title: total RNA-seq from upper lobe of right lung (ENCLB286WHW)

description:
https://www.encodeproject.org/experiments/ENCSR816IZA/
***************
biological replicate number: 1
technical replicate number: 1
description: w78_upper_lobe_of_right_lung
experiment encode accession: ENCSR816IZA
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB286WHW
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (60 years) upper lobe of right lung tissue, preserved by flash-freezing

value: upper lobe of right lung

value: 60 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS496CPG at ENCODE; https://www.encodeproject.org/ENCBS496CPG/

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


title: total RNA-seq from GM23338 (ENCLB643FCN)

status: Public on May 23 2021

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/ENCSR379DEC/
***************
biological replicate number: 1
technical replicate number: 2
description: pgp1_ipscs
experiment encode accession: ENCSR379DEC
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-03-09
lab: Barbara Wold, Caltech
library encode accession: ENCLB643FCN
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

library_source: transcriptomic

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

molecule: total RNA

organism: Homo sapiens

source_name: Homo sapiens GM23338 cell line, preserved by cryopreservation

extract_protocol:
extraction method: Animal tissue kit (Norgen Biotek cat#: 25700)
extraction protocol: https://www.encodeproject.org/documents/33482357-bcb8-43d0-ac76-d58ff785b710/@@download/attachment/Norgen_Animal-Tissue-RNA-Purification-Kit-Insert-PI25700-8-M14.pdf, general protocol: https://www.encodeproject.org/documents/01a7807d-0d18-4a4a-ac90-f4056a25a681/@@download/attachment/manualE7760_Directional_RNA_library_kit_October30_2018.pdf

tag: line

value: cell line

tag: description

value: PGP1 iPSCs

tag: biosample encode accession

tag: Sex

value: male

tag: dev stage

value: adult

tag: age

value: 53 year

tag: lab

value: Bradley Bernstein, Broad

tag: source

value: George Church

tag: link

value: ENCBS155WDP at ENCODE; https://www.encodeproject.org/ENCBS155WDP/

value: Derived from ENCODE donor ENCDO336AAA; https://www.encodeproject.org/ENCDO336AAA/


title: total RNA-seq from cardiac septum (ENCLB978KYZ)

description:
https://www.encodeproject.org/experiments/ENCSR818DBU/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_cardiac_septum
experiment encode accession: ENCSR818DBU
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB978KYZ
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (41 years) cardiac septum tissue

value: cardiac septum

value: tissue

value: female

value: 41 year

tag: health state

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

value: ENCBS731WFT at ENCODE; https://www.encodeproject.org/ENCBS731WFT/

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


title: total RNA-seq from left lung (ENCLB526BGX)

description:
https://www.encodeproject.org/experiments/ENCSR816HLU/
***************
biological replicate number: 1
technical replicate number: 1
description: w76_left_lung
experiment encode accession: ENCSR816HLU
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB526BGX
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: left lung

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

value: 40 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS420JRY at ENCODE; https://www.encodeproject.org/ENCBS420JRY/

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


title: total RNA-seq from left ventricle myocardium superior (ENCLB307NGV)

description:
https://www.encodeproject.org/experiments/ENCSR876TAN/
***************
biological replicate number: 1
technical replicate number: 1
description: w78_left_ventricle_myocardium_superior
experiment encode accession: ENCSR876TAN
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB307NGV
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (60 years) left ventricle myocardium superior tissue, preserved by flash-freezing

value: left ventricle myocardium superior

value: Superior wall of left ventricle.

value: male

value: adult

value: 60 year

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

value: ENCBS165LTN at ENCODE; https://www.encodeproject.org/ENCBS165LTN/

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


title: total RNA-seq from aorta (ENCLB041VMR)

description:
https://www.encodeproject.org/experiments/ENCSR377FPC/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_aorta
experiment encode accession: ENCSR377FPC
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB041VMR
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) aorta tissue, preserved by flash-freezing

value: aorta

value: tissue

value: female

value: 59 year

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

value: ENCBS759AII at ENCODE; https://www.encodeproject.org/ENCBS759AII/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: total RNA-seq from GM23338 (ENCLB723FTY)

description:
https://www.encodeproject.org/experiments/ENCSR379DEC/
***************
biological replicate number: 1
technical replicate number: 1
description: pgp1_ipscs
experiment encode accession: ENCSR379DEC
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-03-09
lab: Barbara Wold, Caltech
library encode accession: ENCLB723FTY
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: cell line

value: PGP1 iPSCs

value: 53 year

value: Bradley Bernstein, Broad

value: George Church

value: ENCBS155WDP at ENCODE; https://www.encodeproject.org/ENCBS155WDP/

value: Derived from ENCODE donor ENCDO336AAA; https://www.encodeproject.org/ENCDO336AAA/


title: total RNA-seq from ovary (ENCLB193HGX)

description:
https://www.encodeproject.org/experiments/ENCSR368HRJ/
***************
biological replicate number: 1
technical replicate number: 1
description: w80_ovary
experiment encode accession: ENCSR368HRJ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB193HGX
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (61 years) ovary tissue, preserved by flash-freezing

value: ovary

value: adult

value: 61 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: DM:no; HTN:no; CAD:no; lungs with moderate emphysema

value: ENCBS250FEP at ENCODE; https://www.encodeproject.org/ENCBS250FEP/

value: Derived from ENCODE donor ENCDO186XRB; https://www.encodeproject.org/ENCDO186XRB/


title: total RNA-seq from type B pancreatic cell (ENCLB992YEW)

description:
https://www.encodeproject.org/experiments/ENCSR352JCY/
***************
biological replicate number: 2
technical replicate number: 1
description: H9 derived insulin producing beta-like cells
experiment encode accession: ENCSR352JCY
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB992YEW
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female embryo (5 days) type B pancreatic in vitro differentiated cells originated from type B pancreatic cell

value: type B pancreatic cell

value: in vitro differentiated cells

value: WA09 derived insulin producing beta-like cells

value: female

value: healthy

value: embryonic

value: 5 day

value: SESCC

value: ENCBS251SEQ at ENCODE; https://www.encodeproject.org/ENCBS251SEQ/

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


title: Histone ChIP-seq from OCI-LY7 (ENCLB285RFC)

description:
https://www.encodeproject.org/experiments/ENCSR347DAG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR347DAG
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR063AUO
encode release date: 2016-10-27
lab: Bradley Bernstein, Broad
library encode accession: ENCLB285RFC
fragmentation methods: sonication (generic)
size range: 200-600

library_source: genomic

molecule: genomic DNA

source_name: Homo sapiens OCI-LY7 immortalized cell line

tag: antibody

value: cell line

value: established from the peripheral blood sample of a 48-year-old man with B-cell Non-Hodgkin lymphoma (B-NHL, diffuse large cell lymphoma, DLCL, stage 2A, at relapse) in 1984

value: 48 year

value: adult

value: male

value: B cell lymphoma

value: Bradley Bernstein, Broad

value: ENCBS699NWP at ENCODE; https://www.encodeproject.org/ENCBS699NWP/

value: Derived from ENCODE donor ENCDO351AAA; https://www.encodeproject.org/ENCDO351AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_1881; http://web.expasy.org/cellosaurus/CVCL_1881


title: total RNA-seq from type B pancreatic cell (ENCLB333UYH)

description:
https://www.encodeproject.org/experiments/ENCSR352JCY/
***************
biological replicate number: 1
technical replicate number: 1
description: H9 derived insulin producing beta-like cells
experiment encode accession: ENCSR352JCY
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB333UYH
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: type B pancreatic cell

value: in vitro differentiated cells

value: WA09 derived insulin producing beta-like cells

value: female

value: ENCBS779FCS at ENCODE; https://www.encodeproject.org/ENCBS779FCS/


title: TF ChIP-seq from HepG2 (ENCLB363CGS)

description:
https://www.encodeproject.org/experiments/ENCSR804HMZ/
***************
biological replicate number: 1
technical replicate number: 1
description: HNRNPLL ChIP-seq in HepG2
experiment encode accession: ENCSR804HMZ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR545RWZ
encode release date: 2017-12-01
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB363CGS
size range: 200-400

source_name: Homo sapiens HepG2 cell line

value: HNRNPLL

value: HNRNPLL ChIP-seq in HepG2

value: child

value: 15 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: hepatocellular carcinoma

value: ENCBS109EEN at ENCODE; https://www.encodeproject.org/ENCBS109EEN/

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


title: TF ChIP-seq from HepG2 (ENCLB209HJH)

description:
https://www.encodeproject.org/experiments/ENCSR804HMZ/
***************
biological replicate number: 2
technical replicate number: 1
description: HNRNPLL ChIP-seq in HepG2
experiment encode accession: ENCSR804HMZ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR545RWZ
encode release date: 2017-12-01
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB209HJH
size range: 200-400

value: cell line

value: male

value: ENCBS479IBT at ENCODE; https://www.encodeproject.org/ENCBS479IBT/


title: total RNA-seq from right lobe of liver (ENCLB596AIE)

description:
https://www.encodeproject.org/experiments/ENCSR323GUF/
***************
biological replicate number: 1
technical replicate number: 1
description: w63_right_lobe_of_liver
experiment encode accession: ENCSR323GUF
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB596AIE
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (47 years) right lobe of liver tissue, preserved by flash-freezing

value: right lobe of liver

value: tissue

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

value: adult

value: 47 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS768CAB at ENCODE; https://www.encodeproject.org/ENCBS768CAB/

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


title: TF ChIP-seq from hepatocyte (ENCLB079LLZ)

description:
https://www.encodeproject.org/experiments/ENCSR341VYI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR341VYI
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR107PGG
encode release date: 2018-02-24
lab: Bradley Bernstein, Broad
library encode accession: ENCLB079LLZ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens hepatocyte in vitro differentiated cells female embryo (5 days) derived from H9

value: hepatocyte

value: in vitro differentiated cells

value: Frozen or fixed, in vitro differentiated hepatocyte-like cells from ES WA09 (H9) by the SESCC for use by the ENCODE consortia

value: 5 day

value: embryonic

value: female

value: healthy

value: Richard Myers, HAIB

value: ENCBS520VFV at ENCODE; https://www.encodeproject.org/ENCBS520VFV/

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


title: total RNA-seq from endodermal cell (ENCLB216IOX)

description:
https://www.encodeproject.org/experiments/ENCSR291TRJ/
***************
biological replicate number: 2
technical replicate number: 1
description: H9 derived definitive endoderm
experiment encode accession: ENCSR291TRJ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB216IOX
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female embryo (5 days) endodermal in vitro differentiated cells originated from endodermal cell

value: endodermal cell

value: WA09 derived endoderm cells

value: Bradley Bernstein, Broad

value: SESCC

value: ENCBS958FWY at ENCODE; https://www.encodeproject.org/ENCBS958FWY/


title: total RNA-seq from endodermal cell (ENCLB595QRT)

description:
https://www.encodeproject.org/experiments/ENCSR291TRJ/
***************
biological replicate number: 1
technical replicate number: 1
description: H9 derived definitive endoderm
experiment encode accession: ENCSR291TRJ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB595QRT
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: ENCBS601OTT at ENCODE; https://www.encodeproject.org/ENCBS601OTT/


title: TF ChIP-seq from smooth muscle cell (ENCLB830DOQ)

description:
https://www.encodeproject.org/experiments/ENCSR261VAS/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR261VAS
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR729MRJ
encode release date: 2017-12-03
lab: Bradley Bernstein, Broad
library encode accession: ENCLB830DOQ
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens smooth muscle in vitro differentiated cells female embryo (5 days) derived from H9

value: CTCF

value: smooth muscle cell

value: Frozen or fixed, in vitro differentiated smooth muscle cells from ES WA09 (H9) by the SESCC for use by the ENCODE consortia

value: ENCBS780PCJ at ENCODE; https://www.encodeproject.org/ENCBS780PCJ/


title: TF ChIP-seq from smooth muscle cell (ENCLB380MYK)

description:
https://www.encodeproject.org/experiments/ENCSR261VAS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR261VAS
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR729MRJ
encode release date: 2017-12-03
lab: Bradley Bernstein, Broad
library encode accession: ENCLB380MYK
fragmentation methods: sonication (generic)
size range: 200-600
nucleic acid starting quantity: 2
nucleic acid starting quantity units: ng

value: in vitro differentiated cells

value: 5 day

value: ENCBS899TTJ at ENCODE; https://www.encodeproject.org/ENCBS899TTJ/


title: TF ChIP-seq from HepG2 (ENCLB692FBX)

description:
https://www.encodeproject.org/experiments/ENCSR339JTP/
***************
biological replicate number: 1
technical replicate number: 1
description: RBM39 ChIP-seq in HepG2
experiment encode accession: ENCSR339JTP
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR032EZQ
encode release date: 2018-03-06
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB692FBX
size range: 200-400

value: cell line

value: RBM39 ChIP-seq in HepG2

value: male

value: child

value: 15 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: hepatocellular carcinoma

value: ENCBS780HTG at ENCODE; https://www.encodeproject.org/ENCBS780HTG/

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


title: total RNA-seq from ovary (ENCLB536HKF)

description:
https://www.encodeproject.org/experiments/ENCSR320OTJ/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_ovary
experiment encode accession: ENCSR320OTJ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB536HKF
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (41 year) ovary tissue, preserved by flash-freezing

value: ovary

value: tissue

value: female

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

value: adult

value: 41 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS472VJA at ENCODE; https://www.encodeproject.org/ENCBS472VJA/

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


title: total RNA-seq from right cardiac atrium (ENCLB277APL)

description:
https://www.encodeproject.org/experiments/ENCSR266PVZ/
***************
biological replicate number: 1
technical replicate number: 1
description: w72_right_cardiac_atrium
experiment encode accession: ENCSR266PVZ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB277APL
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (46 years) right cardiac atrium tissue, preserved by flash-freezing

value: right cardiac atrium

value: 46 year

value: ENCBS341KAA at ENCODE; https://www.encodeproject.org/ENCBS341KAA/

value: Derived from ENCODE donor ENCDO411EVD; https://www.encodeproject.org/ENCDO411EVD/


title: total RNA-seq from spleen (ENCLB616QXD)

description:
https://www.encodeproject.org/experiments/ENCSR258ELN/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_spleen
experiment encode accession: ENCSR258ELN
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB616QXD
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) spleen tissue, preserved by flash-freezing

value: spleen

value: 59 year

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

value: ENCBS078NTB at ENCODE; https://www.encodeproject.org/ENCBS078NTB/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: TF ChIP-seq from K562 (ENCLB795IXS)

description:
https://www.encodeproject.org/experiments/ENCSR791OZM/
***************
biological replicate number: 1
technical replicate number: 1
description: RBM25 ChIP-seq in K562
experiment encode accession: ENCSR791OZM
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-18
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB795IXS
size range: 200-400

source_name: Homo sapiens K562 cell line

value: cell line

value: RBM25 ChIP-seq in K562

value: female

value: 53 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: chronic myelogenous leukemia (CML)

value: ENCBS052FEF at ENCODE; https://www.encodeproject.org/ENCBS052FEF/

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


title: total RNA-seq from heart right ventricle (ENCLB233TVP)

description:
https://www.encodeproject.org/experiments/ENCSR252UHW/
***************
biological replicate number: 1
technical replicate number: 1
description: w72_right_ventricle
experiment encode accession: ENCSR252UHW
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB233TVP
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (46 years) heart right ventricle tissue, preserved by flash-freezing

value: heart right ventricle

value: tissue

value: adult

value: 46 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS238NAR at ENCODE; https://www.encodeproject.org/ENCBS238NAR/


title: total RNA-seq from adrenal gland (ENCLB284AGP)

description:
https://www.encodeproject.org/experiments/ENCSR763OMY/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_adrenal
experiment encode accession: ENCSR763OMY
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB284AGP
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: adrenal gland

value: 41 year

value: ENCBS629ZGV at ENCODE; https://www.encodeproject.org/ENCBS629ZGV/

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


title: total RNA-seq from left colon (ENCLB987WVO)

description:
https://www.encodeproject.org/experiments/ENCSR773COB/
***************
biological replicate number: 1
technical replicate number: 1
description: w72_left_colon
experiment encode accession: ENCSR773COB
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB987WVO
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (46 years) left colon tissue, preserved by flash-freezing

value: left colon

value: female

value: ENCBS009KPO at ENCODE; https://www.encodeproject.org/ENCBS009KPO/

value: Derived from ENCODE donor ENCDO411EVD; https://www.encodeproject.org/ENCDO411EVD/


title: total RNA-seq from neural crest cell (ENCLB138KTX)

description:
https://www.encodeproject.org/experiments/ENCSR761SHI/
***************
biological replicate number: 1
technical replicate number: 1
description: H9 derived neural crest cells
experiment encode accession: ENCSR761SHI
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB138KTX
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female embryo (5 days) neural crest in vitro differentiated cells originated from neural crest cell

value: neural crest cell

value: in vitro differentiated cells

value: WA09 derived neural crest cells

value: healthy

value: embryonic

value: 5 day

value: Bradley Bernstein, Broad

value: SESCC

value: ENCBS200JOD at ENCODE; https://www.encodeproject.org/ENCBS200JOD/

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


title: total RNA-seq from neural crest cell (ENCLB720IKF)

description:
https://www.encodeproject.org/experiments/ENCSR761SHI/
***************
biological replicate number: 2
technical replicate number: 1
description: H9 derived neural crest cells
experiment encode accession: ENCSR761SHI
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB720IKF
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: ENCBS417JEU at ENCODE; https://www.encodeproject.org/ENCBS417JEU/


title: total RNA-seq from progenitor cell of endocrine pancreas (ENCLB015AYY)

description:
https://www.encodeproject.org/experiments/ENCSR733JBX/
***************
biological replicate number: 2
technical replicate number: 1
description: H9 derived pancreatic progenitor cells
experiment encode accession: ENCSR733JBX
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB015AYY
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female embryo (5 days) progenitor of endocrine pancreas in vitro differentiated cells originated from progenitor cell of endocrine pancreas

value: progenitor cell of endocrine pancreas

value: WA09 derived pancreatic progenitor cells

value: ENCBS825BIV at ENCODE; https://www.encodeproject.org/ENCBS825BIV/


title: total RNA-seq from left colon (ENCLB227NJL)

description:
https://www.encodeproject.org/experiments/ENCSR759TPN/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_left_colon
experiment encode accession: ENCSR759TPN
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB227NJL
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) left colon tissue, preserved by flash-freezing

value: left colon

value: tissue

value: female

value: adult

value: 59 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS908TVF at ENCODE; https://www.encodeproject.org/ENCBS908TVF/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: total RNA-seq from progenitor cell of endocrine pancreas (ENCLB005POE)

description:
https://www.encodeproject.org/experiments/ENCSR733JBX/
***************
biological replicate number: 1
technical replicate number: 1
description: H9 derived pancreatic progenitor cells
experiment encode accession: ENCSR733JBX
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB005POE
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female embryo (5 days) progenitor of endocrine pancreas in vitro differentiated cells

value: in vitro differentiated cells

value: embryonic

value: 5 day

value: Bradley Bernstein, Broad

value: SESCC

value: healthy

value: ENCBS832MSN at ENCODE; https://www.encodeproject.org/ENCBS832MSN/


title: total RNA-seq from colonic mucosa (ENCLB273OUK)

description:
https://www.encodeproject.org/experiments/ENCSR202OWR/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_colon_mucosa
experiment encode accession: ENCSR202OWR
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB273OUK
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (41 year) colonic mucosa tissue, preserved by flash-freezing

value: colonic mucosa

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

value: 41 year

value: ENCBS205RQN at ENCODE; https://www.encodeproject.org/ENCBS205RQN/

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


title: total RNA-seq from H1 (ENCLB218WME)

description:
https://www.encodeproject.org/experiments/ENCSR712GOC/
***************
biological replicate number: 1
technical replicate number: 1
description: h1_hesc
experiment encode accession: ENCSR712GOC
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB218WME
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens H1 cell line, preserved by flash-freezing

value: cell line

value: male

value: unknown

value: Job Dekker, UMass

value: René Maehr

value: ENCBS719XQC at ENCODE; https://www.encodeproject.org/ENCBS719XQC/

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


title: total RNA-seq from lower lobe of left lung (ENCLB363FUK)

description:
https://www.encodeproject.org/experiments/ENCSR718RTN/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_lower_lobe_of_left_lung
experiment encode accession: ENCSR718RTN
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB363FUK
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) lower lobe of left lung tissue, preserved by flash-freezing

value: lower lobe of left lung

value: tissue

value: female

value: adult

value: 59 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS231BSF at ENCODE; https://www.encodeproject.org/ENCBS231BSF/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: total RNA-seq from H9 (ENCLB833QAV)

description:
https://www.encodeproject.org/experiments/ENCSR712BRU/
***************
biological replicate number: 2
technical replicate number: 1
description: H9 ESC
experiment encode accession: ENCSR712BRU
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB833QAV
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens H9 cell line originated from H9

value: cell line

value: WA09 ES cells

value: healthy

value: embryonic

value: 5 day

value: Bradley Bernstein, Broad

value: SESCC

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

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


title: total RNA-seq from H9 (ENCLB823LSC)

description:
https://www.encodeproject.org/experiments/ENCSR712BRU/
***************
biological replicate number: 1
technical replicate number: 1
description: H9 ESC
experiment encode accession: ENCSR712BRU
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB823LSC
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: female

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


title: total RNA-seq from aorta (ENCLB064RTV)

description:
https://www.encodeproject.org/experiments/ENCSR185TQB/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_aorta
experiment encode accession: ENCSR185TQB
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB064RTV
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: aorta

value: tissue

value: adult

value: 41 year

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

value: ENCBS481ZAB at ENCODE; https://www.encodeproject.org/ENCBS481ZAB/

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


title: total RNA-seq from mucosa of descending colon (ENCLB596FDK)

description:
https://www.encodeproject.org/experiments/ENCSR674KHG/
***************
biological replicate number: 1
technical replicate number: 1
description: w76_mucosa_of_descending_colon
experiment encode accession: ENCSR674KHG
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB596FDK
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (40 years) mucosa of descending colon tissue, preserved by flash-freezing

value: mucosa of descending colon

value: male

value: 40 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS105TFS at ENCODE; https://www.encodeproject.org/ENCBS105TFS/

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


title: total RNA-seq from WTC11 (ENCLB366GPZ)

description:
https://www.encodeproject.org/experiments/ENCSR673UKZ/
***************
biological replicate number: 1
technical replicate number: 1
description: LRGASP_WTC11
experiment encode accession: ENCSR673UKZ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-05-06
lab: Barbara Wold, Caltech
library encode accession: ENCLB366GPZ
spikeins used: Lexogen set 4 reference spike-ins used for long-read RNA-seq, including the longSIRVs and SIRVs. Note that this does NOT contain the ERCCs that are a part of this mix., ERCC reference spike-ins used for LRGASP. Note that this does NOT contain the SIRVs that are a part of this mix (found in ENCSR759PLA).
nucleic acid starting quantity: 400
nucleic acid starting quantity units: ng

source_name: Homo sapiens WTC11 cell line

value: cell line

value: Induced pluripotent stem cell line derived from adult skin (leg) fibroblasts; subject clinically normal

value: 30 year

value: Barbara Wold, Caltech

tag: passage number

value: ENCBS944CBA at ENCODE; https://www.encodeproject.org/ENCBS944CBA/

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


title: total RNA-seq from WTC11 (ENCLB979NPE)

description:
https://www.encodeproject.org/experiments/ENCSR673UKZ/
***************
biological replicate number: 3
technical replicate number: 1
description: LRGASP_WTC11
experiment encode accession: ENCSR673UKZ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-05-06
lab: Barbara Wold, Caltech
library encode accession: ENCLB979NPE
spikeins used: Lexogen set 4 reference spike-ins used for long-read RNA-seq, including the longSIRVs and SIRVs. Note that this does NOT contain the ERCCs that are a part of this mix., ERCC reference spike-ins used for LRGASP. Note that this does NOT contain the SIRVs that are a part of this mix (found in ENCSR759PLA).
nucleic acid starting quantity: 400
nucleic acid starting quantity units: ng

value: adult

value: ENCBS474NOC at ENCODE; https://www.encodeproject.org/ENCBS474NOC/


title: TF ChIP-seq from A673 (ENCLB901ZVP)

description:
https://www.encodeproject.org/experiments/ENCSR179SAO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR179SAO
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR196CXJ
encode release date: 2017-11-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB901ZVP
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens A673 immortalized cell line

value: Cell line is A673; this is a purchasable public domain cell type per Miguel Rivera, M.D.

value: unknown

value: female

value: 15 year

value: Bradley Bernstein, Broad

value: ENCBS615MBV at ENCODE; https://www.encodeproject.org/ENCBS615MBV/

value: Derived from ENCODE donor ENCDO027VXA; https://www.encodeproject.org/ENCDO027VXA/

value: ENCODE dbxrefs Cellosaurus CVCL_0080; http://web.expasy.org/cellosaurus/CVCL_0080


title: total RNA-seq from left cardiac atrium (ENCLB606NCC)

description:
https://www.encodeproject.org/experiments/ENCSR652PHZ/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_left_cardiac_atrium
experiment encode accession: ENCSR652PHZ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB606NCC
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) left cardiac atrium tissue, preserved by flash-freezing

value: left cardiac atrium

value: tissue

value: 59 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS034QSD at ENCODE; https://www.encodeproject.org/ENCBS034QSD/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: total RNA-seq from WTC11 (ENCLB122OCH)

description:
https://www.encodeproject.org/experiments/ENCSR673UKZ/
***************
biological replicate number: 2
technical replicate number: 1
description: LRGASP_WTC11
experiment encode accession: ENCSR673UKZ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-05-06
lab: Barbara Wold, Caltech
library encode accession: ENCLB122OCH
spikeins used: Lexogen set 4 reference spike-ins used for long-read RNA-seq, including the longSIRVs and SIRVs. Note that this does NOT contain the ERCCs that are a part of this mix., ERCC reference spike-ins used for LRGASP. Note that this does NOT contain the SIRVs that are a part of this mix (found in ENCSR759PLA).
nucleic acid starting quantity: 400
nucleic acid starting quantity units: ng

value: cell line

value: Induced pluripotent stem cell line derived from adult skin (leg) fibroblasts; subject clinically normal

value: male

value: adult

value: 30 year

value: Barbara Wold, Caltech

value: ENCBS593PKA at ENCODE; https://www.encodeproject.org/ENCBS593PKA/

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


title: total RNA-seq from ovary (ENCLB832ZHL)

description:
https://www.encodeproject.org/experiments/ENCSR146ZLV/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_ovary
experiment encode accession: ENCSR146ZLV
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB832ZHL
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) ovary tissue, preserved by flash-freezing

value: ovary

value: female

value: ENCBS756ETL at ENCODE; https://www.encodeproject.org/ENCBS756ETL/


title: total RNA-seq from right lobe of liver (ENCLB777JZD)

description:
https://www.encodeproject.org/experiments/ENCSR135IAL/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_right_lobe_of_liver
experiment encode accession: ENCSR135IAL
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB777JZD
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (41 years) right lobe of liver tissue, preserved by flash-freezing

value: right lobe of liver

value: tissue

value: 41 year

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

value: ENCBS823URA at ENCODE; https://www.encodeproject.org/ENCBS823URA/

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


title: TF ChIP-seq from NCI-H929 (ENCLB567QTM)

description:
https://www.encodeproject.org/experiments/ENCSR634OAQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR634OAQ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR409FGC
encode release date: 2017-11-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB567QTM
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens NCI-H929 immortalized cell line

value: CTCF

value: cell line

value: human multiple myeloma established from the pleural effusion of a 62-year-old white woman with myeloma (IgAkappa) at relapse; cells were described as follows:cells synthesize high amounts of immunoglobulin, c-myc proto-oncogene is rearranged and c-myc RNA is expressed, cells are EBV-negative;

value: 62 year

value: multiple myeloma

value: Bradley Bernstein, Broad

value: ENCBS571AQH at ENCODE; https://www.encodeproject.org/ENCBS571AQH/

value: Derived from ENCODE donor ENCDO220OYR; https://www.encodeproject.org/ENCDO220OYR/


title: total RNA-seq from pancreas (ENCLB064AWH)

description:
https://www.encodeproject.org/experiments/ENCSR165QTZ/
***************
biological replicate number: 1
technical replicate number: 1
description: w80_pancreas
experiment encode accession: ENCSR165QTZ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB064AWH
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (61 year) pancreas tissue, preserved by flash-freezing

value: pancreas

value: DM:no; HTN:no; CAD:no; lungs with moderate emphysema

value: adult

value: 61 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS346NXH at ENCODE; https://www.encodeproject.org/ENCBS346NXH/

value: Derived from ENCODE donor ENCDO186XRB; https://www.encodeproject.org/ENCDO186XRB/


title: TF ChIP-seq from NCI-H929 (ENCLB683XWX)

description:
https://www.encodeproject.org/experiments/ENCSR634OAQ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR634OAQ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR409FGC
encode release date: 2017-11-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB683XWX
fragmentation methods: none
size range: 200-600

value: female

value: ENCBS197CBA at ENCODE; https://www.encodeproject.org/ENCBS197CBA/


title: total RNA-seq from Right ventricle myocardium superior (ENCLB193OBD)

description:
https://www.encodeproject.org/experiments/ENCSR132VGJ/
***************
biological replicate number: 1
technical replicate number: 1
description: w78_right_ventricle_myocardium_superior
experiment encode accession: ENCSR132VGJ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB193OBD
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (60 years) Right ventricle myocardium superior tissue, preserved by flash-freezing

value: Right ventricle myocardium superior

value: tissue

value: Superior wall of right ventricle.

value: male

value: 60 year

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

value: ENCBS580WTV at ENCODE; https://www.encodeproject.org/ENCBS580WTV/

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


title: total RNA-seq from sciatic nerve (ENCLB923OCX)

description:
https://www.encodeproject.org/experiments/ENCSR631NUQ/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_sciatic_nerve
experiment encode accession: ENCSR631NUQ
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB923OCX
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: sciatic nerve

value: 41 year

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

value: ENCBS402EUY at ENCODE; https://www.encodeproject.org/ENCBS402EUY/

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


title: total RNA-seq from posterior vena cava (ENCLB727ZJI)

description:
https://www.encodeproject.org/experiments/ENCSR130TZW/
***************
biological replicate number: 1
technical replicate number: 1
description: w71_posterior_vena_cava
experiment encode accession: ENCSR130TZW
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB727ZJI
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (47 years) posterior vena cava tissue, preserved by flash-freezing

value: posterior vena cava

value: adult

value: 47 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS741WNS at ENCODE; https://www.encodeproject.org/ENCBS741WNS/

value: Derived from ENCODE donor ENCDO528BHB; https://www.encodeproject.org/ENCDO528BHB/


title: total RNA-seq from right lobe of liver (ENCLB100JUC)

description:
https://www.encodeproject.org/experiments/ENCSR229LFK/
***************
biological replicate number: 1
technical replicate number: 1
description: w62_right_lobe_of_liver
experiment encode accession: ENCSR229LFK
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB100JUC
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female child (16 years) right lobe of liver tissue, preserved by flash-freezing

value: right lobe of liver

value: tissue

value: female

value: child

value: 16 year

value: ENCBS949OWB at ENCODE; https://www.encodeproject.org/ENCBS949OWB/

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


title: TF ChIP-seq from GM23248 (ENCLB648QFH)

description:
https://www.encodeproject.org/experiments/ENCSR131FFJ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR131FFJ
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR922FLS
encode release date: 2018-03-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB648QFH
fragmentation methods: sonication (generic)
size range: 200-600
nucleic acid starting quantity: 3
nucleic acid starting quantity units: ng

source_name: Homo sapiens fibroblast of arm primary cell male adult (53 years)

value: cell line

value: These are primary fibroblasts taken from the PGP1 donor from the Personal Genome Project (PGP).

value: 53 year

value: male

value: Thomas Gingeras, CSHL

value: ENCBS372AAA at ENCODE; https://www.encodeproject.org/ENCBS372AAA/

value: Derived from ENCODE donor ENCDO336AAA; https://www.encodeproject.org/ENCDO336AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_F183; http://web.expasy.org/cellosaurus/CVCL_F183

value: Coriell sample source; http://www.ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM23248&PgId=166


title: TF ChIP-seq from GM23248 (ENCLB413FIB)

description:
https://www.encodeproject.org/experiments/ENCSR131FFJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR131FFJ
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR922FLS
encode release date: 2018-03-09
lab: Bradley Bernstein, Broad
library encode accession: ENCLB413FIB
fragmentation methods: sonication (generic)
size range: 200-600
nucleic acid starting quantity: 2
nucleic acid starting quantity units: ng

value: adult

value: ENCBS367AAA at ENCODE; https://www.encodeproject.org/ENCBS367AAA/


title: TF ChIP-seq from SU-DHL-6 (ENCLB767EGU)

description:
https://www.encodeproject.org/experiments/ENCSR125DKL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR125DKL
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR179YLS
encode release date: 2017-11-29
lab: Bradley Bernstein, Broad
library encode accession: ENCLB767EGU
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens SUDHL6 immortalized cell line

value: CTCF

value: also called SU-DHL-6 (diffuse histiocytic lymphoma) - disease:large cell lymphoma; diffuse mixed histiocytic and lymphocytic lymphoma; follicular B cell lymphoma; ATCC CRL-2959

value: 43 year

value: Bradley Bernstein, Broad

value: ENCBS136LHJ at ENCODE; https://www.encodeproject.org/ENCBS136LHJ/

value: Derived from ENCODE donor ENCDO353AAA; https://www.encodeproject.org/ENCDO353AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_2206; http://web.expasy.org/cellosaurus/CVCL_2206


title: total RNA-seq from spleen (ENCLB674YYK)

description:
https://www.encodeproject.org/experiments/ENCSR096LTX/
***************
biological replicate number: 1
technical replicate number: 1
description: w80_spleen
experiment encode accession: ENCSR096LTX
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB674YYK
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (61 year) spleen tissue, preserved by flash-freezing

value: spleen

value: tissue

value: female

value: DM:no; HTN:no; CAD:no; lungs with moderate emphysema

value: 61 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS150YMA at ENCODE; https://www.encodeproject.org/ENCBS150YMA/

value: Derived from ENCODE donor ENCDO186XRB; https://www.encodeproject.org/ENCDO186XRB/


title: TF ChIP-seq from GM23248 (ENCLB519RSJ)

description:
https://www.encodeproject.org/experiments/ENCSR096KPA/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR096KPA
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR922FLS
encode release date: 2018-03-04
lab: Bradley Bernstein, Broad
library encode accession: ENCLB519RSJ
fragmentation methods: sonication (generic)
size range: 200-600
nucleic acid starting quantity: 4
nucleic acid starting quantity units: ng

value: cell line

value: These are primary fibroblasts taken from the PGP1 donor from the Personal Genome Project (PGP).

value: 53 year

value: adult

value: male

value: Thomas Gingeras, CSHL

value: ENCBS372AAA at ENCODE; https://www.encodeproject.org/ENCBS372AAA/

value: Derived from ENCODE donor ENCDO336AAA; https://www.encodeproject.org/ENCDO336AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_F183; http://web.expasy.org/cellosaurus/CVCL_F183

value: Coriell sample source; http://www.ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM23248&PgId=166


title: TF ChIP-seq from K562 (ENCLB401AOZ)

description:
https://www.encodeproject.org/experiments/ENCSR112RNT/
***************
biological replicate number: 2
technical replicate number: 1
description: HNRNPLL ChIP-seq in K562
experiment encode accession: ENCSR112RNT
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR436OZQ
encode release date: 2017-12-01
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB401AOZ
size range: 200-400

source_name: Homo sapiens K562 cell line

value: HNRNPLL

value: HNRNPLL ChIP-seq in K562

value: female

value: Xiang-Dong Fu, UCSD

value: ATCC

value: chronic myelogenous leukemia (CML)

value: ENCBS249MAT at ENCODE; https://www.encodeproject.org/ENCBS249MAT/

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


title: total RNA-seq from mucosa of descending colon (ENCLB343SWL)

description:
https://www.encodeproject.org/experiments/ENCSR184LTL/
***************
biological replicate number: 1
technical replicate number: 1
description: w80_mucosa_of_descending_colon
experiment encode accession: ENCSR184LTL
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB343SWL
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (61 year) mucosa of descending colon tissue, preserved by flash-freezing

value: mucosa of descending colon

value: tissue

value: DM:no; HTN:no; CAD:no; lungs with moderate emphysema

value: 61 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS825BLU at ENCODE; https://www.encodeproject.org/ENCBS825BLU/

value: Derived from ENCODE donor ENCDO186XRB; https://www.encodeproject.org/ENCDO186XRB/


title: total RNA-seq from right cardiac atrium (ENCLB336EXN)

description:
https://www.encodeproject.org/experiments/ENCSR622PIH/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_cardiac_right_atrium
experiment encode accession: ENCSR622PIH
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB336EXN
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) right cardiac atrium tissue, preserved by flash-freezing

value: right cardiac atrium

value: adult

value: 59 year

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

value: ENCBS911SOZ at ENCODE; https://www.encodeproject.org/ENCBS911SOZ/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: total RNA-seq from spleen (ENCLB387VTO)

description:
https://www.encodeproject.org/experiments/ENCSR621PZI/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_spleen
experiment encode accession: ENCSR621PZI
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB387VTO
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: spleen

value: female

value: 41 year

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

value: ENCBS411TAI at ENCODE; https://www.encodeproject.org/ENCBS411TAI/

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


title: total RNA-seq from pancreas (ENCLB629WRC)

description:
https://www.encodeproject.org/experiments/ENCSR071DYD/
***************
biological replicate number: 1
technical replicate number: 1
description: w62_pancreas
experiment encode accession: ENCSR071DYD
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB629WRC
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female child (16 years) pancreas tissue, preserved by flash-freezing

value: pancreas

value: tissue

value: child

value: 16 year

value: ENCBS424VDG at ENCODE; https://www.encodeproject.org/ENCBS424VDG/

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


title: Histone ChIP-seq from MCF-7 (ENCLB296HBR)

description:
https://www.encodeproject.org/experiments/ENCSR059ICA/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR059ICA
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR768LHG
encode release date: 2017-01-26
lab: Bradley Bernstein, Broad
library encode accession: ENCLB296HBR
fragmentation methods: shearing (Covaris generic)
size range: 200-600

source_name: Homo sapiens MCF-7 immortalized cell line

value: cell line

value: mammary epithelium, doubling time ~ 29hoursATCC HTB-22

value: 69 year

value: adult

value: breast cancer (adenocarcinoma)

value: Bradley Bernstein, Broad

value: ENCBS967MVZ at ENCODE; https://www.encodeproject.org/ENCBS967MVZ/

value: Derived from ENCODE donor ENCDO000AAE; https://www.encodeproject.org/ENCDO000AAE/

value: ENCODE dbxrefs Cellosaurus CVCL_0031; http://web.expasy.org/cellosaurus/CVCL_0031

value: ATCC sample source; http://www.atcc.org/products/all/HTB-22.aspx


title: Histone ChIP-seq from neural cell (ENCLB603GMJ)

description:
https://www.encodeproject.org/experiments/ENCSR076NBJ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR076NBJ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR308JFE
encode release date: 2014-07-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB603GMJ
fragmentation methods: shearing (Covaris generic)
size range: 200-600

source_name: Homo sapiens neural in vitro differentiated cells male embryo

value: neural cell

value: in vitro differentiated cells

value: embryonic

value: male

value: unknown

value: healthy

value: ENCBS504GFW at ENCODE; https://www.encodeproject.org/ENCBS504GFW/

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


title: total RNA-seq from pancreas (ENCLB764MAZ)

description:
https://www.encodeproject.org/experiments/ENCSR579BDN/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_pancreas
experiment encode accession: ENCSR579BDN
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB764MAZ
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: pancreas

value: tissue

value: female

value: 41 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS193UJO at ENCODE; https://www.encodeproject.org/ENCBS193UJO/

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


title: Histone ChIP-seq from neural cell (ENCLB848JUC)

description:
https://www.encodeproject.org/experiments/ENCSR076NBJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR076NBJ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR308JFE
encode release date: 2014-07-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB848JUC
fragmentation methods: shearing (Covaris generic)
size range: 200-600

value: neural cell

value: Bradley Bernstein, Broad

value: ENCBS737HIZ at ENCODE; https://www.encodeproject.org/ENCBS737HIZ/


title: total RNA-seq from posterior vena cava (ENCLB041CRT)

description:
https://www.encodeproject.org/experiments/ENCSR149AHS/
***************
biological replicate number: 1
technical replicate number: 1
description: w73_posterior_vena_cava
experiment encode accession: ENCSR149AHS
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB041CRT
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (59 years) posterior vena cava tissue, preserved by flash-freezing

value: posterior vena cava

value: adult

value: 59 year

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

value: ENCBS892JRQ at ENCODE; https://www.encodeproject.org/ENCBS892JRQ/

value: Derived from ENCODE donor ENCDO856ZOJ; https://www.encodeproject.org/ENCDO856ZOJ/


title: total RNA-seq from endodermal cell (ENCLB090YSX)

description:
https://www.encodeproject.org/experiments/ENCSR559HWG/
***************
biological replicate number: 1
technical replicate number: 1
description: h1_endoderm
experiment encode accession: ENCSR559HWG
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB090YSX
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male embryo endodermal in vitro differentiated cells originated from H1, preserved by flash-freezing

value: endodermal cell

value: in vitro differentiated cells

value: male

value: embryonic

value: unknown

value: Job Dekker, UMass

value: René Maehr

value: healthy

value: ENCBS017VBO at ENCODE; https://www.encodeproject.org/ENCBS017VBO/

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


title: total RNA-seq from psoas muscle (ENCLB635GSK)

description:
https://www.encodeproject.org/experiments/ENCSR574PFY/
***************
biological replicate number: 1
technical replicate number: 1
description: w61_psoas
experiment encode accession: ENCSR574PFY
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB635GSK
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

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

value: psoas muscle

value: tissue

value: female

value: 41 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS538ZJX at ENCODE; https://www.encodeproject.org/ENCBS538ZJX/

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


title: total RNA-seq from endodermal cell (ENCLB814QPU)

description:
https://www.encodeproject.org/experiments/ENCSR559HWG/
***************
biological replicate number: 3
technical replicate number: 1
description: h1_endoderm
experiment encode accession: ENCSR559HWG
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB814QPU
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: endodermal cell

value: in vitro differentiated cells

value: male

value: ENCBS251IOF at ENCODE; https://www.encodeproject.org/ENCBS251IOF/


title: total RNA-seq from psoas muscle (ENCLB436RJL)

description:
https://www.encodeproject.org/experiments/ENCSR563VMC/
***************
biological replicate number: 1
technical replicate number: 1
description: w80_psoas_muscle
experiment encode accession: ENCSR563VMC
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB436RJL
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens female adult (61 years) psoas muscle tissue, preserved by flash-freezing

value: adult

value: 61 year

value: DM:no; HTN:no; CAD:no; lungs with moderate emphysema

value: ENCBS326LXR at ENCODE; https://www.encodeproject.org/ENCBS326LXR/

value: Derived from ENCODE donor ENCDO186XRB; https://www.encodeproject.org/ENCDO186XRB/


title: TF ChIP-seq from K562 (ENCLB907EJB)

description:
https://www.encodeproject.org/experiments/ENCSR112RNT/
***************
biological replicate number: 1
technical replicate number: 1
description: HNRNPLL ChIP-seq in K562
experiment encode accession: ENCSR112RNT
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR436OZQ
encode release date: 2017-12-01
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB907EJB
size range: 200-400

value: HNRNPLL

value: cell line

value: HNRNPLL ChIP-seq in K562

value: 53 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: chronic myelogenous leukemia (CML)

value: ENCBS808KRH at ENCODE; https://www.encodeproject.org/ENCBS808KRH/

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


title: total RNA-seq from left ventricle myocardium inferior (ENCLB856JHU)

description:
https://www.encodeproject.org/experiments/ENCSR516TTH/
***************
biological replicate number: 1
technical replicate number: 1
description: w78_left_ventricle_myocardium
experiment encode accession: ENCSR516TTH
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB856JHU
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (60 years) left ventricle myocardium inferior tissue, preserved by flash-freezing

value: left ventricle myocardium inferior

value: tissue

value: Inferior wall of left ventricle.

value: 60 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS735OAR at ENCODE; https://www.encodeproject.org/ENCBS735OAR/

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


title: total RNA-seq from Right ventricle myocardium inferior (ENCLB391UJF)

description:
https://www.encodeproject.org/experiments/ENCSR015PUN/
***************
biological replicate number: 1
technical replicate number: 1
description: w78_right_ventricle_myocardium_inferior
experiment encode accession: ENCSR015PUN
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB391UJF
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (60 years) Right ventricle myocardium inferior tissue, preserved by flash-freezing

value: Right ventricle myocardium inferior

value: Inferior wall of right ventricle.

value: male

value: adult

value: ENCBS705XRW at ENCODE; https://www.encodeproject.org/ENCBS705XRW/


title: Histone ChIP-seq from testis (ENCLB952VEM)

description:
https://www.encodeproject.org/experiments/ENCSR561MYM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR561MYM
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR215WNN
encode release date: 2017-08-28
lab: Bradley Bernstein, Broad
library encode accession: ENCLB952VEM
fragmentation methods: sonication (generic)
size range: 200-600

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

value: testis

value: 37 year

value: Bradley Bernstein, Broad

value: Kristin Ardlie

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

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


title: total RNA-seq from endodermal cell (ENCLB924MDI)

description:
https://www.encodeproject.org/experiments/ENCSR559HWG/
***************
biological replicate number: 2
technical replicate number: 1
description: h1_endoderm
experiment encode accession: ENCSR559HWG
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB924MDI
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

value: endodermal cell

value: in vitro differentiated cells

value: embryonic

value: unknown

value: Job Dekker, UMass

value: René Maehr

value: healthy

value: ENCBS360LED at ENCODE; https://www.encodeproject.org/ENCBS360LED/

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


title: total RNA-seq from foreskin keratinocyte (ENCLB807NTL)

description:
https://www.encodeproject.org/experiments/ENCSR959LTT/
***************
biological replicate number: 2
technical replicate number: 1
description: RiboZero RNA-seq on primary keratinocytes in day 3 of differentiation
experiment encode accession: ENCSR959LTT
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2017-10-10
lab: Michael Snyder, Stanford
library encode accession: ENCLB807NTL
size range: >200

source_name: Homo sapiens male newborn (2-4 days) foreskin keratinocyte primary cell treated with 1.2 mM calcium for 2.5 days

extract_protocol:
general protocol: https://www.encodeproject.org/documents/9021cb71-35b1-4a9a-9fcc-38c6df5e9fea/@@download/attachment/ggr.keratinocyte.snyder-lab.rna_assays.pdf
extraction method: Qiagen RNA extraction

value: foreskin keratinocyte

value: primary cell

value: Primary foreskin keratinocyte cells from a newborn healthy male donor, differentiated in 2D culture, day 3.0

value: male

value: newborn

value: 2-4 day

value: Paul Khavari, Stanford

value: Paul Khavari

tag: treatments

value: treatment_term_id:CHEBI:86158; treatment_term_name:calcium; treatment_type:chemical; duration:2.5; duration_units:day;

value: Healthy

value: ENCBS299ONK at ENCODE; https://www.encodeproject.org/ENCBS299ONK/

value: Derived from ENCODE donor ENCDO005EGE; https://www.encodeproject.org/ENCDO005EGE/


title: TF ChIP-seq from HepG2 (ENCLB190KBV)

description:
https://www.encodeproject.org/experiments/ENCSR945NSF/
***************
biological replicate number: 2
technical replicate number: 1
description: PCBP2 ChIP-seq on HepG2
experiment encode accession: ENCSR945NSF
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR975KJI
encode release date: 2018-01-16
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB190KBV
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

source_name: Homo sapiens HepG2 cell line

value: cell line

value: PCBP2 ChIP-seq on HepG2 cells

value: child

value: 15 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: hepatocellular carcinoma

value: ENCBS261BDP at ENCODE; https://www.encodeproject.org/ENCBS261BDP/

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


title: TF ChIP-seq from GM23248 (ENCLB981NIP)

description:
https://www.encodeproject.org/experiments/ENCSR096KPA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR096KPA
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR922FLS
encode release date: 2018-03-04
lab: Bradley Bernstein, Broad
library encode accession: ENCLB981NIP
fragmentation methods: sonication (generic)
size range: 200-600
nucleic acid starting quantity: 1
nucleic acid starting quantity units: ng

source_name: Homo sapiens fibroblast of arm primary cell male adult (53 years)

value: These are primary fibroblasts taken from the PGP1 donor from the Personal Genome Project (PGP).

value: 53 year

value: adult

value: male

value: Thomas Gingeras, CSHL

value: ENCBS367AAA at ENCODE; https://www.encodeproject.org/ENCBS367AAA/

value: Derived from ENCODE donor ENCDO336AAA; https://www.encodeproject.org/ENCDO336AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_F183; http://web.expasy.org/cellosaurus/CVCL_F183

value: Coriell sample source; http://www.ccr.coriell.org/Sections/Search/Sample_Detail.aspx?Ref=GM23248&PgId=166


title: TF ChIP-seq from neural cell (ENCLB281YTQ)

description:
https://www.encodeproject.org/experiments/ENCSR511CUH/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR511CUH
assay title: TF ChIP-seq
assembly: GRCh38
possible controls: ENCSR308JFE
encode release date: 2014-07-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB281YTQ
fragmentation methods: shearing (Covaris generic)
size range: 200-600

value: neural cell

value: in vitro differentiated cells

value: embryonic

value: unknown

value: healthy

value: Bradley Bernstein, Broad

value: ENCBS737HIZ at ENCODE; https://www.encodeproject.org/ENCBS737HIZ/

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


title: TF ChIP-seq from HepG2 (ENCLB069REM)

description:
https://www.encodeproject.org/experiments/ENCSR555ZMV/
***************
biological replicate number: 2
technical replicate number: 1
description: AGO1 ChIP-seq in HepG2
experiment encode accession: ENCSR555ZMV
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR545RWZ
encode release date: 2017-12-01
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB069REM
size range: 200-400

value: cell line

value: AGO1 ChIP-seq in HepG2

value: child

value: 15 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: hepatocellular carcinoma

value: ENCBS497AGN at ENCODE; https://www.encodeproject.org/ENCBS497AGN/

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


title: TF ChIP-seq from HepG2 (ENCLB957VIO)

description:
https://www.encodeproject.org/experiments/ENCSR945NSF/
***************
biological replicate number: 1
technical replicate number: 1
description: PCBP2 ChIP-seq on HepG2
experiment encode accession: ENCSR945NSF
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR975KJI
encode release date: 2018-01-16
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB957VIO
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: PCBP2 ChIP-seq on HepG2 cells

value: male

value: ENCBS254RNF at ENCODE; https://www.encodeproject.org/ENCBS254RNF/


title: total RNA-seq from spleen (ENCLB011SUS)

description:
https://www.encodeproject.org/experiments/ENCSR074FTH/
***************
biological replicate number: 1
technical replicate number: 1
description: w64_spleen
experiment encode accession: ENCSR074FTH
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2021-01-04
lab: Barbara Wold, Caltech
library encode accession: ENCLB011SUS
fragmentation methods: chemical (NEBNext Ultra II Directional)
spikeins used: ERCC spike profile for stranded Ribo reduced libraries 2019 December
nucleic acid starting quantity: 300
nucleic acid starting quantity units: ng

source_name: Homo sapiens male adult (26 years) spleen tissue, preserved by flash-freezing

value: spleen

value: tissue

value: adult

value: 26 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

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

value: ENCBS343RZW at ENCODE; https://www.encodeproject.org/ENCBS343RZW/

value: Derived from ENCODE donor ENCDO221IPH; https://www.encodeproject.org/ENCDO221IPH/


title: total RNA-seq from foreskin keratinocyte (ENCLB291OIW)

description:
https://www.encodeproject.org/experiments/ENCSR959LTT/
***************
biological replicate number: 1
technical replicate number: 1
description: RiboZero RNA-seq on primary keratinocytes in day 3 of differentiation
experiment encode accession: ENCSR959LTT
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2017-10-10
lab: Michael Snyder, Stanford
library encode accession: ENCLB291OIW
size range: >200

value: foreskin keratinocyte

value: primary cell

value: Primary foreskin keratinocyte cells from a newborn healthy male donor, differentiated in 2D culture, day 3.0

value: newborn

value: 2-4 day

value: Paul Khavari, Stanford

value: Paul Khavari

value: treatment_term_id:CHEBI:86158; treatment_term_name:calcium; treatment_type:chemical; duration:2.5; duration_units:day;

value: Healthy

value: ENCBS079LRU at ENCODE; https://www.encodeproject.org/ENCBS079LRU/

value: Derived from ENCODE donor ENCDO615NVN; https://www.encodeproject.org/ENCDO615NVN/


title: TF ChIP-seq from K562 (ENCLB949BSL)

description:
https://www.encodeproject.org/experiments/ENCSR899GSH/
***************
biological replicate number: 2
technical replicate number: 1
description: RBM34 ChIP-seq in K562
experiment encode accession: ENCSR899GSH
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-19
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB949BSL
size range: 200-400

source_name: Homo sapiens K562 cell line

value: cell line

value: RBM34 ChIP-seq in K562

value: female

value: adult

value: 53 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: chronic myelogenous leukemia (CML)

value: ENCBS765OBZ at ENCODE; https://www.encodeproject.org/ENCBS765OBZ/

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


title: TF ChIP-seq from K562 (ENCLB856QJE)

description:
https://www.encodeproject.org/experiments/ENCSR899GSH/
***************
biological replicate number: 1
technical replicate number: 1
description: RBM34 ChIP-seq in K562
experiment encode accession: ENCSR899GSH
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-19
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB856QJE
size range: 200-400

value: ENCBS038EDJ at ENCODE; https://www.encodeproject.org/ENCBS038EDJ/


title: Histone ChIP-seq from SU-DHL-6 (ENCLB834CIO)

description:
https://www.encodeproject.org/experiments/ENCSR471VHW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR471VHW
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR179YLS
encode release date: 2014-07-11
lab: Bradley Bernstein, Broad
library encode accession: ENCLB834CIO
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens SUDHL6 immortalized cell line

value: also called SU-DHL-6 (diffuse histiocytic lymphoma) - disease:large cell lymphoma; diffuse mixed histiocytic and lymphocytic lymphoma; follicular B cell lymphoma; ATCC CRL-2959

value: 43 year

value: male

value: Bradley Bernstein, Broad

value: ENCBS107PVI at ENCODE; https://www.encodeproject.org/ENCBS107PVI/

value: Derived from ENCODE donor ENCDO353AAA; https://www.encodeproject.org/ENCDO353AAA/

value: ENCODE dbxrefs Cellosaurus CVCL_2206; http://web.expasy.org/cellosaurus/CVCL_2206


title: Histone ChIP-seq from thyroid gland (ENCLB372PGO)

description:
https://www.encodeproject.org/experiments/ENCSR582PKH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR582PKH
assay title: Histone ChIP-seq
assembly: hg19, GRCh38
possible controls: ENCSR164POT
encode release date: 2016-05-23
lab: Bradley Bernstein, Broad
library encode accession: ENCLB372PGO
fragmentation methods: sonication (generic)
size range: 200-600

source_name: Homo sapiens thyroid gland tissue male adult (54 years)

value: thyroid gland

value: tissue

value: 54 year

value: ENCBS050AKF at ENCODE; https://www.encodeproject.org/ENCBS050AKF/

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


title: TF ChIP-seq from K562 (ENCLB488TKK)

description:
https://www.encodeproject.org/experiments/ENCSR850WUE/
***************
biological replicate number: 1
technical replicate number: 1
description: RBM15 ChIP-seq in K562
experiment encode accession: ENCSR850WUE
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-19
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB488TKK
size range: 200-400

value: cell line

value: RBM15 ChIP-seq in K562

value: female

value: adult

value: 53 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: ENCBS430OPI at ENCODE; https://www.encodeproject.org/ENCBS430OPI/


title: TF ChIP-seq from K562 (ENCLB237POY)

description:
https://www.encodeproject.org/experiments/ENCSR850WUE/
***************
biological replicate number: 2
technical replicate number: 1
description: RBM15 ChIP-seq in K562
experiment encode accession: ENCSR850WUE
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-19
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB237POY
size range: 200-400

value: chronic myelogenous leukemia (CML)

value: ENCBS925ENT at ENCODE; https://www.encodeproject.org/ENCBS925ENT/

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


title: TF ChIP-seq from HepG2 (ENCLB134EHM)

description:
https://www.encodeproject.org/experiments/ENCSR555ZMV/
***************
biological replicate number: 1
technical replicate number: 1
description: AGO1 ChIP-seq in HepG2
experiment encode accession: ENCSR555ZMV
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR545RWZ
encode release date: 2017-12-01
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB134EHM
size range: 200-400

value: AGO1 ChIP-seq in HepG2

value: male

value: child

value: 15 year

value: hepatocellular carcinoma

value: ENCBS486YWI at ENCODE; https://www.encodeproject.org/ENCBS486YWI/

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


title: TF ChIP-seq from K562 (ENCLB185AWB)

description:
https://www.encodeproject.org/experiments/ENCSR848AOP/
***************
biological replicate number: 1
technical replicate number: 1
description: RBM22 ChIP-seq in K562
experiment encode accession: ENCSR848AOP
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-18
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB185AWB
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: cell line

value: RBM22 ChIP-seq in K562

value: ENCBS869ORH at ENCODE; https://www.encodeproject.org/ENCBS869ORH/


title: TF ChIP-seq from K562 (ENCLB087VEF)

description:
https://www.encodeproject.org/experiments/ENCSR423FCW/
***************
biological replicate number: 2
technical replicate number: 1
description: RBM14 ChIP-seq in K562
experiment encode accession: ENCSR423FCW
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR457PLC
encode release date: 2018-01-22
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB087VEF
size range: 200-400

value: RBM14 ChIP-seq in K562

value: female

value: adult

value: 53 year

value: ENCBS903MJI at ENCODE; https://www.encodeproject.org/ENCBS903MJI/


title: TF ChIP-seq from K562 (ENCLB019OCT)

description:
https://www.encodeproject.org/experiments/ENCSR848AOP/
***************
biological replicate number: 2
technical replicate number: 1
description: RBM22 ChIP-seq in K562
experiment encode accession: ENCSR848AOP
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR084AIG
encode release date: 2018-01-18
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB019OCT
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: Xiang-Dong Fu, UCSD

value: ATCC

value: chronic myelogenous leukemia (CML)

value: ENCBS156XSD at ENCODE; https://www.encodeproject.org/ENCBS156XSD/


title: TF ChIP-seq from HepG2 (ENCLB179WLB)

description:
https://www.encodeproject.org/experiments/ENCSR825MZS/
***************
biological replicate number: 2
technical replicate number: 1
description: TAF15 ChIP-seq on HepG2
experiment encode accession: ENCSR825MZS
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR748EXO
encode release date: 2018-01-16
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB179WLB
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: TAF15 ChIP-seq on HepG2 cells

value: male

value: child

value: ENCBS767YCA at ENCODE; https://www.encodeproject.org/ENCBS767YCA/


title: TF ChIP-seq from HepG2 (ENCLB179ZLU)

description:
https://www.encodeproject.org/experiments/ENCSR825MZS/
***************
biological replicate number: 1
technical replicate number: 1
description: TAF15 ChIP-seq on HepG2
experiment encode accession: ENCSR825MZS
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR748EXO
encode release date: 2018-01-16
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB179ZLU
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: 15 year

value: hepatocellular carcinoma

value: ENCBS983UEI at ENCODE; https://www.encodeproject.org/ENCBS983UEI/

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


title: TF ChIP-seq from K562 (ENCLB856VEV)

description:
https://www.encodeproject.org/experiments/ENCSR377BLZ/
***************
biological replicate number: 2
technical replicate number: 1
description: GTF2F1 ChIP-seq in K562
experiment encode accession: ENCSR377BLZ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR483GYO
encode release date: 2018-01-16
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB856VEV
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: cell line

value: GTF2F1 ChIP-seq in K562

value: ENCBS679MDQ at ENCODE; https://www.encodeproject.org/ENCBS679MDQ/

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


title: TF ChIP-seq from HEK293 (ENCLB489AZY)

description:
https://www.encodeproject.org/experiments/ENCSR618HNF/
***************
biological replicate number: 1
technical replicate number: 1
description: TRIM28 ChIP-seq on human HEK293
experiment encode accession: ENCSR618HNF
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR938LXW
encode release date: 2017-06-01
lab: Peggy Farnham, USC
library encode accession: ENCLB489AZY
fragmentation methods: see document

source_name: Homo sapiens HEK293 cell line

value: Embryonic kidney, cells contain Adenovirus 5 DNA

value: female

value: embryonic

value: unknown

value: Peggy Farnham, USC

value: ENCBS253HIE at ENCODE; https://www.encodeproject.org/ENCBS253HIE/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: TF ChIP-seq from K562 (ENCLB286FUL)

description:
https://www.encodeproject.org/experiments/ENCSR377BLZ/
***************
biological replicate number: 1
technical replicate number: 1
description: GTF2F1 ChIP-seq in K562
experiment encode accession: ENCSR377BLZ
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR483GYO
encode release date: 2018-01-16
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB286FUL
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: adult

value: 53 year

value: Xiang-Dong Fu, UCSD

value: ATCC

value: chronic myelogenous leukemia (CML)

value: ENCBS082JCQ at ENCODE; https://www.encodeproject.org/ENCBS082JCQ/


title: Histone ChIP-seq from HEK293 (ENCLB555ACI)

description:
https://www.encodeproject.org/experiments/ENCSR000FCK/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K36me3 HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACI
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500

value: cell line

value: embryonic kidney, cells contain Adenovirus 5 DNA

value: ENCBS483AAA at ENCODE; https://www.encodeproject.org/ENCBS483AAA/


title: TF ChIP-seq from HepG2 (ENCLB513ERM)

description:
https://www.encodeproject.org/experiments/ENCSR339JTP/
***************
biological replicate number: 2
technical replicate number: 1
description: RBM39 ChIP-seq in HepG2
experiment encode accession: ENCSR339JTP
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR032EZQ
encode release date: 2018-03-06
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB513ERM
size range: 200-400
instrument models: Illumina HiSeq 2000,Illumina HiSeq 2500

value: RBM39 ChIP-seq in HepG2

value: male

value: child

value: 15 year

value: hepatocellular carcinoma

value: ENCBS056VWP at ENCODE; https://www.encodeproject.org/ENCBS056VWP/

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


title: Histone ChIP-seq from HEK293 (ENCLB555ACF)

description:
https://www.encodeproject.org/experiments/ENCSR000FCJ/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K9me3 HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCJ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACF
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500

value: female

value: embryonic

value: unknown

value: Peggy Farnham, USC

value: ENCBS484AAA at ENCODE; https://www.encodeproject.org/ENCBS484AAA/

value: Derived from ENCODE donor ENCDO000ABF; https://www.encodeproject.org/ENCDO000ABF/


title: TF ChIP-seq from HepG2 (ENCLB044FVS)

description:
https://www.encodeproject.org/experiments/ENCSR313VZG/
***************
biological replicate number: 2
technical replicate number: 1
description: FIP1L1 ChIP-seq on HepG2
experiment encode accession: ENCSR313VZG
assay title: TF ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR141EZP
encode release date: 2018-01-19
lab: Xiang-Dong Fu, UCSD
library encode accession: ENCLB044FVS
size range: 200-400

value: FIP1L1 ChIP-seq on HepG2 cells

value: Xiang-Dong Fu, UCSD

value: ATCC

value: ENCBS053TZY at ENCODE; https://www.encodeproject.org/ENCBS053TZY/


title: Histone ChIP-seq from HEK293 (ENCLB555ACE)

description:
https://www.encodeproject.org/experiments/ENCSR000FCJ/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K9me3 HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCJ
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACE
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500

value: cell line

value: embryonic kidney, cells contain Adenovirus 5 DNA

value: ENCBS483AAA at ENCODE; https://www.encodeproject.org/ENCBS483AAA/


title: Histone ChIP-seq from HEK293 (ENCLB555ACH)

description:
https://www.encodeproject.org/experiments/ENCSR000FCH/
***************
biological replicate number: 2
technical replicate number: 1,2
description: H3K27Ac HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCH
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACH
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500

value: ENCBS486AAA at ENCODE; https://www.encodeproject.org/ENCBS486AAA/


title: Histone ChIP-seq from HEK293 (ENCLB555ACG)

description:
https://www.encodeproject.org/experiments/ENCSR000FCH/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K27Ac HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCH
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACG
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500

value: ENCBS481AAA at ENCODE; https://www.encodeproject.org/ENCBS481AAA/


title: Histone ChIP-seq from HEK293 (ENCLB555ACJ)

description:
https://www.encodeproject.org/experiments/ENCSR000FCK/
***************
biological replicate number: 2
technical replicate number: 1
description: H3K36me3 HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCK
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACJ
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500


title: Histone ChIP-seq from HEK293 (ENCLB555ACC)

description:
https://www.encodeproject.org/experiments/ENCSR000FCG/
***************
biological replicate number: 1
technical replicate number: 1
description: H3K4me1 HEK293 ChIP-Seq
experiment encode accession: ENCSR000FCG
assay title: Histone ChIP-seq
assembly: GRCh38, hg19
possible controls: ENCSR000EVA
encode release date: 2014-07-07
lab: Peggy Farnham, USC
library encode accession: ENCLB555ACC
fragmentation methods: sonication (Bioruptor generic)
size range: 200-500