCSR635DAS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR635DAS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR059VTG
encode release date: 2018-12-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB649WWR
fragmentation methods: sonication (generic)
size range: 200-600

value: female

value: 51 year

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Control ChIP-seq from transverse colon (ENCLB426DAC)

description:
https://www.encodeproject.org/experiments/ENCSR651ISB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR651ISB
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB426DAC
size range: 200-600

value: transverse colon

value: EnTEX:Colon - Transverse

value: male

value: 54 year

value: ENCBS633KVX at ENCODE; https://www.encodeproject.org/ENCBS633KVX/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from testis (ENCLB584IVW)

description:
https://www.encodeproject.org/experiments/ENCSR619EZG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR619EZG
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR385ODY
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB584IVW
fragmentation methods: sonication (generic)
size range: 200-600

value: testis

value: tissue

value: Kristin Ardlie


title: Histone ChIP-seq from adrenal gland (ENCLB826IHH)

description:
https://www.encodeproject.org/experiments/ENCSR613FYP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR613FYP
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR234FYG
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB826IHH
fragmentation methods: none
size range: 200-600

source_name: Homo sapiens female adult (51 year) adrenal gland tissue

value: adrenal gland

value: EnTEX:Adrenal Gland

value: adult

value: ENCBS458UEH at ENCODE; https://www.encodeproject.org/ENCBS458UEH/


title: Histone ChIP-seq from adrenal gland (ENCLB422FQT)

description:
https://www.encodeproject.org/experiments/ENCSR613FYP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR613FYP
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR234FYG
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB422FQT
fragmentation methods: none
size range: 200-600

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from vagina (ENCLB466BLZ)

description:
https://www.encodeproject.org/experiments/ENCSR612TQH/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR612TQH
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR607UWA
encode release date: 2019-09-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB466BLZ
fragmentation methods: sonication (generic)
size range: 200-600

value: vagina

value: female

value: ENCBS468YOF at ENCODE; https://www.encodeproject.org/ENCBS468YOF/


title: Histone ChIP-seq from vagina (ENCLB446RGX)

description:
https://www.encodeproject.org/experiments/ENCSR612TQH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR612TQH
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR607UWA
encode release date: 2019-09-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB446RGX
fragmentation methods: sonication (generic)
size range: 200-600

value: 51 year

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: TF ChIP-seq from transverse colon (ENCLB218SFI)

description:
https://www.encodeproject.org/experiments/ENCSR608WPS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR608WPS
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB218SFI
fragmentation methods: sonication (generic)
size range: 200-600

value: CTCF

value: transverse colon

value: EnTEX:Colon - Transverse

value: male

value: 37 year

value: ENCBS816BKF at ENCODE; https://www.encodeproject.org/ENCBS816BKF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Histone ChIP-seq from testis (ENCLB202RZR)

description:
https://www.encodeproject.org/experiments/ENCSR611DJQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR611DJQ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR215WNN
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB202RZR
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (37 years) testis tissue

value: testis

value: tissue

value: Kristin Ardlie

value: ENCBS631HJF at ENCODE; https://www.encodeproject.org/ENCBS631HJF/


title: TF ChIP-seq from transverse colon (ENCLB218FNU)

description:
https://www.encodeproject.org/experiments/ENCSR608WPS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR608WPS
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB218FNU
fragmentation methods: sonication (generic)
size range: 200-600

value: adult

value: Bradley Bernstein, Broad


title: Control ChIP-seq from vagina (ENCLB537GIJ)

description:
https://www.encodeproject.org/experiments/ENCSR607UWA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR607UWA
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB537GIJ
size range: 200-600

value: vagina

value: female


title: TF ChIP-seq from transverse colon (ENCLB563HLI)

description:
https://www.encodeproject.org/experiments/ENCSR608WPS/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR608WPS
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB563HLI
fragmentation methods: sonication (generic)
size range: 200-600

value: ENCBS990XOM at ENCODE; https://www.encodeproject.org/ENCBS990XOM/


title: Histone ChIP-seq from gastrocnemius medialis (ENCLB138IFC)

description:
https://www.encodeproject.org/experiments/ENCSR601VHO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR601VHO
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR138WRC
encode release date: 2018-12-19
lab: Bradley Bernstein, Broad
library encode accession: ENCLB138IFC
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) gastrocnemius medialis tissue

value: gastrocnemius medialis

value: i.e. REMC 6, 13, 14 and 15; EnTEX:Muscle - Skeletal also gastrocnemius medialis

value: 51 year

value: ENCBS731GTN at ENCODE; https://www.encodeproject.org/ENCBS731GTN/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Control ChIP-seq from vagina (ENCLB240KML)

description:
https://www.encodeproject.org/experiments/ENCSR607UWA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR607UWA
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB240KML
size range: 200-600

value: ENCBS468YOF at ENCODE; https://www.encodeproject.org/ENCBS468YOF/


title: TF ChIP-seq from spleen (ENCLB672XGX)

description:
https://www.encodeproject.org/experiments/ENCSR601FEB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR601FEB
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR189UPU
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB672XGX
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens spleen tissue female adult (53 years)

value: CTCF

value: spleen

value: 53 year

value: ENCBS913XPU at ENCODE; https://www.encodeproject.org/ENCBS913XPU/

value: Derived from ENCODE donor ENCDO793LXB; https://www.encodeproject.org/ENCDO793LXB/


title: Histone ChIP-seq from gastrocnemius medialis (ENCLB258YIA)

description:
https://www.encodeproject.org/experiments/ENCSR601VHO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR601VHO
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR138WRC
encode release date: 2018-12-19
lab: Bradley Bernstein, Broad
library encode accession: ENCLB258YIA
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue

value: Kristin Ardlie


title: Histone ChIP-seq from testis (ENCLB182QRE)

description:
https://www.encodeproject.org/experiments/ENCSR611DJQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR611DJQ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR215WNN
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB182QRE
fragmentation methods: sonication (generic)
size range: 200-600

value: testis

value: male

value: adult

value: 37 year

value: Bradley Bernstein, Broad

value: ENCBS631HJF at ENCODE; https://www.encodeproject.org/ENCBS631HJF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Translatome of serum-starved THP1 cells for 1 day

type: RNA

city: Boston

first: Shobha

last: Vasudevan

state: Massachusetts

address: 185 Cambridge Street, Simches Building

department: Cancer Center

institute: MGH

description: Translatome expression data from serum-starved THP1 cells for 1 day

hyb_protocol: The labeled, fragmented DNA was hybridized to the Affymetrix Human Gene 2.0 ST Array for 18 hours in a GeneChip Hybridization oven 640 at 45oC with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.

scan_protocol: After staining, microarrays were immediately scanned using an Affymetrix GeneArray Scanner 3000 7G Plus.

data_processing:
Affymetrix microarray data were normalized and summarized using the RMA method implemented in the affy R package. Genes with small variation or a consistently low signal across samples were filtered by the varFilter function in the genefilter package.
A robust linear regression model was then used to fit to the probe intensities using the lmFit function, followed by the detection of differentially expressed genes using the eBayes function in the limma R package.

label: biotin

molecule: total RNA

source_name: THP1 cell line

label_protocol: Biotin labeling was performed using the WT Plus reagent kit (Affymetrix, Santa Clara, CA) according to the manufacturer's protocol.

growth_protocol: THP1 cells were cultured in Roswell Park Memorial Institute (RPMI)1460 media supplemented with 10% fetal bovine serum (FBS), 2 mM L-Glutamine, 100 ug/mL streptomycin and 100 U/ml penicillin. MCF7, HFF, HEPG2 and U2OS cells were cultured in Dulbecco’s modified Eagle medium (DMEM) media with 10% FBS, 2 mM L-Glutamine, 100 μg/mL streptomycin and 100 U/ml penicillin.

extract_protocol: To isolate ribosome-associated mRNA, cell lysates were ultra-centrifugated on a sucrose gradient. Samples were separated by density gradient fractionation system (Teledyne ISCO). RNA was extracted from heavy polysome fractions (mRNA associated with more than three ribosomes) and whole-cell lysates using Trizol (Invitrogen) according to manufacturer's instructions. Isolated RNA was purified using RNeasy Mini Kit (Qiagen) after DNase I treatment for microarray analysis.

treatment_protocol: Cells were serum-starved or treated with 5 μM AraC.

tag: cell line

tag: cell state

value: Quiescent

tag: treatment

value: Serum starvation for 1 day

tag: fraction

value: ribosome-associated mRNA


title: Translatome of serum-starved HEPG2 cells for 4 days

description: Translatome expression data from serum-starved HEPG2 cells for 4 days

source_name: HEPG2 cell line

value: Serum starvation for 4 days


title: TF ChIP-seq from spleen (ENCLB438UMX)

description:
https://www.encodeproject.org/experiments/ENCSR595BPR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR595BPR
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR711URW
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB438UMX
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) spleen tissue

value: CTCF

value: spleen

value: female

value: 51 year

value: ENCBS363GBQ at ENCODE; https://www.encodeproject.org/ENCBS363GBQ/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Translatome of untreated HEPG2 cells

description: Translatome expression data from untreated HEPG2 cells

value: Proliferating

value: Untreated


title: TF ChIP-seq from spleen (ENCLB894PYT)

description:
https://www.encodeproject.org/experiments/ENCSR601FEB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR601FEB
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR189UPU
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB894PYT
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue

value: adult

value: 53 year

value: ENCBS913XPU at ENCODE; https://www.encodeproject.org/ENCBS913XPU/

value: Derived from ENCODE donor ENCDO793LXB; https://www.encodeproject.org/ENCDO793LXB/


title: Translatome of untreated MCF7 cells

description: Translatome expression data from untreated MCF7 cells

source_name: MCF7 cell line


title: Translatome of serum-starved MCF7 cells for 4 days

description: Translatome expression data from serum-starved MCF7 cells for 4 days

value: Quiescent


title: Transcriptome of serum-starved THP1 cells for 4 days, biological rep1

description: Transcriptome expression data from serum-starved THP1 cells for 4 days

value: total RNA


title: Translatome of serum-starved THP1 cells for 4 days, biological rep1

description: Translatome expression data from serum-starved THP1 cells for 4 days

value: ribosome-associated mRNA


title: Translatome of untreated U2OS cells

description: Translatome expression data from untreated U2OS cells

source_name: U2OS cell line


title: Translatome of serum-starved U2OS cells for 4 days

description: Translatome expression data from serum-starved U2OS cells for 4 days

value: Serum starvation for 4 days


title: Translatome of serum-starved THP1 cells for 4 days, biological rep2


title: TF ChIP-seq from gastrocnemius medialis (ENCLB636SOA)

description:
https://www.encodeproject.org/experiments/ENCSR594NSU/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR594NSU
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR775IMI
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB636SOA
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens gastrocnemius medialis tissue male adult (37 years)

value: CTCF

value: gastrocnemius medialis

value: i.e. REMC 6, 13, 14 and 15; EnTEX:Muscle - Skeletal

value: male

value: 37 year

value: Bradley Bernstein, Broad

value: ENCBS861DVK at ENCODE; https://www.encodeproject.org/ENCBS861DVK/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Histone ChIP-seq from tibial nerve (ENCLB368LXR)

description:
https://www.encodeproject.org/experiments/ENCSR590NNJ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR590NNJ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR152HLZ
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB368LXR
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) tibial nerve tissue

value: tibial nerve

value: tissue

value: EnTEX:Nerve - Tibial

value: 54 year

value: Kristin Ardlie

value: ENCBS952IFF at ENCODE; https://www.encodeproject.org/ENCBS952IFF/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Translatome of AraC-treated THP1 cells for 9 days

description: Translatome expression data from AraC-treated THP1 cells for 9 days

value: Quiescent

value: AraC treatment for 9 days

value: ribosome-associated mRNA


title: Transcriptome of serum-starved THP1 cells for 4 days, biological rep2

value: Serum starvation for 4 days

value: total RNA


title: Translatome of AraC-treated THP1 cells for 3 days, biological rep2

description: Translatome expression data from AraC-treated THP1 cells for 3 days

value: AraC treatment for 3 days


title: Translatome of AraC-treated THP1 cells for 3 days, biological rep1


title: Transcriptome of AraC-treated THP1 cells for 3 days, biological rep2

description: Transcriptome expression data from AraC-treated THP1 cells for 3 days


title: Translatome of untreated HFF cells

description: Translatome expression data from untreated HFF cells

source_name: HFFcell line

value: HFF

value: Proliferating

value: Untreated


title: TF ChIP-seq from spleen (ENCLB976DXW)

description:
https://www.encodeproject.org/experiments/ENCSR595BPR/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR595BPR
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR711URW
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB976DXW
fragmentation methods: sonication (generic)
size range: 200-600

value: CTCF

value: spleen

value: female

value: adult

value: 51 year

value: Bradley Bernstein, Broad

value: ENCBS363GBQ at ENCODE; https://www.encodeproject.org/ENCBS363GBQ/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from tibial nerve (ENCLB128SNS)

description:
https://www.encodeproject.org/experiments/ENCSR590NNJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR590NNJ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR152HLZ
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB128SNS
fragmentation methods: sonication (generic)
size range: 200-600

value: tibial nerve

value: tissue

value: EnTEX:Nerve - Tibial

value: male

value: 54 year

value: Kristin Ardlie

value: ENCBS952IFF at ENCODE; https://www.encodeproject.org/ENCBS952IFF/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: TF ChIP-seq from gastrocnemius medialis (ENCLB485XVH)

description:
https://www.encodeproject.org/experiments/ENCSR594NSU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR594NSU
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR775IMI
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB485XVH
fragmentation methods: sonication (generic)
size range: 200-600

value: gastrocnemius medialis

value: i.e. REMC 6, 13, 14 and 15; EnTEX:Muscle - Skeletal

value: 37 year

value: ENCBS861DVK at ENCODE; https://www.encodeproject.org/ENCBS861DVK/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Translatome of serum-starved THP1 cells for 2 days

description: Translatome expression data from serum-starved THP1 cells for 2 days

value: Quiescent

value: Serum starvation for 2 days

value: ribosome-associated mRNA


title: Translatome of serum-starved THP1 cells for 4 hours

description: Translatome expression data from serum-starved THP1 cells for 4 hours

value: Serum starvation for 4 hours


title: Translatome of untreated THP1 cells, biological rep2

description: Translatome expression data from untreated THP1 cells

value: Proliferating

value: Untreated


title: TF ChIP-seq from body of pancreas (ENCLB401KWW)

description:
https://www.encodeproject.org/experiments/ENCSR585KBH/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR585KBH
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR700CAX
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB401KWW
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) body of pancreas tissue

value: CTCF

value: body of pancreas

value: tissue

value: female

value: adult

value: 51 year

value: Bradley Bernstein, Broad

value: ENCBS535XPM at ENCODE; https://www.encodeproject.org/ENCBS535XPM/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from adrenal gland (ENCLB781AZF)

description:
https://www.encodeproject.org/experiments/ENCSR581CXP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR581CXP
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR234FYG
encode release date: 2018-12-15
lab: Bradley Bernstein, Broad
library encode accession: ENCLB781AZF
fragmentation methods: none
size range: 200-600

value: adrenal gland

value: EnTEX:Adrenal Gland

value: Kristin Ardlie

value: ENCBS458UEH at ENCODE; https://www.encodeproject.org/ENCBS458UEH/


title: Histone ChIP-seq from thyroid gland (ENCLB926FLB)

description:
https://www.encodeproject.org/experiments/ENCSR586DVD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR586DVD
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB926FLB
fragmentation methods: none
size range: 200-600

source_name: Homo sapiens female adult (51 year) thyroid gland tissue

value: thyroid gland

value: ENCBS541DMP at ENCODE; https://www.encodeproject.org/ENCBS541DMP/


title: TF ChIP-seq from Peyer's patch (ENCLB896TDF)

description:
https://www.encodeproject.org/experiments/ENCSR568IVD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR568IVD
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR118FQN
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB896TDF
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) Peyer's patch tissue

value: Peyer's patch

value: EnTEX:Small Intestine - Terminal Ileum

value: male

value: 54 year

value: ENCBS524MUK at ENCODE; https://www.encodeproject.org/ENCBS524MUK/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from thyroid gland (ENCLB028EJC)

description:
https://www.encodeproject.org/experiments/ENCSR558AXI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR558AXI
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB028EJC
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue

value: female

value: adult


title: Histone ChIP-seq from thyroid gland (ENCLB036QCO)

description:
https://www.encodeproject.org/experiments/ENCSR586DVD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR586DVD
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB036QCO
fragmentation methods: sonication (generic)
size range: 200-600

value: 51 year

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from adrenal gland (ENCLB680IME)

description:
https://www.encodeproject.org/experiments/ENCSR581CXP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR581CXP
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR234FYG
encode release date: 2018-12-15
lab: Bradley Bernstein, Broad
library encode accession: ENCLB680IME
fragmentation methods: none
size range: 200-600

value: adrenal gland

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: TF ChIP-seq from body of pancreas (ENCLB906OZY)

description:
https://www.encodeproject.org/experiments/ENCSR585KBH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR585KBH
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR700CAX
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB906OZY
fragmentation methods: sonication (generic)
size range: 200-600

value: CTCF

value: body of pancreas

value: Kristin Ardlie

value: ENCBS535XPM at ENCODE; https://www.encodeproject.org/ENCBS535XPM/


title: TF ChIP-seq from Peyer's patch (ENCLB357MRH)

description:
https://www.encodeproject.org/experiments/ENCSR568IVD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR568IVD
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR118FQN
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB357MRH
fragmentation methods: sonication (generic)
size range: 200-600

value: Peyer's patch


title: Transcriptome of untreated THP1 cells, biological rep2

description: Transcriptome expression data from untreated THP1 cells

value: Proliferating

value: Untreated

value: total RNA


title: TTP-AA induced, AraC, biological rep1

description: Gene expression data from AraC-treated BMDMs expressing TTP-AA.

hyb_protocol: The labeled, fragmented DNA was hybridized to the Affymetrix Mouse Gene 2.0 ST Array for 18 hours in a GeneChip Hybridization oven 640 at 45oC with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.

organism: Mus musculus

source_name: TTP-deficient bone marrow-derived macrophages (BMDMs)

growth_protocol: TTP-deficient primary bone marrow-derived macrophages (BMDMs) were immortalized. BMDMs were cultured in Dulbecco's modified Eagle medium (DMEM) media supplemented with 10% fetal bovine serum (FBS), 2 mM L-Glutamine, 100 ug/mL streptomycin, 100 U/ml penicillin and non-essential amino acids at 37°C in 5% CO2.

extract_protocol: Total RNA was extracted using TRIzol (Invitrogen) according to the manufacturer’s instructions. Isolated total RNA was purified using RNeasy Mini Kit (Qiagen) after DNase I treatment for microarray analysis.

treatment_protocol: BMDMs were transduced with Tet-inducible plasmids that express TTP-WT or TTP-AA mutant.  The expression of TTP was left uninduced or was induced with 1 ug/ml doxycycline 4 hours prior to treatment.  Cells were then treated with vehicle control or 1 uM AraC for 24 hours.

tag: cell type

value: bone marrow-derived macrophages (BMDMs)

tag: ttp genotype

value: Tet-inducible TTP-AA

tag: ttp expression

value: induced

value: 1 μM AraC


title: Transcriptome of untreated THP1 cells, biological rep1


title: TTP-AA induced, AraC, biological rep2


title: Translatome of untreated THP1 cells, biological rep1

value: ribosome-associated mRNA


title: TTP-AA uninduced, AraC, biological rep1

description: Gene expression data from AraC-treated BMDMs.

value: uninduced


title: TTP-AA uninduced, vehicle, biological rep2

description: Gene expression data from untreated BMDMs.

value: vehicle control


title: TTP-AA uninduced, vehicle, biological rep1


title: Histone ChIP-seq from transverse colon (ENCLB331CBI)

description:
https://www.encodeproject.org/experiments/ENCSR557OWY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR557OWY
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR651ISB
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB331CBI
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) transverse colon tissue

value: transverse colon

value: tissue

value: EnTEX:Colon - Transverse

value: male

value: adult

value: 54 year

value: Bradley Bernstein, Broad

value: ENCBS121FBL at ENCODE; https://www.encodeproject.org/ENCBS121FBL/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from transverse colon (ENCLB998FEJ)

description:
https://www.encodeproject.org/experiments/ENCSR557OWY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR557OWY
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR651ISB
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB998FEJ
fragmentation methods: sonication (generic)
size range: 200-600

value: Kristin Ardlie


title: TTP-WT induced, AraC, biological rep2

description: Gene expression data from AraC-treated BMDMs expressing TTP-WT.

value: bone marrow-derived macrophages (BMDMs)

value: Tet-inducible TTP-WT


title: Translatome of serum-starved HFF cells for 4 days

description: Translatome expression data from serum-starved HFF cells for 4 days

value: HFF

value: Quiescent

value: Serum starvation for 4 days


title: TTP-AA uninduced, AraC, biological rep2

value: Tet-inducible TTP-AA

value: uninduced

value: 1 μM AraC


title: Histone ChIP-seq from thyroid gland (ENCLB320HTM)

description:
https://www.encodeproject.org/experiments/ENCSR558AXI/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR558AXI
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB320HTM
fragmentation methods: sonication (generic)
size range: 200-600

value: thyroid gland

value: tissue

value: female

value: 51 year

value: ENCBS541DMP at ENCODE; https://www.encodeproject.org/ENCBS541DMP/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: TTP-WT induced, AraC, biological rep1

value: induced


title: TTP-WT uninduced, AraC, biological rep2


title: CRHN14

city: Seattle

first: Linda

last: Buck

state: Washington

address: 1100 fairview ave North

department: Basic Sciences

institute: Fred Hutchinson Cancer Research Centre

library_source: transcriptomic

data_processing:
Image analysis and base calling were performed using Illumina real time analysis v1.18 software, followed by 'demultiplexing' of indexed reads and generation of FASTQ files using Illumina's bcl2fastq Conversion software (v1.8.4).
Adapters were trimmed with the “trim_galore” (v.0.4.4, available at http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/) with the options “-- adapter AAGCAGTGGTATCAACGCAGAGTAC --stringency 8 --quality 0 -e 0.15 --length 20 --paired --retain_unpaired”.
Sequencing libraries and gene-level counts were generated from GSNAP alignments using the Python package HTSeq (v0.6.1) using the "union" overlap mode, & Cufflinks (v.2.2.1) to generate normalized FPKM values.
Genome_build: mm9
Supplementary_files_format_and_content: Tab-delimited text files include coordinates of gene annotations, abundance measurements in Fpkm for all genes.

molecule: polyA RNA

source_name: Brain

growth_protocol: CRH-IRES-Cre mice were crossed with Ai14 reporter mice, which have Cre-dependent expression of tdTomato.  We then manually isolated single fluorescent cells using micropipette from dissociated paraventricular nucleus tissue and conducted single cell RNA-sequencing (RNA-Seq) to define the transcriptomes of individual isolated neurons.

extract_protocol: Single cell cDNA libraries were prepared using SMART-seq2 protocol. Sequencing libraries were prepared for sequencing using the TruSeq DNA sample prep kit (Illumina)

tag: tissue

value: Brain

tag: strain

value: neurons


title: CRHN15


title: CRHN19


title: CRHN18


title: CRHN12


title: CRHN13


title: CRHN10


title: TF ChIP-seq from Peyer's patch (ENCLB068BME)

description:
https://www.encodeproject.org/experiments/ENCSR542SCB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR542SCB
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR773UBR
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB068BME
fragmentation methods: none
size range: 200-600

source_name: Homo sapiens female adult (51 year) Peyer's patch tissue

tag: antibody

value: CTCF

value: Peyer's patch

tag: description

value: EnTEX:Small Intestine - Terminal Ileum

value: adult

value: Bradley Bernstein, Broad

value: Kristin Ardlie

value: ENCBS654VYQ at ENCODE; https://www.encodeproject.org/ENCBS654VYQ/


title: TF ChIP-seq from Peyer's patch (ENCLB019YTQ)

description:
https://www.encodeproject.org/experiments/ENCSR542SCB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR542SCB
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR773UBR
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB019YTQ
fragmentation methods: none
size range: 200-600

tag: biosample encode accession

tag: Sex


title: Control ChIP-seq from sigmoid colon (ENCLB578TQU)

description:
https://www.encodeproject.org/experiments/ENCSR524NCH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR524NCH
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-08
lab: Bradley Bernstein, Broad
library encode accession: ENCLB578TQU
size range: 200-600

source_name: Homo sapiens male adult (54 years) sigmoid colon tissue

value: sigmoid colon

value: EnTEX:Colon - Sigmoid

value: male

tag: dev stage

tag: age

value: 54 year

value: ENCBS243UXH at ENCODE; https://www.encodeproject.org/ENCBS243UXH/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: TTP-WT uninduced, AraC, biological rep1

value: bone marrow-derived macrophages (BMDMs)

value: Tet-inducible TTP-WT

value: uninduced

value: 1 μM AraC


title: CRHN17

value: Brain

value: neurons


title: TTP-WT uninduced, vehicle, biological rep1

value: vehicle control


title: Control ChIP-seq from sigmoid colon (ENCLB712ASE)

description:
https://www.encodeproject.org/experiments/ENCSR524NCH/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR524NCH
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-08
lab: Bradley Bernstein, Broad
library encode accession: ENCLB712ASE
size range: 200-600

value: tissue

value: adult

tag: lab

tag: source


title: Histone ChIP-seq from transverse colon (ENCLB687LYX)

description:
https://www.encodeproject.org/experiments/ENCSR516QFO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR516QFO
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB687LYX
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (37 years) transverse colon tissue

value: transverse colon

value: EnTEX:Colon - Transverse

value: 37 year

value: Bradley Bernstein, Broad

value: Kristin Ardlie

tag: link

value: ENCBS816BKF at ENCODE; https://www.encodeproject.org/ENCBS816BKF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: CRHN16


title: Histone ChIP-seq from thyroid gland (ENCLB508PWR)

description:
https://www.encodeproject.org/experiments/ENCSR500YBS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR500YBS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB508PWR
fragmentation methods: sonication (generic)
size range: 200-600

value: thyroid gland

value: female

value: 51 year

value: ENCBS541DMP at ENCODE; https://www.encodeproject.org/ENCBS541DMP/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: CRHN11

value: Brain


title: Histone ChIP-seq from transverse colon (ENCLB180PAL)

description:
https://www.encodeproject.org/experiments/ENCSR516QFO/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR516QFO
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB180PAL
fragmentation methods: sonication (generic)
size range: 200-600

value: male

value: ENCBS990XOM at ENCODE; https://www.encodeproject.org/ENCBS990XOM/


title: Histone ChIP-seq from transverse colon (ENCLB458RFZ)

description:
https://www.encodeproject.org/experiments/ENCSR516QFO/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR516QFO
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR479HSY
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB458RFZ
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue


title: Control ChIP-seq from esophagus squamous epithelium (ENCLB225CSO)

description:
https://www.encodeproject.org/experiments/ENCSR514EZP/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR514EZP
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB225CSO
size range: 200-600

source_name: Homo sapiens female adult (51 year) esophagus squamous epithelium tissue

value: esophagus squamous epithelium

value: EnTEX:Esophagus - Mucosa

value: adult

value: ENCBS467KQD at ENCODE; https://www.encodeproject.org/ENCBS467KQD/


title: TTP-WT uninduced, vehicle, biological rep2

value: bone marrow-derived macrophages (BMDMs)

value: Tet-inducible TTP-WT

value: uninduced

value: vehicle control


title: CRHN6

value: neurons


title: CRHN7


title: Control ChIP-seq from esophagus squamous epithelium (ENCLB746ATG)

description:
https://www.encodeproject.org/experiments/ENCSR514EZP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR514EZP
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB746ATG
size range: 200-600

value: female

value: Bradley Bernstein, Broad

value: Kristin Ardlie

value: ENCBS821VGX at ENCODE; https://www.encodeproject.org/ENCBS821VGX/


title: Histone ChIP-seq from transverse colon (ENCLB286YVE)

description:
https://www.encodeproject.org/experiments/ENCSR500QVK/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR500QVK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB286YVE
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) transverse colon tissue

value: transverse colon

value: EnTEX:Colon - Transverse

value: 51 year

value: ENCBS515RIZ at ENCODE; https://www.encodeproject.org/ENCBS515RIZ/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: CRHN9

value: Brain


title: Histone ChIP-seq from transverse colon (ENCLB921MPG)

description:
https://www.encodeproject.org/experiments/ENCSR500QVK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR500QVK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB921MPG
fragmentation methods: none
size range: 200-600

value: tissue

value: adult

value: ENCBS555CAN at ENCODE; https://www.encodeproject.org/ENCBS555CAN/


title: Control ChIP-seq from esophagus squamous epithelium (ENCLB639ISV)

description:
https://www.encodeproject.org/experiments/ENCSR514EZP/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR514EZP
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB639ISV
size range: 200-600

value: esophagus squamous epithelium

value: EnTEX:Esophagus - Mucosa


title: CRHN8


title: Histone ChIP-seq from thyroid gland (ENCLB024UBG)

description:
https://www.encodeproject.org/experiments/ENCSR500YBS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR500YBS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB024UBG
fragmentation methods: sonication (generic)
size range: 200-600

value: thyroid gland

value: ENCBS541DMP at ENCODE; https://www.encodeproject.org/ENCBS541DMP/


title: CRHN4

value: neurons


title: Histone ChIP-seq from transverse colon (ENCLB321OZF)

description:
https://www.encodeproject.org/experiments/ENCSR500QVK/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR500QVK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB321OZF
fragmentation methods: sonication (generic)
size range: 200-600

value: female

value: Bradley Bernstein, Broad


title: Histone ChIP-seq from transverse colon (ENCLB002MRN)

description:
https://www.encodeproject.org/experiments/ENCSR500QVK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR500QVK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB002MRN
fragmentation methods: none
size range: 200-600

value: Kristin Ardlie


title: Histone ChIP-seq from thyroid gland (ENCLB131LEL)

description:
https://www.encodeproject.org/experiments/ENCSR497OVD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR497OVD
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB131LEL
fragmentation methods: sonication (generic)
size range: 200-600


title: Histone ChIP-seq from thyroid gland (ENCLB739RBE)

description:
https://www.encodeproject.org/experiments/ENCSR497OVD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR497OVD
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR347VUG
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB739RBE
fragmentation methods: none
size range: 200-600


title: CRHN5


title: Histone ChIP-seq from stomach (ENCLB287HGU)

description:
https://www.encodeproject.org/experiments/ENCSR492BHN/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR492BHN
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR948DNK
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB287HGU
fragmentation methods: none
size range: 200-600

source_name: Homo sapiens female adult (51 year) stomach tissue

value: stomach

value: ENCBS633XWN at ENCODE; https://www.encodeproject.org/ENCBS633XWN/


title: Control ChIP-seq from transverse colon (ENCLB726WJO)

description:
https://www.encodeproject.org/experiments/ENCSR479HSY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR479HSY
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB726WJO
size range: 200-600

value: transverse colon

value: EnTEX:Colon - Transverse

value: male

value: 37 year

value: ENCBS816BKF at ENCODE; https://www.encodeproject.org/ENCBS816BKF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: Histone ChIP-seq from stomach (ENCLB127EXL)

description:
https://www.encodeproject.org/experiments/ENCSR492BHN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR492BHN
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR948DNK
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB127EXL
fragmentation methods: none
size range: 200-600

value: tissue

value: adult

value: 51 year

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from stomach (ENCLB263RDN)

description:
https://www.encodeproject.org/experiments/ENCSR475TRZ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR475TRZ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR962EJE
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB263RDN
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) stomach tissue

value: 54 year

value: ENCBS443LLE at ENCODE; https://www.encodeproject.org/ENCBS443LLE/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from transverse colon (ENCLB434DYQ)

description:
https://www.encodeproject.org/experiments/ENCSR488YXS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR488YXS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB434DYQ
fragmentation methods: none
size range: 200-600

value: female

value: Bradley Bernstein, Broad

value: ENCBS555CAN at ENCODE; https://www.encodeproject.org/ENCBS555CAN/


title: Histone ChIP-seq from vagina (ENCLB324BJN)

description:
https://www.encodeproject.org/experiments/ENCSR495RJG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR495RJG
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR607UWA
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB324BJN
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) vagina tissue

value: vagina

value: Kristin Ardlie

value: ENCBS468YOF at ENCODE; https://www.encodeproject.org/ENCBS468YOF/


title: Histone ChIP-seq from transverse colon (ENCLB865RCV)

description:
https://www.encodeproject.org/experiments/ENCSR488YXS/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR488YXS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB865RCV
fragmentation methods: sonication (generic)
size range: 200-600

value: transverse colon

value: EnTEX:Colon - Transverse

value: ENCBS515RIZ at ENCODE; https://www.encodeproject.org/ENCBS515RIZ/


title: CRHN2

value: Brain

value: neurons


title: Transcriptome of AraC-treated THP1 cells for 3 days, biological rep1

description: Transcriptome expression data from AraC-treated THP1 cells for 3 days

source_name: THP1 cell line

tag: cell line

tag: cell state

value: Quiescent

value: AraC treatment for 3 days

value: total RNA


title: Histone ChIP-seq from transverse colon (ENCLB739FTC)

description:
https://www.encodeproject.org/experiments/ENCSR069EGE/
***************
biological replicate number: 2
technical replicate number: 1
description: Pipeline ran using replicate 1 and 3, replicate 2 raw data was archived.
experiment encode accession: ENCSR069EGE
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR651ISB
encode release date: 2017-10-30
lab: Bradley Bernstein, Broad
library encode accession: ENCLB739FTC
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue

value: male

value: adult

value: 54 year

value: ENCBS121FBL at ENCODE; https://www.encodeproject.org/ENCBS121FBL/


title: TF ChIP-seq from transverse colon (ENCLB883XHG)

description:
https://www.encodeproject.org/experiments/ENCSR907BES/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR907BES
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR651ISB
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB883XHG
fragmentation methods: sonication (generic)
size range: 200-600

value: CTCF

value: Bradley Bernstein, Broad

value: ENCBS633KVX at ENCODE; https://www.encodeproject.org/ENCBS633KVX/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from vagina (ENCLB857RKU)

description:
https://www.encodeproject.org/experiments/ENCSR495RJG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR495RJG
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR607UWA
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB857RKU
fragmentation methods: sonication (generic)
size range: 200-600

value: vagina

value: female

value: 51 year

value: Kristin Ardlie

value: ENCBS468YOF at ENCODE; https://www.encodeproject.org/ENCBS468YOF/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: Histone ChIP-seq from transverse colon (ENCLB101KYS)

description:
https://www.encodeproject.org/experiments/ENCSR488YXS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR488YXS
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR384KIB
encode release date: 2018-12-14
lab: Bradley Bernstein, Broad
library encode accession: ENCLB101KYS
fragmentation methods: none
size range: 200-600

value: transverse colon

value: EnTEX:Colon - Transverse

value: ENCBS555CAN at ENCODE; https://www.encodeproject.org/ENCBS555CAN/


title: CRHN1

value: Brain

value: neurons


title: Histone ChIP-seq from gastrocnemius medialis (ENCLB655TZF)

description:
https://www.encodeproject.org/experiments/ENCSR453MSI/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR453MSI
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR138WRC
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB655TZF
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) gastrocnemius medialis tissue

value: gastrocnemius medialis

value: tissue

value: i.e. REMC 6, 13, 14 and 15; EnTEX:Muscle - Skeletal also gastrocnemius medialis\n

value: adult

value: ENCBS640TBC at ENCODE; https://www.encodeproject.org/ENCBS640TBC/


title: Control ChIP-seq from transverse colon (ENCLB674SKA)

description:
https://www.encodeproject.org/experiments/ENCSR479HSY/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR479HSY
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB674SKA
size range: 200-600

value: male

value: 37 year

value: Bradley Bernstein, Broad

value: ENCBS816BKF at ENCODE; https://www.encodeproject.org/ENCBS816BKF/

value: Derived from ENCODE donor ENCDO845WKR; https://www.encodeproject.org/ENCDO845WKR/


title: TF ChIP-seq from upper lobe of left lung (ENCLB780WGF)

description:
https://www.encodeproject.org/experiments/ENCSR463XCZ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR463XCZ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR774MLK
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB780WGF
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens male adult (54 years) upper lobe of left lung tissue

value: CTCF

value: upper lobe of left lung

value: 54 year

value: Kristin Ardlie

value: ENCBS401SWW at ENCODE; https://www.encodeproject.org/ENCBS401SWW/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: icSHAPE from HepG2 (ENCLB897PIR)

description:
https://www.encodeproject.org/experiments/ENCSR992XHC/
***************
biological replicate number: 1
technical replicate number: 1
description: icSHAPE (NAi-N3) on HepG2 immortalized cell line
experiment encode accession: ENCSR992XHC
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR286LXS
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB897PIR
size range: >200

source_name: Homo sapiens HepG2 cell line treated with NAI-N3

tag: line

value: cell line

value: This sample corresponds to the treated icSHAPE from HepG2 cell line

tag: health state

value: hepatocellular carcinoma

value: child

value: 15 year

value: Rob Spitale, UCI

value: ATCC

tag: treatments

value: ENCBS416UEF at ENCODE; https://www.encodeproject.org/ENCBS416UEF/

value: Derived from ENCODE donor ENCDO000AAC; https://www.encodeproject.org/ENCDO000AAC/


title: Histone ChIP-seq from heart left ventricle (ENCLB112ILY)

description:
https://www.encodeproject.org/experiments/ENCSR449FRQ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR449FRQ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR178FVP
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB112ILY
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) heart left ventricle tissue

value: heart left ventricle

value: tissue

value: EnTEX:Heart - Left Ventricle

value: female

value: adult

value: 51 year

value: Bradley Bernstein, Broad

value: ENCBS684IAD at ENCODE; https://www.encodeproject.org/ENCBS684IAD/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: icSHAPE from HepG2 (ENCLB469CYX)

description:
https://www.encodeproject.org/experiments/ENCSR992XHC/
***************
biological replicate number: 3
technical replicate number: 1
description: icSHAPE (NAi-N3) on HepG2 immortalized cell line
experiment encode accession: ENCSR992XHC
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR286LXS
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB469CYX
size range: >200

value: cell line

value: male

value: ENCBS510FFO at ENCODE; https://www.encodeproject.org/ENCBS510FFO/


title: icSHAPE from HepG2 (ENCLB575YVH)

description:
https://www.encodeproject.org/experiments/ENCSR992XHC/
***************
biological replicate number: 2
technical replicate number: 1
description: icSHAPE (NAi-N3) on HepG2 immortalized cell line
experiment encode accession: ENCSR992XHC
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR286LXS
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB575YVH
size range: >200

value: This sample corresponds to the treated icSHAPE from HepG2 cell line

value: hepatocellular carcinoma

value: child

value: 15 year

value: ENCBS491TZK at ENCODE; https://www.encodeproject.org/ENCBS491TZK/


title: icSHAPE from K562 (ENCLB802LXD)

description:
https://www.encodeproject.org/experiments/ENCSR976RFC/
***************
biological replicate number: 1
technical replicate number: 1
description: icSHAPE (NAI-N3) on K562 immortalized cell line
experiment encode accession: ENCSR976RFC
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR803XFA
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB802LXD
size range: >200

source_name: Homo sapiens K562 cell line treated with NAI-N3

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Rob Spitale, UCI

value: ATCC

value: ENCBS236EJI at ENCODE; https://www.encodeproject.org/ENCBS236EJI/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/


title: icSHAPE from K562 (ENCLB958NBU)

description:
https://www.encodeproject.org/experiments/ENCSR976RFC/
***************
biological replicate number: 2
technical replicate number: 1
description: icSHAPE (NAI-N3) on K562 immortalized cell line
experiment encode accession: ENCSR976RFC
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR803XFA
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB958NBU
size range: >200

value: female

value: adult

value: ENCBS935ZOW at ENCODE; https://www.encodeproject.org/ENCBS935ZOW/


title: icSHAPE from K562 (ENCLB702DKL)

description:
https://www.encodeproject.org/experiments/ENCSR976RFC/
***************
biological replicate number: 3
technical replicate number: 1
description: icSHAPE (NAI-N3) on K562 immortalized cell line
experiment encode accession: ENCSR976RFC
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR803XFA
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB702DKL
size range: >200

value: cell line

value: ENCBS511YLK at ENCODE; https://www.encodeproject.org/ENCBS511YLK/


title: Histone ChIP-seq from gastrocnemius medialis (ENCLB975MGO)

description:
https://www.encodeproject.org/experiments/ENCSR453MSI/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR453MSI
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR138WRC
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB975MGO
fragmentation methods: sonication (generic)
size range: 200-600

value: gastrocnemius medialis

value: tissue

value: i.e. REMC 6, 13, 14 and 15; EnTEX:Muscle - Skeletal also gastrocnemius medialis\n

value: 51 year

value: Bradley Bernstein, Broad

value: Kristin Ardlie

value: ENCBS640TBC at ENCODE; https://www.encodeproject.org/ENCBS640TBC/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/


title: TF ChIP-seq from upper lobe of left lung (ENCLB755CET)

description:
https://www.encodeproject.org/experiments/ENCSR463XCZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR463XCZ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR774MLK
encode release date: 2019-09-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB755CET
fragmentation methods: sonication (generic)
size range: 200-600

value: CTCF

value: upper lobe of left lung

value: male

value: 54 year

value: ENCBS401SWW at ENCODE; https://www.encodeproject.org/ENCBS401SWW/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: TF ChIP-seq from esophagus muscularis mucosa (ENCLB372GNQ)

description:
https://www.encodeproject.org/experiments/ENCSR443WKD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR443WKD
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR545WFH
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB372GNQ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) esophagus muscularis mucosa tissue

value: esophagus muscularis mucosa

value: EnTEX:Esophagus - Muscularis

value: female

value: adult

value: ENCBS955ZON at ENCODE; https://www.encodeproject.org/ENCBS955ZON/


title: TF ChIP-seq from esophagus muscularis mucosa (ENCLB115ISM)

description:
https://www.encodeproject.org/experiments/ENCSR443WKD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR443WKD
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR545WFH
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB115ISM
fragmentation methods: sonication (generic)
size range: 200-600

value: tissue


title: icSHAPE from GM12878 (ENCLB305ZJP)

description:
https://www.encodeproject.org/experiments/ENCSR836VQU/
***************
biological replicate number: 1
technical replicate number: 1
description: icSHAPE (NAi-N3) on GM12878 immortalized cell line
experiment encode accession: ENCSR836VQU
assay title: icSHAPE
assembly: GRCh38
possible controls: ENCSR052BBY
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB305ZJP
size range: >200

source_name: Homo sapiens GM12878 cell line treated with NAI-N3

value: cell line

value: This sample corresponds to the treated icSHAPE from GM12878 cell line

value: unknown

value: Rob Spitale, UCI

value: ATCC

value: ENCBS842EZN at ENCODE; https://www.encodeproject.org/ENCBS842EZN/

value: Derived from ENCODE donor ENCDO000AAK; https://www.encodeproject.org/ENCDO000AAK/


title: Histone ChIP-seq from stomach (ENCLB733DKT)

description:
https://www.encodeproject.org/experiments/ENCSR475TRZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR475TRZ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR962EJE
encode release date: 2019-02-12
lab: Bradley Bernstein, Broad
library encode accession: ENCLB733DKT
fragmentation methods: sonication (generic)
size range: 200-600

value: stomach

value: male

value: Bradley Bernstein, Broad

value: Kristin Ardlie

value: ENCBS443LLE at ENCODE; https://www.encodeproject.org/ENCBS443LLE/


title: icSHAPE from K562 (ENCLB510CCS)

description:
https://www.encodeproject.org/experiments/ENCSR803XFA/
***************
biological replicate number: 3
technical replicate number: 1
description: icSHAPE control (DMSO) on K562 immortalized cell line
experiment encode accession: ENCSR803XFA
assay title: icSHAPE
assembly: GRCh38
encode release date: 2019-05-13
lab: Rob Spitale, UCI
library encode accession: ENCLB510CCS
size range: >200

source_name: Homo sapiens K562 cell line treated with dimethyl sulfoxide

value: chronic myelogenous leukemia (CML)

value: 53 year

value: treatment_term_id:CHEBI:28262; treatment_term_name:dimethyl sulfoxide; treatment_type:chemical;

value: ENCBS698OWO at ENCODE; https://www.encodeproject.org/ENCBS698OWO/

value: Derived from ENCODE donor ENCDO000AAD; https://www.encodeproject.org/ENCDO000AAD/


title: Control ChIP-seq from spleen (ENCLB672BZE)

description:
https://www.encodeproject.org/experiments/ENCSR803JPO/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR803JPO
assay title: Control ChIP-seq
assembly: GRCh38, hg19
encode release date: 2019-02-08
lab: Bradley Bernstein, Broad
library encode accession: ENCLB672BZE
size range: 200-600

source_name: Homo sapiens male adult (54 years) spleen tissue

value: spleen

value: tissue

value: adult

value: 54 year

value: ENCBS949QWK at ENCODE; https://www.encodeproject.org/ENCBS949QWK/

value: Derived from ENCODE donor ENCDO451RUA; https://www.encodeproject.org/ENCDO451RUA/


title: Histone ChIP-seq from uterus (ENCLB082YHM)

description:
https://www.encodeproject.org/experiments/ENCSR448IJB/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR448IJB
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR979XBX
encode release date: 2019-08-01
lab: Bradley Bernstein, Broad
library encode accession: ENCLB082YHM
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (53 years) uterus tissue

value: uterus

value: female

value: ENCBS754FVJ at ENCODE; https://www.encodeproject.org/ENCBS754FVJ/

value: Derived from ENCODE donor ENCDO793LXB; https://www.encodeproject.org/ENCDO793LXB/


title: Histone ChIP-seq from body of pancreas (ENCLB920ARK)

description:
https://www.encodeproject.org/experiments/ENCSR432DPY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR432DPY
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR700CAX
encode release date: 2019-02-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB920ARK
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens female adult (51 year) body of pancreas tissue

value: body of pancreas

value: 51 year

value: Bradley Bernstein, Broad

value: Kristin Ardlie

value: ENCBS535XPM at ENCODE; https://www.encodeproject.org/ENCBS535XPM/

value: Derived from ENCODE donor ENCDO271OUW; https://www.encodeproject.org/ENCDO271OUW/