title: PRO-cap from Metastatic Breast Carcinoma in the Brain (ENCLB938EJD)

description:
https://www.encodeproject.org/experiments/ENCSR008TSD/
***************
biological replicate number: 1
technical replicate number: 2
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Metastatic breast cancer to brain.
experiment encode accession: ENCSR008TSD
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB938EJD

value: female

value: 42 year

value: Haiyuan Yu, Cornell

value: CHTN

value: ENCBS537UKE at ENCODE; https://www.encodeproject.org/ENCBS537UKE/


title: DNase-seq from suppressor macrophage (ENCLB683ZOM)

status: Public on Feb 28 2026

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/ENCSR030ZGP/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR030ZGP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB683ZOM

library_source: genomic

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

molecule: genomic DNA

organism: Homo sapiens

source_name: Homo sapiens male adult (24 years) suppressor macrophage primary cell treated with 100 ng/mL lipopolysaccharide for 4 hours, 0.1% dmso for 4.5 hours

value: suppressor macrophage

value: primary cell

tag: biosample encode accession

tag: encode accession

tag: Sex

value: male

tag: dev stage

value: adult

tag: age

value: 24 year

tag: lab

value: John Stamatoyannopoulos, UW

tag: source

value: Shelly Heimfeld

tag: treatments

value: treatment_term_id:CHEBI:16412; treatment_term_name:lipopolysaccharide; treatment_type:chemical; duration:4; duration_units:hour; treatment_term_id:CHEBI:28262; treatment_term_name:dmso; treatment_type:chemical; duration:4.5; duration_units:hour;

tag: link

value: ENCBS410QCB at ENCODE; https://www.encodeproject.org/ENCBS410QCB/


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCLB346TRV)

description:
https://www.encodeproject.org/experiments/ENCSR032SJX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR032SJX
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB346TRV

source_name: Homo sapiens female adult (34 years) CD4-positive, alpha-beta T primary cell

value: CD4-positive, alpha-beta T cell

value: 34 year

value: AllCells

value: ENCBS463WBN at ENCODE; https://www.encodeproject.org/ENCBS463WBN/


title: DNase-seq from K562 (ENCLB406FHK)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 4
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB406FHK

source_name: Homo sapiens K562 cell line

tag: line

value: cell line

value: female

tag: health state

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

value: ENCBS948AHK at ENCODE; https://www.encodeproject.org/ENCBS948AHK/


title: STARR-seq from A549 (ENCLB093EMB)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB093EMB
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

library_source: transcriptomic

molecule: total RNA

source_name: Homo sapiens A549 cell line genetically modified (episome) using transient transfection treated with 1 uM DMSO for 4 hours

extract_protocol:
general protocol: https://www.encodeproject.org/documents/c8891369-b036-4be1-b881-76ca3911151e/@@download/attachment/Reddy_Lab_WGSS_ENCODE_protocol.pdf
extraction method: Qiagen RNA extraction

value: male

value: 58 year

value: Tim Reddy, Duke

value: treatment_term_id:CHEBI:28264; treatment_term_name:DMSO; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS091FRV at ENCODE; https://www.encodeproject.org/ENCBS091FRV/


title: long read scRNA-seq from adrenal gland (ENCLB109OMT)

description:
https://www.encodeproject.org/experiments/ENCSR000GUP/
***************
biological replicate number: 1
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P14 female normal 2k
experiment encode accession: ENCSR000GUP
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB109OMT
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

organism: Mus musculus

source_name: Mus musculus strain B6CASTF1/J female postnatal (14 days) adrenal gland tissue nuclear fraction

value: adrenal gland

value: tissue

tag: description

value: B6/Cast F1 adrenal P14 female 1

value: postnatal

value: 14 day

value: Ali Mortazavi, UCI

tag: subcellular fraction term name

value: nucleus

value: The Jackson Laboratory

value: ENCBS829KDQ at ENCODE; https://www.encodeproject.org/ENCBS829KDQ/

value: Derived from ENCODE donor ENCDO509HIY; https://www.encodeproject.org/ENCDO509HIY/


title: STARR-seq from A549 (ENCLB828QPK)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 4
technical replicate number: 3
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB828QPK
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: cell line

value: adult

value: ATCC

value: ENCBS044OXE at ENCODE; https://www.encodeproject.org/ENCBS044OXE/


title: DNase-seq from suppressor macrophage (ENCLB141MBK)

description:
https://www.encodeproject.org/experiments/ENCSR030ZGP/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR030ZGP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB141MBK

value: suppressor macrophage

value: primary cell

value: male

value: 24 year

value: John Stamatoyannopoulos, UW

value: Shelly Heimfeld

value: treatment_term_id:CHEBI:16412; treatment_term_name:lipopolysaccharide; treatment_type:chemical; duration:4; duration_units:hour; treatment_term_id:CHEBI:28262; treatment_term_name:dmso; treatment_type:chemical; duration:4.5; duration_units:hour;

value: ENCBS655ETY at ENCODE; https://www.encodeproject.org/ENCBS655ETY/


title: long read scRNA-seq from adrenal gland (ENCLB118GWM)

description:
https://www.encodeproject.org/experiments/ENCSR000GUP/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P14 female normal 2k
experiment encode accession: ENCSR000GUP
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB118GWM
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

value: adrenal gland

value: tissue

value: B6/Cast F1 adrenal P14 female 2

value: female

value: postnatal

value: 14 day

value: Ali Mortazavi, UCI

value: ENCBS608STD at ENCODE; https://www.encodeproject.org/ENCBS608STD/


title: DNase-seq from suppressor macrophage (ENCLB049QAA)

description:
https://www.encodeproject.org/experiments/ENCSR030ZGP/
***************
biological replicate number: 6
technical replicate number: 1
description:
experiment encode accession: ENCSR030ZGP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB049QAA

value: adult

value: ENCBS416NEO at ENCODE; https://www.encodeproject.org/ENCBS416NEO/


title: STARR-seq from A549 (ENCLB492VUT)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 4
technical replicate number: 2
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB492VUT
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: cell line

value: 58 year

value: Tim Reddy, Duke

value: ATCC

value: treatment_term_id:CHEBI:28264; treatment_term_name:DMSO; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS044OXE at ENCODE; https://www.encodeproject.org/ENCBS044OXE/


title: DNase-seq from K562 (ENCLB506GVF)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 12
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB506GVF

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ENCBS948AHK at ENCODE; https://www.encodeproject.org/ENCBS948AHK/


title: DNase-seq from K562 (ENCLB922PIV)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 43
technical replicate number: 3
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB922PIV

value: female

value: ENCBS735NUD at ENCODE; https://www.encodeproject.org/ENCBS735NUD/


title: DNase-seq from suppressor macrophage (ENCLB132MDB)

description:
https://www.encodeproject.org/experiments/ENCSR030ZGP/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR030ZGP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB132MDB

value: suppressor macrophage

value: primary cell

value: male

value: 24 year

value: Shelly Heimfeld

value: treatment_term_id:CHEBI:16412; treatment_term_name:lipopolysaccharide; treatment_type:chemical; duration:4; duration_units:hour; treatment_term_id:CHEBI:28262; treatment_term_name:dmso; treatment_type:chemical; duration:4.5; duration_units:hour;

value: ENCBS122DHS at ENCODE; https://www.encodeproject.org/ENCBS122DHS/


title: STARR-seq from A549 (ENCLB430BRR)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 3
technical replicate number: 3
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB430BRR
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: cell line

value: adult

value: 58 year

value: Tim Reddy, Duke

value: ENCBS017SBQ at ENCODE; https://www.encodeproject.org/ENCBS017SBQ/


title: DNase-seq from K562 (ENCLB690JGN)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 20
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB690JGN

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC


title: STARR-seq from A549 (ENCLB465LQN)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB465LQN
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: treatment_term_id:CHEBI:28264; treatment_term_name:DMSO; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS991WDO at ENCODE; https://www.encodeproject.org/ENCBS991WDO/


title: STARR-seq from A549 (ENCLB266IVX)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB266IVX
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: ENCBS091FRV at ENCODE; https://www.encodeproject.org/ENCBS091FRV/


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCLB319UUG)

description:
https://www.encodeproject.org/experiments/ENCSR029QFS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR029QFS
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB319UUG

source_name: Homo sapiens female adult (37 years) CD4-positive, alpha-beta T primary cell

value: CD4-positive, alpha-beta T cell

value: primary cell

value: female

value: 37 year

value: John Stamatoyannopoulos, UW

value: ENCBS022MCE at ENCODE; https://www.encodeproject.org/ENCBS022MCE/


title: STARR-seq from A549 (ENCLB402TQA)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 3
technical replicate number: 4
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB402TQA
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: cell line

value: male


title: Flow-FISH CRISPR screen from K562 (ENCLB991FPN)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB991FPN
size range: 200-210

source_name: Homo sapiens K562 cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (sgRNA)

value: adult

value: Jesse Engreitz, Stanford

value: ENCBS618HEC at ENCODE; https://www.encodeproject.org/ENCBS618HEC/


title: DNase-seq from K562 (ENCLB315WPR)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 22
technical replicate number: 2
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB315WPR

value: chronic myelogenous leukemia (CML)

value: ENCBS769NZR at ENCODE; https://www.encodeproject.org/ENCBS769NZR/


title: STARR-seq from A549 (ENCLB088LMY)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 3
technical replicate number: 2
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB088LMY
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: 58 year

value: Tim Reddy, Duke

value: ATCC

value: ENCBS017SBQ at ENCODE; https://www.encodeproject.org/ENCBS017SBQ/


title: Flow-FISH CRISPR screen from K562 (ENCLB871MZU)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB871MZU
size range: 200-210

value: 53 year

value: ENCBS397YAV at ENCODE; https://www.encodeproject.org/ENCBS397YAV/


title: STARR-seq from A549 (ENCLB985LOU)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB985LOU
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: treatment_term_id:CHEBI:28264; treatment_term_name:DMSO; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS091FRV at ENCODE; https://www.encodeproject.org/ENCBS091FRV/


title: STARR-seq from A549 (ENCLB376FTS)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 4
technical replicate number: 4
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB376FTS
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: ENCBS044OXE at ENCODE; https://www.encodeproject.org/ENCBS044OXE/


title: DNase-seq from K562 (ENCLB885HZW)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 48
technical replicate number: 1
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB885HZW

value: female

value: John Stamatoyannopoulos, UW

value: ENCBS506NTG at ENCODE; https://www.encodeproject.org/ENCBS506NTG/


title: DNase-seq from K562 (ENCLB024NNE)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 48
technical replicate number: 2
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB024NNE

value: cell line

value: adult


title: Flow-FISH CRISPR screen from K562 (ENCLB273SOH)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB273SOH
size range: 200-210

value: Jesse Engreitz, Stanford

value: ENCBS618HEC at ENCODE; https://www.encodeproject.org/ENCBS618HEC/


title: Flow-FISH CRISPR screen from K562 (ENCLB934LMX)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB934LMX
size range: 200-210

value: chronic myelogenous leukemia (CML)


title: DNase-seq from K562 (ENCLB076REI)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 3
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB076REI

value: ENCBS948AHK at ENCODE; https://www.encodeproject.org/ENCBS948AHK/


title: STARR-seq from A549 (ENCLB923CLN)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB923CLN
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: male

value: 58 year

value: Tim Reddy, Duke


title: DNase-seq from suppressor macrophage (ENCLB835WTA)

description:
https://www.encodeproject.org/experiments/ENCSR030ZGP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR030ZGP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB835WTA

value: suppressor macrophage

value: primary cell

value: 24 year

value: Shelly Heimfeld

value: treatment_term_id:CHEBI:16412; treatment_term_name:lipopolysaccharide; treatment_type:chemical; duration:4; duration_units:hour; treatment_term_id:CHEBI:28262; treatment_term_name:dmso; treatment_type:chemical; duration:4.5; duration_units:hour;

value: ENCBS232FQV at ENCODE; https://www.encodeproject.org/ENCBS232FQV/


title: Flow-FISH CRISPR screen from K562 (ENCLB677RKL)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB677RKL
size range: 200-210

value: female

value: 53 year

value: ATCC


title: DNase-seq from K562 (ENCLB247TOK)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
technical replicate number: 4
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB247TOK

value: cell line

value: adult

value: John Stamatoyannopoulos, UW

value: ENCBS252MDR at ENCODE; https://www.encodeproject.org/ENCBS252MDR/


title: Flow-FISH CRISPR screen from K562 (ENCLB197QPY)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB197QPY
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: Jesse Engreitz, Stanford

value: ENCBS618HEC at ENCODE; https://www.encodeproject.org/ENCBS618HEC/


title: DNase-seq from K562 (ENCLB903RZN)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 14
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB903RZN

value: ENCBS948AHK at ENCODE; https://www.encodeproject.org/ENCBS948AHK/


title: STARR-seq from A549 (ENCLB934LXL)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB934LXL
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: male

value: 58 year

value: Tim Reddy, Duke

value: treatment_term_id:CHEBI:28264; treatment_term_name:DMSO; treatment_type:chemical; duration:4; duration_units:hour;

value: ENCBS017SBQ at ENCODE; https://www.encodeproject.org/ENCBS017SBQ/


title: DNase-seq from K562 (ENCLB225IQF)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 17
technical replicate number: 1
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB225IQF

value: ENCBS573VAK at ENCODE; https://www.encodeproject.org/ENCBS573VAK/


title: STARR-seq from A549 (ENCLB748NOC)

description:
https://www.encodeproject.org/experiments/ENCSR005XEA/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR005XEA
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR861AYG
encode release date: 2021-06-17
lab: Tim Reddy, Duke
library encode accession: ENCLB748NOC
size range: 900-1000
nucleic acid starting quantity: 75
nucleic acid starting quantity units: µg

value: ENCBS991WDO at ENCODE; https://www.encodeproject.org/ENCBS991WDO/


title: DNase-seq from K562 (ENCLB104XZQ)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB104XZQ

value: female

value: 53 year

value: ENCBS544ABY at ENCODE; https://www.encodeproject.org/ENCBS544ABY/


title: Flow-FISH CRISPR screen from K562 (ENCLB331DCQ)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB331DCQ
size range: 200-210

value: cell line

value: adult

value: ATCC

value: ENCBS397YAV at ENCODE; https://www.encodeproject.org/ENCBS397YAV/


title: Flow-FISH CRISPR screen from K562 (ENCLB525CDL)

description:
https://www.encodeproject.org/experiments/ENCSR028IQA/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR028IQA
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB525CDL
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: Jesse Engreitz, Stanford


title: DNase-seq from stimulated activated CD4-positive, alpha-beta T cell (ENCLB590HUO)

description:
https://www.encodeproject.org/experiments/ENCSR026VVD/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR026VVD
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB590HUO

source_name: Homo sapiens male adult (38 years) stimulated activated CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 100 ng/mL Interleukin-2 for 48 hours

value: primary cell

value: 38 year

value: John Stamatoyannopoulos, UW

value: AllCells

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:48; duration_units:hour; treatment_term_id:UniProtKB:P60568; treatment_term_name:Interleukin-2; treatment_type:protein; duration:48; duration_units:hour;

value: ENCBS252LWM at ENCODE; https://www.encodeproject.org/ENCBS252LWM/


title: DNase-seq from K562 (ENCLB130QDR)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 8
technical replicate number: 1
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB130QDR

value: ENCBS094KUB at ENCODE; https://www.encodeproject.org/ENCBS094KUB/


title: DNase-seq from inflammatory macrophage (ENCLB437QZW)

description:
https://www.encodeproject.org/experiments/ENCSR023BJE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR023BJE
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB437QZW
instrument models: Illumina HiSeq 4000,Illumina NextSeq 500

source_name: Homo sapiens male adult (24 years) inflammatory macrophage primary cell

value: inflammatory macrophage

value: male

value: 24 year

value: Shelly Heimfeld

value: ENCBS418VAD at ENCODE; https://www.encodeproject.org/ENCBS418VAD/


title: DNase-seq from DMS79 (ENCLB305STY)

description:
https://www.encodeproject.org/experiments/ENCSR659DSM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR659DSM
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB305STY

source_name: Homo sapiens DMS79 cell line treated with 0.1% DMSO for 48 hours

value: cell line

value: adult

value: 65 year

value: treatment_term_id:CHEBI:28262; treatment_term_name:DMSO; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS551LOI at ENCODE; https://www.encodeproject.org/ENCBS551LOI/


title: DNase-seq from stimulated activated CD4-positive, alpha-beta T cell (ENCLB767PGY)

description:
https://www.encodeproject.org/experiments/ENCSR026VVD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR026VVD
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB767PGY

value: primary cell

value: ENCBS717MIA at ENCODE; https://www.encodeproject.org/ENCBS717MIA/


title: DNase-seq from K562 (ENCLB616FPQ)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
technical replicate number: 10
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB616FPQ

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ATCC

value: ENCBS252MDR at ENCODE; https://www.encodeproject.org/ENCBS252MDR/


title: DNase-seq from DMS79 (ENCLB743YGW)

description:
https://www.encodeproject.org/experiments/ENCSR659DSM/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR659DSM
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB743YGW

value: male

value: ENCBS320VZA at ENCODE; https://www.encodeproject.org/ENCBS320VZA/


title: Flow-FISH CRISPR screen from K562 (ENCLB630LSZ)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 3
technical replicate number: 3
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB630LSZ
size range: 200-210

value: Jesse Engreitz, Stanford

value: ENCBS092KUC at ENCODE; https://www.encodeproject.org/ENCBS092KUC/


title: Flow-FISH CRISPR screen from K562 (ENCLB474FEE)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 3
technical replicate number: 2
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB474FEE
size range: 200-210

value: cell line


title: DNase-seq from K562 (ENCLB004YXN)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 41
technical replicate number: 2
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB004YXN

value: adult

value: ENCBS878EFH at ENCODE; https://www.encodeproject.org/ENCBS878EFH/


title: Flow-FISH CRISPR screen from K562 (ENCLB545QXC)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 3
technical replicate number: 4
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB545QXC
size range: 200-210


title: Flow-FISH CRISPR screen from K562 (ENCLB907HRN)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB907HRN
size range: 200-210

value: ENCBS128CNX at ENCODE; https://www.encodeproject.org/ENCBS128CNX/


title: DNase-seq from heart (ENCLB029ZTZ)

description:
https://www.encodeproject.org/experiments/ENCSR641LIG/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR641LIG
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB029ZTZ

source_name: Homo sapiens male adult (43 years) heart tissue

value: heart

value: tissue

value: 43 year

value: Shin Lin

value: ENCBS328STU at ENCODE; https://www.encodeproject.org/ENCBS328STU/


title: DNase-seq from heart (ENCLB645ZLN)

description:
https://www.encodeproject.org/experiments/ENCSR641LIG/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR641LIG
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB645ZLN

value: ENCBS550HWA at ENCODE; https://www.encodeproject.org/ENCBS550HWA/


title: DNase-seq from K562 (ENCLB760YUN)

description:
https://www.encodeproject.org/experiments/ENCSR654EFD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR654EFD
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB760YUN

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ENCBS629KHZ at ENCODE; https://www.encodeproject.org/ENCBS629KHZ/


title: Flow-FISH CRISPR screen from K562 (ENCLB740UGQ)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB740UGQ
size range: 200-210

value: Jesse Engreitz, Stanford

value: ATCC


title: Flow-FISH CRISPR screen from K562 (ENCLB362ITN)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB362ITN
size range: 200-210

value: cell line

value: ENCBS092KUC at ENCODE; https://www.encodeproject.org/ENCBS092KUC/


title: Flow-FISH CRISPR screen from K562 (ENCLB770WNH)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB770WNH
size range: 200-210

value: adult

value: ENCBS184VHI at ENCODE; https://www.encodeproject.org/ENCBS184VHI/


title: Flow-FISH CRISPR screen from K562 (ENCLB800EJB)

description:
https://www.encodeproject.org/experiments/ENCSR640NMZ/
***************
biological replicate number: 2
technical replicate number: 1
description: NMU
experiment encode accession: ENCSR640NMZ
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR111BOI
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB800EJB

source_name: Homo sapiens K562 cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (sgRNA) treated with 1 ug/mL doxycycline for 48 hours

tag: passage number

value: Pardis Sabeti, Broad

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS187ALX at ENCODE; https://www.encodeproject.org/ENCBS187ALX/


title: Flow-FISH CRISPR screen from K562 (ENCLB623YFP)

description:
https://www.encodeproject.org/experiments/ENCSR639EDX/
***************
biological replicate number: 2
technical replicate number: 1
description: CAT
experiment encode accession: ENCSR639EDX
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR327XSO
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB623YFP

value: ENCBS887HVF at ENCODE; https://www.encodeproject.org/ENCBS887HVF/


title: Flow-FISH CRISPR screen from K562 (ENCLB616HIU)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 4
technical replicate number: 4
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB616HIU
size range: 200-210

value: ENCBS912ONR at ENCODE; https://www.encodeproject.org/ENCBS912ONR/


title: Flow-FISH CRISPR screen from K562 (ENCLB575EDX)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 4
technical replicate number: 3
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB575EDX
size range: 200-210


title: Flow-FISH CRISPR screen from K562 (ENCLB071JDL)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 4
technical replicate number: 2
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB071JDL
size range: 200-210


title: DNase-seq from heart (ENCLB469GRR)

description:
https://www.encodeproject.org/experiments/ENCSR641LIG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR641LIG
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB469GRR

value: heart

value: tissue

value: male

value: 43 year

value: Shin Lin

value: ENCBS781FRE at ENCODE; https://www.encodeproject.org/ENCBS781FRE/


title: DNase-seq from HUDEP-2 (ENCLB517RIE)

description:
https://www.encodeproject.org/experiments/ENCSR619HAW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR619HAW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB517RIE

source_name: Homo sapiens HUDEP-2 cell line

value: unknown

value: John Stamatoyannopoulos, UW

value: Riken BioResource Cell Bank

value: ENCBS476YRE at ENCODE; https://www.encodeproject.org/ENCBS476YRE/


title: Flow-FISH CRISPR screen from K562 (ENCLB686KHK)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB686KHK
size range: 200-210

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: Jesse Engreitz, Stanford

value: ATCC


title: Flow-FISH CRISPR screen from K562 (ENCLB003DCF)

description:
https://www.encodeproject.org/experiments/ENCSR021HCT/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR021HCT
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB003DCF
size range: 200-210

value: ENCBS912ONR at ENCODE; https://www.encodeproject.org/ENCBS912ONR/


title: DNase-seq from T-helper 1 cell (ENCLB178YCD)

description:
https://www.encodeproject.org/experiments/ENCSR019NVA/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR019NVA
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB178YCD

source_name: Homo sapiens female adult (25 years) T-helper 1 primary cell

value: T-helper 1 cell

value: primary cell

value: 25 year

value: AllCells

value: ENCBS424RQE at ENCODE; https://www.encodeproject.org/ENCBS424RQE/


title: Flow-FISH CRISPR screen from K562 (ENCLB605PEX)

description:
https://www.encodeproject.org/experiments/ENCSR639EDX/
***************
biological replicate number: 1
technical replicate number: 1
description: CAT
experiment encode accession: ENCSR639EDX
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR327XSO
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB605PEX

value: Pardis Sabeti, Broad

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS361ZLR at ENCODE; https://www.encodeproject.org/ENCBS361ZLR/


title: DNase-seq from NOMO-1 (ENCLB693GSP)

description:
https://www.encodeproject.org/experiments/ENCSR144OFT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR144OFT
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB693GSP

source_name: Homo sapiens NOMO-1 cell line

value: 31 year

value: John Stamatoyannopoulos, UW

value: DSMZ

value: ENCBS269XFB at ENCODE; https://www.encodeproject.org/ENCBS269XFB/


title: DNase-seq from MCF-7 (ENCLB878FFW)

description:
https://www.encodeproject.org/experiments/ENCSR152CUE/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR152CUE
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB878FFW
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Homo sapiens MCF-7 cell line treated with 1 uM methoxychlor for 504 hours

value: cell line

value: female

value: breast cancer (adenocarcinoma)

value: adult

value: 69 year

value: treatment_term_id:CHEBI:6842; treatment_term_name:methoxychlor; treatment_type:chemical; duration:504; duration_units:hour;

value: ENCBS716VGX at ENCODE; https://www.encodeproject.org/ENCBS716VGX/


title: DNase-seq from MCF-7 (ENCLB587GGD)

description:
https://www.encodeproject.org/experiments/ENCSR152CUE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR152CUE
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB587GGD

value: ATCC

value: ENCBS724XQZ at ENCODE; https://www.encodeproject.org/ENCBS724XQZ/


title: DNase-seq from T-helper 9 cell (ENCLB698EKC)

description:
https://www.encodeproject.org/experiments/ENCSR020HZH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR020HZH
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB698EKC

source_name: Homo sapiens female adult (33 years) T-helper 9 primary cell treated with 50 U/mL Interleukin-2 for 16 hours

value: T-helper 9 cell

value: primary cell

value: 33 year

value: AllCells

value: treatment_term_id:UniProtKB:P60568; treatment_term_name:Interleukin-2; treatment_type:protein; duration:16; duration_units:hour;

value: ENCBS233AXS at ENCODE; https://www.encodeproject.org/ENCBS233AXS/


title: Flow-FISH CRISPR screen from K562 (ENCLB543JPL)

description:
https://www.encodeproject.org/experiments/ENCSR129IST/
***************
biological replicate number: 1
technical replicate number: 1
description: ERP29
experiment encode accession: ENCSR129IST
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR591JER
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB543JPL

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Pardis Sabeti, Broad

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS023PAT at ENCODE; https://www.encodeproject.org/ENCBS023PAT/


title: DNase-seq from pancreas (ENCLB414NSP)

description:
https://www.encodeproject.org/experiments/ENCSR132LSC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR132LSC
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB414NSP

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

value: pancreas

value: tissue

value: female

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

value: child

value: 16 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS229MRC at ENCODE; https://www.encodeproject.org/ENCBS229MRC/

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


title: DNase-seq from T-helper 1 cell (ENCLB395ZUJ)

description:
https://www.encodeproject.org/experiments/ENCSR019NVA/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR019NVA
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB395ZUJ

value: T-helper 1 cell

value: primary cell

value: adult

value: 25 year

value: John Stamatoyannopoulos, UW

value: AllCells

value: ENCBS938TDN at ENCODE; https://www.encodeproject.org/ENCBS938TDN/


title: DNase-seq from psoas muscle (ENCLB421QYZ)

description:
https://www.encodeproject.org/experiments/ENCSR019MYA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR019MYA
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB421QYZ

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

value: psoas muscle

value: 41 year

value: Shin Lin

value: ENCBS309UBG at ENCODE; https://www.encodeproject.org/ENCBS309UBG/


title: DNase-seq from CD14-positive monocyte (ENCLB152AMR)

description:
https://www.encodeproject.org/experiments/ENCSR609PYW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR609PYW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB152AMR

source_name: Homo sapiens male adult (24 years) CD14-positive monocyte primary cell

value: CD14-positive monocyte

value: male

value: 24 year

value: Shelly Heimfeld

value: ENCBS140GCB at ENCODE; https://www.encodeproject.org/ENCBS140GCB/


title: Flow-FISH CRISPR screen from K562 (ENCLB390BHR)

description:
https://www.encodeproject.org/experiments/ENCSR129IST/
***************
biological replicate number: 2
technical replicate number: 1
description: ERP29
experiment encode accession: ENCSR129IST
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR591JER
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB390BHR

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Pardis Sabeti, Broad

value: ATCC

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS686VUT at ENCODE; https://www.encodeproject.org/ENCBS686VUT/


title: Flow-FISH CRISPR screen from K562 (ENCLB087SEE)

description:
https://www.encodeproject.org/experiments/ENCSR640NMZ/
***************
biological replicate number: 1
technical replicate number: 1
description: NMU
experiment encode accession: ENCSR640NMZ
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR111BOI
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB087SEE

value: adult

value: ENCBS347CID at ENCODE; https://www.encodeproject.org/ENCBS347CID/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB065GVX)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB065GVX
size range: 200-210

source_name: Homo sapiens Jurkat cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (sgRNA)

value: Jurkat

value: acute T cell leukemia

value: child

value: 14 year

value: Jesse Engreitz, Stanford

value: ENCBS930XTJ at ENCODE; https://www.encodeproject.org/ENCBS930XTJ/


title: Control CRISPR screen from K562 (ENCLB142NEP)

description:
https://www.encodeproject.org/experiments/ENCSR111BOI/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR111BOI
assay title: Control CRISPR screen
assembly: GRCh38
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB142NEP

value: ENCBS491JVS at ENCODE; https://www.encodeproject.org/ENCBS491JVS/


title: Control CRISPR screen from K562 (ENCLB701UTL)

description:
https://www.encodeproject.org/experiments/ENCSR111BOI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR111BOI
assay title: Control CRISPR screen
assembly: GRCh38
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB701UTL

value: cell line

value: ENCBS227TVN at ENCODE; https://www.encodeproject.org/ENCBS227TVN/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB901VUW)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB901VUW
size range: 200-210

value: male

value: ENCBS090KEB at ENCODE; https://www.encodeproject.org/ENCBS090KEB/


title: Flow-FISH CRISPR screen from K562 (ENCLB836UHB)

description:
https://www.encodeproject.org/experiments/ENCSR104CUH/
***************
biological replicate number: 2
technical replicate number: 1
description: CD164
experiment encode accession: ENCSR104CUH
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR804HRD
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB836UHB

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Pardis Sabeti, Broad

value: ENCBS400HZN at ENCODE; https://www.encodeproject.org/ENCBS400HZN/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB928IOO)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB928IOO
size range: 200-210

value: ATCC


title: DNase-seq from T47D (ENCLB282YTP)

description:
https://www.encodeproject.org/experiments/ENCSR122QWB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR122QWB
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB282YTP
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Homo sapiens T47D cell line treated with 100 nM diethylstilbestrol for 504 hours

value: mammary ductal carcinoma

value: adult

value: 54 year

value: John Stamatoyannopoulos, UW

value: treatment_term_id:CHEBI:41922; treatment_term_name:diethylstilbestrol; treatment_type:chemical; duration:504; duration_units:hour;

value: ENCBS976GUQ at ENCODE; https://www.encodeproject.org/ENCBS976GUQ/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB805GPU)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB805GPU
size range: 200-210

value: Jurkat

value: acute T cell leukemia

value: child

value: 14 year

value: Jesse Engreitz, Stanford


title: DNase-seq from T-helper 1 cell (ENCLB938YYC)

description:
https://www.encodeproject.org/experiments/ENCSR019NVA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR019NVA
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB938YYC

value: T-helper 1 cell

value: primary cell

value: female

value: 25 year

value: AllCells

value: ENCBS343TEA at ENCODE; https://www.encodeproject.org/ENCBS343TEA/


title: Flow-FISH CRISPR screen from K562 (ENCLB138QNF)

description:
https://www.encodeproject.org/experiments/ENCSR104CUH/
***************
biological replicate number: 1
technical replicate number: 1
description: CD164
experiment encode accession: ENCSR104CUH
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR804HRD
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB138QNF

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Pardis Sabeti, Broad

value: ATCC

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS065WNC at ENCODE; https://www.encodeproject.org/ENCBS065WNC/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB386GNL)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB386GNL
size range: 200-210

value: Jurkat

value: male

value: acute T cell leukemia

value: ENCBS930XTJ at ENCODE; https://www.encodeproject.org/ENCBS930XTJ/


title: Flow-FISH CRISPR screen from K562 (ENCLB248UYK)

description:
https://www.encodeproject.org/experiments/ENCSR103FXA/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR103FXA
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR692ZUM
encode release date: 2021-10-18
lab: Pardis Sabeti, Broad
library encode accession: ENCLB248UYK

value: adult

value: ENCBS786DTJ at ENCODE; https://www.encodeproject.org/ENCBS786DTJ/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB614MNO)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB614MNO
size range: 200-210

value: child

value: 14 year

value: Jesse Engreitz, Stanford


title: Flow-FISH CRISPR screen from Jurkat (ENCLB801GQZ)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB801GQZ
size range: 200-210

value: ENCBS090KEB at ENCODE; https://www.encodeproject.org/ENCBS090KEB/


title: Flow-FISH CRISPR screen from Jurkat (ENCLB269FBA)

description:
https://www.encodeproject.org/experiments/ENCSR018WJG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR018WJG
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB269FBA
size range: 200-210

value: cell line


title: DNase-seq from brain (ENCLB998TDQ)

description:
https://www.encodeproject.org/experiments/ENCSR017MOU/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR017MOU
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB998TDQ

source_name: Homo sapiens male adult (53 years) brain tissue

value: brain

value: tissue

value: John Stamatoyannopoulos, UW

value: Bradley Bernstein

value: ENCBS729LGN at ENCODE; https://www.encodeproject.org/ENCBS729LGN/


title: Flow-FISH CRISPR screen from K562 (ENCLB216RZV)

description:
https://www.encodeproject.org/experiments/ENCSR103FXA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR103FXA
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR692ZUM
encode release date: 2021-10-18
lab: Pardis Sabeti, Broad
library encode accession: ENCLB216RZV

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Pardis Sabeti, Broad

value: ATCC

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS084ABJ at ENCODE; https://www.encodeproject.org/ENCBS084ABJ/


title: DNase-seq from HUDEP-2 (ENCLB802HJK)

description:
https://www.encodeproject.org/experiments/ENCSR103CMW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR103CMW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB802HJK

value: male

value: adult

value: unknown

value: Riken BioResource Cell Bank

value: ENCBS969XYW at ENCODE; https://www.encodeproject.org/ENCBS969XYW/


title: DNase-seq from brain (ENCLB308GRN)

description:
https://www.encodeproject.org/experiments/ENCSR017MOU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR017MOU
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB308GRN

value: brain

value: ENCBS723VRM at ENCODE; https://www.encodeproject.org/ENCBS723VRM/


title: DNase-seq from T47D (ENCLB252QUX)

description:
https://www.encodeproject.org/experiments/ENCSR103JOR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR103JOR
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB252QUX
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Homo sapiens T47D cell line treated with 100 nM genistein for 2 hours

value: cell line

value: mammary ductal carcinoma

value: 54 year

value: John Stamatoyannopoulos, UW

value: treatment_term_id:CHEBI:28088; treatment_term_name:genistein; treatment_type:chemical; duration:2; duration_units:hour;

value: ENCBS641GCV at ENCODE; https://www.encodeproject.org/ENCBS641GCV/


title: DNase-seq from activated CD4-positive, alpha-beta T cell (ENCLB070BJC)

description:
https://www.encodeproject.org/experiments/ENCSR016IMD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR016IMD
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB070BJC

source_name: Homo sapiens male adult (38 years) activated CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 24 hours

value: primary cell

value: 38 year

value: AllCells

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:24; duration_units:hour;

value: ENCBS451HGU at ENCODE; https://www.encodeproject.org/ENCBS451HGU/


title: DNase-seq from NCI-H2196 (ENCLB276WVS)

description:
https://www.encodeproject.org/experiments/ENCSR099EGC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR099EGC
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB276WVS

source_name: Homo sapiens NCI-H2196 cell line treated with 0.1% DMSO for 48 hours

value: male

value: adult

value: 67 year

value: ATCC

value: treatment_term_id:CHEBI:28262; treatment_term_name:DMSO; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS641SQQ at ENCODE; https://www.encodeproject.org/ENCBS641SQQ/


title: Flow-FISH CRISPR screen from K562 (ENCLB127XFM)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB127XFM
size range: 200-210

source_name: Homo sapiens K562 cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (sgRNA)

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Jesse Engreitz, Stanford

value: ENCBS901HPN at ENCODE; https://www.encodeproject.org/ENCBS901HPN/


title: Flow-FISH CRISPR screen from K562 (ENCLB920BBU)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB920BBU
size range: 200-210

value: ENCBS394RRL at ENCODE; https://www.encodeproject.org/ENCBS394RRL/


title: Flow-FISH CRISPR screen from K562 (ENCLB712YII)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB712YII
size range: 200-210


title: Flow-FISH CRISPR screen from K562 (ENCLB785BQE)

description:
https://www.encodeproject.org/experiments/ENCSR097POB/
***************
biological replicate number: 2
technical replicate number: 1
description: LMO2
experiment encode accession: ENCSR097POB
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR327XSO
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB785BQE

value: Pardis Sabeti, Broad

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS863ULB at ENCODE; https://www.encodeproject.org/ENCBS863ULB/


title: Flow-FISH CRISPR screen from K562 (ENCLB819NCQ)

description:
https://www.encodeproject.org/experiments/ENCSR097POB/
***************
biological replicate number: 1
technical replicate number: 1
description: LMO2
experiment encode accession: ENCSR097POB
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR327XSO
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB819NCQ

value: ENCBS196OTP at ENCODE; https://www.encodeproject.org/ENCBS196OTP/


title: DNase-seq from K562 (ENCLB494SWS)

description:
https://www.encodeproject.org/experiments/ENCSR102SPN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR102SPN
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB494SWS
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Homo sapiens K562 cell line

value: John Stamatoyannopoulos, UW

value: ENCBS940KBR at ENCODE; https://www.encodeproject.org/ENCBS940KBR/


title: Flow-FISH CRISPR screen from K562 (ENCLB066YIY)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB066YIY
size range: 200-210

value: adult


title: Flow-FISH CRISPR screen from K562 (ENCLB266WLN)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB266WLN
size range: 200-210

value: ATCC


title: Flow-FISH CRISPR screen from K562 (ENCLB282FPQ)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB282FPQ
size range: 200-210


title: Flow-FISH CRISPR screen from K562 (ENCLB061WYH)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB061WYH
size range: 200-210


title: DNase-seq from MCF-7 (ENCLB730OVO)

description:
https://www.encodeproject.org/experiments/ENCSR086GAN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR086GAN
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB730OVO

source_name: Homo sapiens MCF-7 cell line treated with 10 uM methoxychlor for 504 hours

value: breast cancer (adenocarcinoma)

value: 69 year

value: treatment_term_id:CHEBI:6842; treatment_term_name:methoxychlor; treatment_type:chemical; duration:504; duration_units:hour;

value: ENCBS629TMD at ENCODE; https://www.encodeproject.org/ENCBS629TMD/


title: Flow-FISH CRISPR screen from K562 (ENCLB379OHO)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB379OHO
size range: 200-210

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: ENCBS321LWP at ENCODE; https://www.encodeproject.org/ENCBS321LWP/


title: Flow-FISH CRISPR screen from K562 (ENCLB395WBJ)

description:
https://www.encodeproject.org/experiments/ENCSR052XYV/
***************
biological replicate number: 1
technical replicate number: 1
description: MEF2C
experiment encode accession: ENCSR052XYV
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR865UTQ
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB395WBJ

source_name: Homo sapiens K562 cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (sgRNA) treated with 1 ug/mL doxycycline for 48 hours

value: 53 year

value: ENCBS486RIL at ENCODE; https://www.encodeproject.org/ENCBS486RIL/


title: Flow-FISH CRISPR screen from K562 (ENCLB775EJG)

description:
https://www.encodeproject.org/experiments/ENCSR052XYV/
***************
biological replicate number: 2
technical replicate number: 1
description: MEF2C
experiment encode accession: ENCSR052XYV
assay title: Flow-FISH CRISPR screen
assembly: GRCh38
possible controls: ENCSR865UTQ
encode release date: 2021-05-20
lab: Pardis Sabeti, Broad
library encode accession: ENCLB775EJG

value: Pardis Sabeti, Broad

value: treatment_term_id:CHEBI:50845; treatment_term_name:doxycycline; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS244TZA at ENCODE; https://www.encodeproject.org/ENCBS244TZA/


title: Flow-FISH CRISPR screen from K562 (ENCLB075XTY)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB075XTY
size range: 200-210

value: Jesse Engreitz, Stanford

value: ENCBS663GDH at ENCODE; https://www.encodeproject.org/ENCBS663GDH/


title: Flow-FISH CRISPR screen from K562 (ENCLB993GXB)

description:
https://www.encodeproject.org/experiments/ENCSR014QMX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR014QMX
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB993GXB
size range: 200-210

value: adult

value: ENCBS394RRL at ENCODE; https://www.encodeproject.org/ENCBS394RRL/


title: DNase-seq from HUDEP-2 (ENCLB879LQE)

description:
https://www.encodeproject.org/experiments/ENCSR639ETN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR639ETN
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB879LQE

source_name: Homo sapiens HUDEP-2 cell line

value: male

value: unknown

value: John Stamatoyannopoulos, UW

value: Riken BioResource Cell Bank

value: ENCBS112TSX at ENCODE; https://www.encodeproject.org/ENCBS112TSX/


title: DNase-seq from caudate nucleus (ENCLB308XRD)

description:
https://www.encodeproject.org/experiments/ENCSR036HFB/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR036HFB
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB308XRD

source_name: Homo sapiens female adult (87 years) caudate nucleus tissue

value: caudate nucleus

value: tissue

value: female

value: 87 year

value: Thomas Montine

value: ENCBS952IWT at ENCODE; https://www.encodeproject.org/ENCBS952IWT/


title: Flow-FISH CRISPR screen from K562 (ENCLB760GWO)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB760GWO
size range: 200-210

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

value: ENCBS321LWP at ENCODE; https://www.encodeproject.org/ENCBS321LWP/


title: DNase-seq from MCF-7 (ENCLB121ZEX)

description:
https://www.encodeproject.org/experiments/ENCSR029HEU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR029HEU
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB121ZEX

source_name: Homo sapiens MCF-7 cell line

value: breast cancer (adenocarcinoma)

value: adult

value: 69 year

value: DSMZ

value: ENCBS139MVA at ENCODE; https://www.encodeproject.org/ENCBS139MVA/


title: DNase-seq from caudate nucleus (ENCLB735UFC)

description:
https://www.encodeproject.org/experiments/ENCSR036HFB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR036HFB
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB735UFC

value: John Stamatoyannopoulos, UW

value: ENCBS464ADD at ENCODE; https://www.encodeproject.org/ENCBS464ADD/


title: DNase-seq from K562 (ENCLB216RIK)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 8
technical replicate number: 1
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB216RIK

value: ENCBS395AXI at ENCODE; https://www.encodeproject.org/ENCBS395AXI/


title: DNase-seq from HUDEP-2 (ENCLB035UXY)

description:
https://www.encodeproject.org/experiments/ENCSR069YUO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR069YUO
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB035UXY

value: male

value: unknown

value: Riken BioResource Cell Bank

value: ENCBS131PXX at ENCODE; https://www.encodeproject.org/ENCBS131PXX/


title: Flow-FISH CRISPR screen from K562 (ENCLB411HSW)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB411HSW
size range: 200-210

value: cell line

value: female

value: Jesse Engreitz, Stanford


title: DNase-seq from suppressor macrophage (ENCLB234PBG)

description:
https://www.encodeproject.org/experiments/ENCSR030ZGP/
***************
biological replicate number: 5
technical replicate number: 1
description:
experiment encode accession: ENCSR030ZGP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB234PBG

source_name: Homo sapiens male adult (24 years) suppressor macrophage primary cell treated with 100 ng/mL lipopolysaccharide for 4 hours, 0.1% dmso for 4.5 hours

value: suppressor macrophage

value: primary cell

value: 24 year

value: Shelly Heimfeld

value: treatment_term_id:CHEBI:16412; treatment_term_name:lipopolysaccharide; treatment_type:chemical; duration:4; duration_units:hour; treatment_term_id:CHEBI:28262; treatment_term_name:dmso; treatment_type:chemical; duration:4.5; duration_units:hour;

value: ENCBS774CIM at ENCODE; https://www.encodeproject.org/ENCBS774CIM/


title: Flow-FISH CRISPR screen from K562 (ENCLB674OMB)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB674OMB
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: ATCC

value: ENCBS663GDH at ENCODE; https://www.encodeproject.org/ENCBS663GDH/


title: DNase-seq from cerebellar nuclear complex (ENCLB278NDE)

description:
https://www.encodeproject.org/experiments/ENCSR013YDQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR013YDQ
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB278NDE

source_name: Homo sapiens female adult (87 years) cerebellar nuclear complex tissue

value: cerebellar nuclear complex

value: tissue

value: 87 year

value: John Stamatoyannopoulos, UW

value: Thomas Montine

value: ENCBS732ECW at ENCODE; https://www.encodeproject.org/ENCBS732ECW/


title: Flow-FISH CRISPR screen from K562 (ENCLB844STU)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB844STU
size range: 200-210

value: cell line

value: female

value: Jesse Engreitz, Stanford

value: ENCBS321LWP at ENCODE; https://www.encodeproject.org/ENCBS321LWP/


title: Flow-FISH CRISPR screen from K562 (ENCLB254NPN)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB254NPN
size range: 200-210


title: DNase-seq from K562 (ENCLB730YQS)

description:
https://www.encodeproject.org/experiments/ENCSR070GSY/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR070GSY
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB730YQS

value: ENCBS088QNC at ENCODE; https://www.encodeproject.org/ENCBS088QNC/


title: Flow-FISH CRISPR screen from K562 (ENCLB345PJO)

description:
https://www.encodeproject.org/experiments/ENCSR014DAS/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR014DAS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB345PJO
size range: 200-210


title: DNase-seq from K562 (ENCLB954HRD)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB954HRD

value: ENCBS989NKP at ENCODE; https://www.encodeproject.org/ENCBS989NKP/


title: DNase-seq from K562 (ENCLB044LYA)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 4
technical replicate number: 2
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB044LYA

value: chronic myelogenous leukemia (CML)

value: ENCBS608NDJ at ENCODE; https://www.encodeproject.org/ENCBS608NDJ/


title: total RNA-seq from regulatory T cell (ENCLB760ZRC)

description:
https://www.encodeproject.org/experiments/ENCSR586TYE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR586TYE
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB760ZRC

source_name: Mus musculus strain C57BL/6NJ regulatory T primary cell

value: regulatory T cell

value: primary cell

value: not collected

value: unknown

value: Tim Reddy, Duke

value: Maria Ciofani

value: ENCBS572VZI at ENCODE; https://www.encodeproject.org/ENCBS572VZI/


title: DNase-seq from HUDEP-2 (ENCLB005YRQ)

description:
https://www.encodeproject.org/experiments/ENCSR013QDF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR013QDF
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB005YRQ

value: male

value: adult

value: John Stamatoyannopoulos, UW

value: Riken BioResource Cell Bank

value: ENCBS430UVC at ENCODE; https://www.encodeproject.org/ENCBS430UVC/


title: total RNA-seq from regulatory T cell (ENCLB626IGW)

description:
https://www.encodeproject.org/experiments/ENCSR586TYE/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR586TYE
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB626IGW

value: ENCBS926RYZ at ENCODE; https://www.encodeproject.org/ENCBS926RYZ/


title: total RNA-seq from T-helper 2 cell (ENCLB047EGN)

description:
https://www.encodeproject.org/experiments/ENCSR578RIQ/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR578RIQ
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB047EGN

source_name: Mus musculus strain C57BL/6NJ T-helper 2 primary cell

value: T-helper 2 cell

value: ENCBS235PDM at ENCODE; https://www.encodeproject.org/ENCBS235PDM/


title: DNase-seq from activated CD4-positive, alpha-beta T cell (ENCLB079EWA)

description:
https://www.encodeproject.org/experiments/ENCSR012LNE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR012LNE
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB079EWA

source_name: Homo sapiens female adult (33 years) activated CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 1 hour

value: female

value: 33 year

value: AllCells

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:1; duration_units:hour;

value: ENCBS577DSO at ENCODE; https://www.encodeproject.org/ENCBS577DSO/


title: DNase-seq from K562 (ENCLB303PPW)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB303PPW

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

value: ENCBS989NKP at ENCODE; https://www.encodeproject.org/ENCBS989NKP/


title: total RNA-seq from regulatory T cell (ENCLB345YXM)

description:
https://www.encodeproject.org/experiments/ENCSR586TYE/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR586TYE
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB345YXM

value: regulatory T cell

value: primary cell

value: not collected

value: unknown

value: Tim Reddy, Duke

value: Maria Ciofani

value: ENCBS996YRH at ENCODE; https://www.encodeproject.org/ENCBS996YRH/


title: total RNA-seq from regulatory T cell (ENCLB284XDN)

description:
https://www.encodeproject.org/experiments/ENCSR586TYE/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR586TYE
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB284XDN

value: ENCBS559IAZ at ENCODE; https://www.encodeproject.org/ENCBS559IAZ/


title: DNase-seq from K562 (ENCLB824BMS)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 5
technical replicate number: 1
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB824BMS

value: female

value: adult

value: John Stamatoyannopoulos, UW

value: ENCBS146KUX at ENCODE; https://www.encodeproject.org/ENCBS146KUX/


title: total RNA-seq from T-helper 2 cell (ENCLB439XUX)

description:
https://www.encodeproject.org/experiments/ENCSR578RIQ/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR578RIQ
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB439XUX

value: T-helper 2 cell

value: ENCBS484WZG at ENCODE; https://www.encodeproject.org/ENCBS484WZG/


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCLB897MPS)

description:
https://www.encodeproject.org/experiments/ENCSR011COH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR011COH
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB897MPS

source_name: Homo sapiens female adult (39 years) CD4-positive, alpha-beta T primary cell

value: CD4-positive, alpha-beta T cell

value: 39 year

value: Shelly Heimfeld

value: ENCBS116BSV at ENCODE; https://www.encodeproject.org/ENCBS116BSV/


title: total RNA-seq from T-helper 2 cell (ENCLB617PSX)

description:
https://www.encodeproject.org/experiments/ENCSR578RIQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR578RIQ
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB617PSX

value: primary cell

value: ENCBS274CUA at ENCODE; https://www.encodeproject.org/ENCBS274CUA/


title: STARR-seq from activated T-helper 17 cell (ENCLB978OYP)

description:
https://www.encodeproject.org/experiments/ENCSR576KQE/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR576KQE
assay title: STARR-seq
assembly: mm10
possible controls: ENCSR666QWV
encode release date: 2023-10-05
lab: Tim Reddy, Duke
library encode accession: ENCLB978OYP
size range: 200-400
nucleic acid starting quantity: 30
nucleic acid starting quantity units: µg

source_name: Mus musculus strain C57BL/6NJ activated T-helper 17 primary cell genetically modified (episome) using transient transfection treated with 0.25 ug/mL anti-CD3e for 3 days, 1 ug/mL anti-CD28 for 3 days, 2 ug/mL anti-Interleukin-4 for 3 days, 2 ug/mL...

extract_protocol:
general protocol: https://www.encodeproject.org/documents/9113e79f-1a7a-4620-bdb7-3b6c7b2c259f/@@download/attachment/230726_STARR_OutputLibrary_Protocol_ENCODE.pdf
general protocol: https://www.encodeproject.org/documents/f24b0dae-edbf-4a7e-aeba-7b1d93c7508c/@@download/attachment/230726_STARR_Tcell_Nucleofection_Protocol_ENCODE.pdf
extraction method: Qiagen RNA extraction

value: activated T-helper 17 cell

value: not collected

value: unknown

value: treatment_term_name:anti-CD3e; treatment_type:antibody; duration:3; duration_units:day; treatment_term_name:anti-CD28; treatment_type:antibody; duration:3; duration_units:day; treatment_term_name:anti-Interleukin-4; treatment_type:antibody; duration:3; duration_units:day; treatment_term_name:anti-Interferon-gamma; treatment_type:antibody; duration:3; duration_units:day; treatment_term_id:UniProtKB:P08505; treatment_term_name:Interleukin-6; treatment_type:protein; duration:3; duration_units:day; treatment_term_id:UniProtKB:P01137; treatment_term_name:Transforming growth factor beta-1 proprotein; treatment_type:protein; duration:3; duration_units:day;

value: ENCBS583SGH at ENCODE; https://www.encodeproject.org/ENCBS583SGH/


title: DNase-seq from K562 (ENCLB948FUL)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB948FUL

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

value: ENCBS608NDJ at ENCODE; https://www.encodeproject.org/ENCBS608NDJ/


title: DNase-seq from stimulated activated CD4-positive, alpha-beta T cell (ENCLB067IYW)

description:
https://www.encodeproject.org/experiments/ENCSR011KKH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR011KKH
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB067IYW

source_name: Homo sapiens female adult (33 years) stimulated activated CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 24 hours, 100 ng/mL Interleukin-4 for 24 hours

value: adult

value: 33 year

value: John Stamatoyannopoulos, UW

value: AllCells

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:24; duration_units:hour; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein; duration:24; duration_units:hour;

value: ENCBS772AOJ at ENCODE; https://www.encodeproject.org/ENCBS772AOJ/


title: STARR-seq from activated T-helper 17 cell (ENCLB797ECE)

description:
https://www.encodeproject.org/experiments/ENCSR576KQE/
***************
biological replicate number: 4
technical replicate number: 1
description:
experiment encode accession: ENCSR576KQE
assay title: STARR-seq
assembly: mm10
possible controls: ENCSR666QWV
encode release date: 2023-10-05
lab: Tim Reddy, Duke
library encode accession: ENCLB797ECE
size range: 200-400
nucleic acid starting quantity: 30
nucleic acid starting quantity units: µg

value: activated T-helper 17 cell

value: primary cell

value: Tim Reddy, Duke

value: Maria Ciofani

value: ENCBS375WKA at ENCODE; https://www.encodeproject.org/ENCBS375WKA/


title: total RNA-seq from T-helper 2 cell (ENCLB389WLQ)

description:
https://www.encodeproject.org/experiments/ENCSR578RIQ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR578RIQ
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB389WLQ

value: T-helper 2 cell

value: not collected

value: unknown

value: ENCBS106OTY at ENCODE; https://www.encodeproject.org/ENCBS106OTY/


title: DNase-seq from CD4-positive, alpha-beta T cell (ENCLB755AQN)

description:
https://www.encodeproject.org/experiments/ENCSR009UTO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR009UTO
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB755AQN

source_name: Homo sapiens female adult (34 years) CD4-positive, alpha-beta T primary cell

value: CD4-positive, alpha-beta T cell

value: female

value: 34 year

value: ENCBS002YJM at ENCODE; https://www.encodeproject.org/ENCBS002YJM/


title: DNase-seq from K562 (ENCLB321UCB)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 6
technical replicate number: 1
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB321UCB

value: cell line

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: John Stamatoyannopoulos, UW

value: ATCC

value: ENCBS415KBN at ENCODE; https://www.encodeproject.org/ENCBS415KBN/


title: DNase-seq from left cardiac atrium (ENCLB750PXS)

description:
https://www.encodeproject.org/experiments/ENCSR009OHB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR009OHB
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB750PXS

source_name: Homo sapiens female adult (59 years) left cardiac atrium tissue

value: left cardiac atrium

value: tissue

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

value: 59 year

value: Shin Lin

value: ENCBS865QRZ at ENCODE; https://www.encodeproject.org/ENCBS865QRZ/


title: DNase-seq from K562 (ENCLB237UWZ)

description:
https://www.encodeproject.org/experiments/ENCSR010PPW/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR010PPW
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB237UWZ

value: ENCBS989NKP at ENCODE; https://www.encodeproject.org/ENCBS989NKP/


title: STARR-seq from activated T-helper 17 cell (ENCLB418BEB)

description:
https://www.encodeproject.org/experiments/ENCSR576KQE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR576KQE
assay title: STARR-seq
assembly: mm10
possible controls: ENCSR666QWV
encode release date: 2023-10-05
lab: Tim Reddy, Duke
library encode accession: ENCLB418BEB
size range: 200-400
nucleic acid starting quantity: 30
nucleic acid starting quantity units: µg

value: activated T-helper 17 cell

value: primary cell

value: not collected

value: unknown

value: Tim Reddy, Duke

value: Maria Ciofani

value: treatment_term_name:anti-CD3e; treatment_type:antibody; duration:3; duration_units:day; treatment_term_name:anti-CD28; treatment_type:antibody; duration:3; duration_units:day; treatment_term_name:anti-Interleukin-4; treatment_type:antibody; duration:3; duration_units:day; treatment_term_name:anti-Interferon-gamma; treatment_type:antibody; duration:3; duration_units:day; treatment_term_id:UniProtKB:P08505; treatment_term_name:Interleukin-6; treatment_type:protein; duration:3; duration_units:day; treatment_term_id:UniProtKB:P01137; treatment_term_name:Transforming growth factor beta-1 proprotein; treatment_type:protein; duration:3; duration_units:day;

value: ENCBS628IKM at ENCODE; https://www.encodeproject.org/ENCBS628IKM/


title: total RNA-seq from T-cell (ENCLB672ZVW)

description:
https://www.encodeproject.org/experiments/ENCSR351WPZ/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR351WPZ
assay title: total RNA-seq
assembly: mm10
encode release date: 2025-09-30
lab: Tim Reddy, Duke
library encode accession: ENCLB672ZVW

source_name: Mus musculus strain C57BL/6NJ T-cell primary cell

value: T-cell

value: ENCBS515DTK at ENCODE; https://www.encodeproject.org/ENCBS515DTK/


title: DNase-seq from T-helper 1 cell (ENCLB356OYQ)

description:
https://www.encodeproject.org/experiments/ENCSR008ZMN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR008ZMN
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB356OYQ

source_name: Homo sapiens male adult (56 years) T-helper 1 primary cell

value: T-helper 1 cell

value: male

value: adult

value: 56 year

value: John Stamatoyannopoulos, UW

value: AllCells

value: ENCBS304TYG at ENCODE; https://www.encodeproject.org/ENCBS304TYG/