title: DNase-seq from T47D (ENCLB445CFU)

description:
https://www.encodeproject.org/experiments/ENCSR175CXB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR175CXB
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB445CFU

source_name: Homo sapiens T47D cell line treated with 10 uM methoxychlor for 504 hours

value: mammary ductal carcinoma

value: 54 year

value: John Stamatoyannopoulos, UW

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

value: ENCBS013GHC at ENCODE; https://www.encodeproject.org/ENCBS013GHC/


title: DNase-seq from activated CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB132DWE)

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/ENCSR151UPI/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR151UPI
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB132DWE

library_source: genomic

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

molecule: genomic DNA

organism: Homo sapiens

source_name: Homo sapiens female adult (46 years) activated CD4-positive, CD25-positive, alpha-beta regulatory T primary cell treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours

value: primary cell

tag: biosample encode accession

tag: encode accession

tag: Sex

value: female

tag: dev stage

value: adult

tag: age

value: 46 year

tag: lab

tag: source

value: Stemcell Technologies

tag: treatments

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;

tag: link

value: ENCBS904XLH at ENCODE; https://www.encodeproject.org/ENCBS904XLH/


title: DNase-seq from HCT116 (ENCLB446CNH)

description:
https://www.encodeproject.org/experiments/ENCSR153ZRJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR153ZRJ
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB446CNH

source_name: Homo sapiens HCT116 cell line

tag: line

value: cell line

value: male

tag: health state

value: colorectal carcinoma

value: 48 year

value: Erez Aiden

value: ENCBS238WOX at ENCODE; https://www.encodeproject.org/ENCBS238WOX/


title: PRO-cap from esophagus squamous epithelium (ENCLB498KEX)

description:
https://www.encodeproject.org/experiments/ENCSR153AON/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Esophagus squamous epithelium.
experiment encode accession: ENCSR153AON
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB498KEX

library_source: transcriptomic

molecule: total RNA

source_name: Homo sapiens female adult (53 years) esophagus squamous epithelium tissue

value: esophagus squamous epithelium

value: tissue

value: 53 year

value: Haiyuan Yu, Cornell

value: GTEx

value: ENCBS620ERG at ENCODE; https://www.encodeproject.org/ENCBS620ERG/


title: Flow-FISH CRISPR screen from K562 (ENCLB057MNM)

description:
https://www.encodeproject.org/experiments/ENCSR060PQR/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR060PQR
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB057MNM
size range: 200-210

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

value: female

value: chronic myelogenous leukemia (CML)

value: adult

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS582EKO at ENCODE; https://www.encodeproject.org/ENCBS582EKO/


title: DNase-seq from activated B cell (ENCLB053XIN)

description:
https://www.encodeproject.org/experiments/ENCSR138FUS/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR138FUS
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB053XIN

source_name: Homo sapiens male adult (32 years) activated B primary cell treated with 1 ug/mL resiquimod for 48 hours, 10 ng/mL BAFF for 48 hours

value: activated B cell

value: primary cell

value: male

value: 32 year

value: John Stamatoyannopoulos, UW

value: Stemcell Technologies

value: treatment_term_id:CHEBI:36706; treatment_term_name:resiquimod; treatment_type:chemical; duration:48; duration_units:hour; treatment_term_id:UniProtKB:Q9Y275; treatment_term_name:BAFF; treatment_type:protein; duration:48; duration_units:hour;

value: ENCBS512FJR at ENCODE; https://www.encodeproject.org/ENCBS512FJR/


title: PRO-cap from Metastatic Liver Carcinoma in the Lung (ENCLB727LNQ)

description:
https://www.encodeproject.org/experiments/ENCSR149WMX/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Metastatic liver cancer to lung.
experiment encode accession: ENCSR149WMX
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB727LNQ

source_name: Homo sapiens female adult (62 years) Metastatic Liver Carcinoma in the Lung tissue

value: Metastatic Liver Carcinoma in the Lung

value: tissue

value: 62 year

value: Haiyuan Yu, Cornell

value: CHTN

value: ENCBS275TWJ at ENCODE; https://www.encodeproject.org/ENCBS275TWJ/


title: DNase-seq from T47D (ENCLB650MBC)

description:
https://www.encodeproject.org/experiments/ENCSR167JCP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR167JCP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB650MBC
instrument models: Illumina NextSeq 500,Illumina HiSeq 2500

source_name: Homo sapiens T47D cell line treated with 0.1% dmso for 504 hours

value: cell line

value: female

value: mammary ductal carcinoma

value: adult

value: 54 year

value: treatment_term_id:CHEBI:28262; treatment_term_name:dmso; treatment_type:chemical; duration:504; duration_units:hour;

value: ENCBS046MGP at ENCODE; https://www.encodeproject.org/ENCBS046MGP/


title: Flow-FISH CRISPR screen from K562 (ENCLB446SZL)

description:
https://www.encodeproject.org/experiments/ENCSR060KBF/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR060KBF
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB446SZL
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS925MCT at ENCODE; https://www.encodeproject.org/ENCBS925MCT/


title: Flow-FISH CRISPR screen from K562 (ENCLB973ETB)

description:
https://www.encodeproject.org/experiments/ENCSR060KBF/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR060KBF
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB973ETB
size range: 200-210


title: DNase-seq from activated T-cell (ENCLB149WYT)

description:
https://www.encodeproject.org/experiments/ENCSR147SKP/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR147SKP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB149WYT

source_name: Homo sapiens male adult (21 years) activated T-cell primary cell treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours

value: activated T-cell

value: primary cell

value: male

value: 21 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: ENCBS028YEC at ENCODE; https://www.encodeproject.org/ENCBS028YEC/


title: DNase-seq from NCI-H2081 (ENCLB236FUC)

description:
https://www.encodeproject.org/experiments/ENCSR670QLZ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR670QLZ
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB236FUC

source_name: Homo sapiens NCI-H2081 cell line treated with 0.1% DMSO for 48 hours

value: cell line

value: female

value: adult

value: 59 year

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

value: ENCBS742VXE at ENCODE; https://www.encodeproject.org/ENCBS742VXE/


title: Flow-FISH CRISPR screen from K562 (ENCLB998TOS)

description:
https://www.encodeproject.org/experiments/ENCSR060KBF/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR060KBF
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB998TOS
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Jesse Engreitz, Stanford

value: ENCBS772BGH at ENCODE; https://www.encodeproject.org/ENCBS772BGH/


title: DNase-seq from activated T-cell (ENCLB825BKE)

description:
https://www.encodeproject.org/experiments/ENCSR147SKP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR147SKP
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB825BKE

value: activated T-cell

value: primary cell

value: ENCBS637LBA at ENCODE; https://www.encodeproject.org/ENCBS637LBA/


title: DNase-seq from NCI-H2081 (ENCLB478UQL)

description:
https://www.encodeproject.org/experiments/ENCSR670QLZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR670QLZ
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB478UQL

value: John Stamatoyannopoulos, UW

value: ATCC

value: ENCBS053IHU at ENCODE; https://www.encodeproject.org/ENCBS053IHU/


title: Flow-FISH CRISPR screen from K562 (ENCLB838SEJ)

description:
https://www.encodeproject.org/experiments/ENCSR060KBF/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR060KBF
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB838SEJ
size range: 200-210


title: STARR-seq from K562 (ENCLB021NTR)

description:
https://www.encodeproject.org/experiments/ENCSR661FOW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR661FOW
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR870PYS
encode release date: 2021-10-04
lab: Tim Reddy, Duke
library encode accession: ENCLB021NTR
size range: 300-800

source_name: Homo sapiens K562 cell line genetically modified (episome) using transient transfection

extract_protocol:
general protocol: https://www.encodeproject.org/documents/d0e78573-c6ca-4434-b736-3f628059bed9/@@download/attachment/wgSTARRseq_ENCODE_KPS_2021.pdf
extraction method: RNeasy

value: Tim Reddy, Duke

value: ENCBS196JAD at ENCODE; https://www.encodeproject.org/ENCBS196JAD/


title: STARR-seq from K562 (ENCLB333XWO)

description:
https://www.encodeproject.org/experiments/ENCSR661FOW/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR661FOW
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR870PYS
encode release date: 2021-10-04
lab: Tim Reddy, Duke
library encode accession: ENCLB333XWO
size range: 300-800

value: cell line

value: female

value: ENCBS209HJE at ENCODE; https://www.encodeproject.org/ENCBS209HJE/


title: DNase-seq from activated B cell (ENCLB042EWB)

description:
https://www.encodeproject.org/experiments/ENCSR138FUS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR138FUS
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB042EWB

value: activated B cell

value: male

value: adult

value: 32 year

value: Stemcell Technologies

value: treatment_term_id:CHEBI:36706; treatment_term_name:resiquimod; treatment_type:chemical; duration:48; duration_units:hour; treatment_term_id:UniProtKB:Q9Y275; treatment_term_name:BAFF; treatment_type:protein; duration:48; duration_units:hour;

value: ENCBS018VAO at ENCODE; https://www.encodeproject.org/ENCBS018VAO/


title: STARR-seq from K562 (ENCLB042FRX)

description:
https://www.encodeproject.org/experiments/ENCSR661FOW/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR661FOW
assay title: STARR-seq
assembly: GRCh38
possible controls: ENCSR870PYS
encode release date: 2021-10-04
lab: Tim Reddy, Duke
library encode accession: ENCLB042FRX
size range: 300-800

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ENCBS777HEB at ENCODE; https://www.encodeproject.org/ENCBS777HEB/


title: Flow-FISH CRISPR screen from K562 (ENCLB655JOH)

description:
https://www.encodeproject.org/experiments/ENCSR060KBF/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR060KBF
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB655JOH
size range: 200-210

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS925MCT at ENCODE; https://www.encodeproject.org/ENCBS925MCT/


title: Flow-FISH CRISPR screen from K562 (ENCLB088MXM)

description:
https://www.encodeproject.org/experiments/ENCSR060KBF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR060KBF
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB088MXM
size range: 200-210

value: ENCBS772BGH at ENCODE; https://www.encodeproject.org/ENCBS772BGH/


title: PRO-cap from right ventricle myocardium (ENCLB834KWS)

description:
https://www.encodeproject.org/experiments/ENCSR124RWD/
***************
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 Right ventricle myocardium superior of heart.
experiment encode accession: ENCSR124RWD
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB834KWS

source_name: Homo sapiens male adult (37 years) right ventricle myocardium tissue

value: right ventricle myocardium

value: tissue

value: 37 year

value: Haiyuan Yu, Cornell

value: Michael Snyder

value: ENCBS251FET at ENCODE; https://www.encodeproject.org/ENCBS251FET/


title: DNase-seq from K562 (ENCLB119GYM)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
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: ENCLB119GYM

source_name: Homo sapiens K562 cell line

value: cell line

value: female

value: adult

value: John Stamatoyannopoulos, UW

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


title: PRO-cap from right ventricle myocardium (ENCLB245FVW)

description:
https://www.encodeproject.org/experiments/ENCSR124RWD/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Right ventricle myocardium superior of heart.
experiment encode accession: ENCSR124RWD
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB245FVW

value: male


title: DNase-seq from activated B cell (ENCLB615KMH)

description:
https://www.encodeproject.org/experiments/ENCSR138FUS/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR138FUS
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB615KMH

value: activated B cell

value: primary cell

value: 32 year

value: Stemcell Technologies

value: treatment_term_id:CHEBI:36706; treatment_term_name:resiquimod; treatment_type:chemical; duration:48; duration_units:hour; treatment_term_id:UniProtKB:Q9Y275; treatment_term_name:BAFF; treatment_type:protein; duration:48; duration_units:hour;

value: ENCBS927KQS at ENCODE; https://www.encodeproject.org/ENCBS927KQS/


title: DNase-seq from erythroblast (ENCLB071YEL)

description:
https://www.encodeproject.org/experiments/ENCSR059YWJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR059YWJ
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB071YEL
instrument models: Illumina HiSeq 4000,Illumina HiSeq 2000

source_name: Homo sapiens fetal erythroblast primary cell

value: erythroblast

value: not collected

value: fetal

value: unknown

value: John Stamatoyannopoulos

value: ENCBS443KQW at ENCODE; https://www.encodeproject.org/ENCBS443KQW/


title: DNase-seq from K562 (ENCLB451AYV)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
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: ENCLB451AYV

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

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


title: Flow-FISH CRISPR screen from K562 (ENCLB139XSD)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB139XSD
size range: 200-210

value: adult

value: Jesse Engreitz, Stanford

value: ENCBS852OJV at ENCODE; https://www.encodeproject.org/ENCBS852OJV/


title: PRO-cap from SUDHL5 (ENCLB807BVC)

description:
https://www.encodeproject.org/experiments/ENCSR124AWE/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in SU-DHL-5.
experiment encode accession: ENCSR124AWE
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB807BVC

source_name: Homo sapiens SUDHL5 cell line

value: child

value: 17 year

value: Haiyuan Yu, Cornell

value: Russell Ryan

value: ENCBS857PEG at ENCODE; https://www.encodeproject.org/ENCBS857PEG/


title: Flow-FISH CRISPR screen from K562 (ENCLB480UFA)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 3
technical replicate number: 1
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB480UFA
size range: 200-210

value: ENCBS620OVY at ENCODE; https://www.encodeproject.org/ENCBS620OVY/


title: DNase-seq from K562 (ENCLB453WPN)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
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: ENCLB453WPN

value: John Stamatoyannopoulos, UW


title: PRO-cap from SUDHL5 (ENCLB350TUG)

description:
https://www.encodeproject.org/experiments/ENCSR124AWE/
***************
biological replicate number: 2
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in SU-DHL-5.
experiment encode accession: ENCSR124AWE
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB350TUG

value: ENCBS802SHU at ENCODE; https://www.encodeproject.org/ENCBS802SHU/


title: Flow-FISH CRISPR screen from K562 (ENCLB347FKP)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB347FKP
size range: 200-210

value: cell line

value: ENCBS633BVA at ENCODE; https://www.encodeproject.org/ENCBS633BVA/


title: Flow-FISH CRISPR screen from K562 (ENCLB987ETF)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB987ETF
size range: 200-210

value: female

value: chronic myelogenous leukemia (CML)


title: DNase-seq from K562 (ENCLB100HHD)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 20
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: ENCLB100HHD

value: 53 year

value: ATCC

value: ENCBS308YKC at ENCODE; https://www.encodeproject.org/ENCBS308YKC/


title: PRO-cap from colic lymph node (ENCLB155TVN)

description:
https://www.encodeproject.org/experiments/ENCSR122BHP/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Pericolonic lymph node.
experiment encode accession: ENCSR122BHP
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB155TVN

source_name: Homo sapiens female adult (50 years) colic lymph node tissue

value: colic lymph node

value: tissue

value: adult

value: 50 year

value: CHTN

value: ENCBS779TGK at ENCODE; https://www.encodeproject.org/ENCBS779TGK/


title: DNase-seq from K562 (ENCLB610FSW)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
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: ENCLB610FSW

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


title: PRO-cap from colic lymph node (ENCLB870UGI)

description:
https://www.encodeproject.org/experiments/ENCSR122BHP/
***************
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 Pericolonic lymph node.
experiment encode accession: ENCSR122BHP
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB870UGI

value: Haiyuan Yu, Cornell


title: DNase-seq from K562 (ENCLB674GCT)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 15
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB674GCT

value: John Stamatoyannopoulos, UW


title: Flow-FISH CRISPR screen from K562 (ENCLB198BIC)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 3
technical replicate number: 2
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB198BIC
size range: 200-210

value: Jesse Engreitz, Stanford

value: ENCBS620OVY at ENCODE; https://www.encodeproject.org/ENCBS620OVY/


title: FACS CRISPR screen from glutamatergic neuron (ENCLB900JCW)

description:
https://www.encodeproject.org/experiments/ENCSR119JRG/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR119JRG
assay title: FACS CRISPR screen
assembly: GRCh38
possible controls: ENCSR072YHQ
encode release date: 2022-07-19
lab: Yin Shen, UCSF
library encode accession: ENCLB900JCW

source_name: Homo sapiens male adult (30 years) glutamatergic neuron in vitro differentiated cells genetically modified (insertion) using CRISPR (pgRNA) targeting H. sapiens MECP2, genetically modified (insertion) using transduction, genetically modified using...

value: glutamatergic neuron

value: in vitro differentiated cells

value: male

value: 30 year

tag: passage number

value: Yin Shen, UCSF

value: Li Gan

value: ENCBS931EAL at ENCODE; https://www.encodeproject.org/ENCBS931EAL/


title: Flow-FISH CRISPR screen from K562 (ENCLB231MVY)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 3
technical replicate number: 3
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB231MVY
size range: 200-210

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC


title: DNase-seq from K562 (ENCLB892CHR)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 2
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: ENCLB892CHR

value: adult

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


title: FACS CRISPR screen from glutamatergic neuron (ENCLB105WQU)

description:
https://www.encodeproject.org/experiments/ENCSR119JRG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR119JRG
assay title: FACS CRISPR screen
assembly: GRCh38
possible controls: ENCSR072YHQ
encode release date: 2022-07-19
lab: Yin Shen, UCSF
library encode accession: ENCLB105WQU

value: ENCBS696HOA at ENCODE; https://www.encodeproject.org/ENCBS696HOA/


title: DNase-seq from K562 (ENCLB835GCS)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
technical replicate number: 5
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB835GCS

value: John Stamatoyannopoulos, UW

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


title: Flow-FISH CRISPR screen from K562 (ENCLB457IKX)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB457IKX
size range: 200-210

value: Jesse Engreitz, Stanford

value: ENCBS852OJV at ENCODE; https://www.encodeproject.org/ENCBS852OJV/


title: Flow-FISH CRISPR screen from K562 (ENCLB680UJB)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB680UJB
size range: 200-210

value: ENCBS633BVA at ENCODE; https://www.encodeproject.org/ENCBS633BVA/


title: Flow-FISH CRISPR screen from K562 (ENCLB573MGA)

description:
https://www.encodeproject.org/experiments/ENCSR059XCK/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR059XCK
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB573MGA
size range: 200-210


title: DNase-seq from K562 (ENCLB766UQI)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 22
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB766UQI

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


title: PRO-cap from trachea (ENCLB305UQP)

description:
https://www.encodeproject.org/experiments/ENCSR117JKC/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Trachea.
experiment encode accession: ENCSR117JKC
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB305UQP

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

value: trachea

value: tissue

value: male

value: 54 year

value: Haiyuan Yu, Cornell

value: CHTN

value: ENCBS106IJH at ENCODE; https://www.encodeproject.org/ENCBS106IJH/


title: DNase-seq from K562 (ENCLB552DMJ)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 10
technical replicate number: 13
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB552DMJ

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

value: ENCBS831YDU at ENCODE; https://www.encodeproject.org/ENCBS831YDU/


title: Flow-FISH CRISPR screen from K562 (ENCLB100RDF)

description:
https://www.encodeproject.org/experiments/ENCSR056IET/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR056IET
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB100RDF
size range: 200-210

value: adult

value: Jesse Engreitz, Stanford

value: ENCBS709TXI at ENCODE; https://www.encodeproject.org/ENCBS709TXI/


title: proliferation CRISPR screen from WTC11 (ENCLB400AKT)

description:
https://www.encodeproject.org/experiments/ENCSR117YGQ/
***************
biological replicate number: 2
technical replicate number: 1
description: Cell survival-based CRISPR screen targeting genomic regions near MSH2, MSH6, MLH1, PMS2, PCNA and HPRT1 genes.
experiment encode accession: ENCSR117YGQ
assay title: proliferation CRISPR screen
assembly: GRCh38
possible controls: ENCSR250ZWC
encode release date: 2020-12-08
lab: Yin Shen, UCSF
library encode accession: ENCLB400AKT

source_name: Homo sapiens WTC11 cell line genetically modified (insertion) using transduction, genetically modified using CRISPR cutting (sgRNA) treated with 80 ng/mL tioguanine for 7 days

value: 30 year

value: Yin Shen, UCSF

value: The Gladstone Stem Cell Core

value: treatment_term_id:CHEBI:9555; treatment_term_name:tioguanine; treatment_type:chemical; duration:7; duration_units:day;

value: ENCBS561NPO at ENCODE; https://www.encodeproject.org/ENCBS561NPO/


title: PRO-cap from T-cell (ENCLB004IUC)

description:
https://www.encodeproject.org/experiments/ENCSR118KGX/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in T cells from T1D donor.
experiment encode accession: ENCSR118KGX
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB004IUC

source_name: Homo sapiens female adult (32 years) with type 1 diabetes mellitus; T-cell primary cell

value: T-cell

value: primary cell

value: 32 year

value: Haiyuan Yu, Cornell

value: Dieter Egli

value: ENCBS474JLO at ENCODE; https://www.encodeproject.org/ENCBS474JLO/


title: FACS CRISPR screen from glutamatergic neuron (ENCLB263UCR)

description:
https://www.encodeproject.org/experiments/ENCSR113CEG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR113CEG
assay title: FACS CRISPR screen
assembly: GRCh38
possible controls: ENCSR284PQK
encode release date: 2022-07-19
lab: Yin Shen, UCSF
library encode accession: ENCLB263UCR

source_name: Homo sapiens male adult (30 years) glutamatergic neuron in vitro differentiated cells genetically modified (insertion) using CRISPR (pgRNA) targeting H. sapiens SIN3A, genetically modified (insertion) using transduction, genetically modified using...

value: glutamatergic neuron

value: in vitro differentiated cells

value: male

value: Li Gan

value: ENCBS778PAZ at ENCODE; https://www.encodeproject.org/ENCBS778PAZ/


title: Flow-FISH CRISPR screen from K562 (ENCLB262TSG)

description:
https://www.encodeproject.org/experiments/ENCSR056IET/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR056IET
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB262TSG
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: adult

value: 53 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS709TXI at ENCODE; https://www.encodeproject.org/ENCBS709TXI/


title: FACS CRISPR screen from glutamatergic neuron (ENCLB918KVY)

description:
https://www.encodeproject.org/experiments/ENCSR113CEG/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR113CEG
assay title: FACS CRISPR screen
assembly: GRCh38
possible controls: ENCSR284PQK
encode release date: 2022-07-19
lab: Yin Shen, UCSF
library encode accession: ENCLB918KVY

value: 30 year

value: Yin Shen, UCSF

value: ENCBS903RYW at ENCODE; https://www.encodeproject.org/ENCBS903RYW/


title: proliferation CRISPR screen from WTC11 (ENCLB219TOG)

description:
https://www.encodeproject.org/experiments/ENCSR117YGQ/
***************
biological replicate number: 1
technical replicate number: 1
description: Cell survival-based CRISPR screen targeting genomic regions near MSH2, MSH6, MLH1, PMS2, PCNA and HPRT1 genes.
experiment encode accession: ENCSR117YGQ
assay title: proliferation CRISPR screen
assembly: GRCh38
possible controls: ENCSR250ZWC
encode release date: 2020-12-08
lab: Yin Shen, UCSF
library encode accession: ENCLB219TOG

value: The Gladstone Stem Cell Core

value: treatment_term_id:CHEBI:9555; treatment_term_name:tioguanine; treatment_type:chemical; duration:7; duration_units:day;

value: ENCBS254MAM at ENCODE; https://www.encodeproject.org/ENCBS254MAM/


title: Flow-FISH CRISPR screen from K562 (ENCLB434RGS)

description:
https://www.encodeproject.org/experiments/ENCSR056IET/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR056IET
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB434RGS
size range: 200-210


title: Flow-FISH CRISPR screen from K562 (ENCLB042SRR)

description:
https://www.encodeproject.org/experiments/ENCSR056IET/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR056IET
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB042SRR
size range: 200-210


title: DNase-seq from K562 (ENCLB742AQT)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
technical replicate number: 11
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB742AQT

value: John Stamatoyannopoulos, UW

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


title: DNase-seq from K562 (ENCLB116XDL)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 18
technical replicate number: 9
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB116XDL

value: ENCBS275QRX at ENCODE; https://www.encodeproject.org/ENCBS275QRX/


title: proliferation CRISPR screen from K562 (ENCLB518XSE)

description:
https://www.encodeproject.org/experiments/ENCSR056FSY/
***************
biological replicate number: 2
technical replicate number: 1
description: Functional characterization experiment for Cas9/CRISPR fine-mapping proliferation screens at hit and non-hit CTCF motifs in loop anchors (and their partner anchors) from the CTCF growth screen
experiment encode accession: ENCSR056FSY
assay title: proliferation CRISPR screen
assembly: GRCh38
encode release date: 2021-12-14
lab: Will Greenleaf, Stanford
library encode accession: ENCLB518XSE

source_name: Homo sapiens K562 cell line genetically modified (insertion) using transduction, genetically modified using CRISPR cutting (sgRNA) treated with 1 ug/mL Puromycin for 96 hours, 6 days post-nucleic acid delivery time

extract_protocol:
general protocol: https://www.encodeproject.org/documents/3e3b5605-6931-4af2-aa69-e669d91349b6/@@download/attachment/greenleaf_ctcf_crispr_screen_protocol.pdf
extraction method: QIAGEN DNeasy Blood & Tissue Kit

value: cell line

value: Will Greenleaf, Stanford

value: Michael Bassik, Stanford

value: treatment_term_id:CHEBI:17939; treatment_term_name:Puromycin; treatment_type:chemical; duration:96; duration_units:hour;

value: ENCBS308LHT at ENCODE; https://www.encodeproject.org/ENCBS308LHT/


title: DNase-seq from K562 (ENCLB116ZAO)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 55
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: ENCLB116ZAO

value: female

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: ENCBS057OKE at ENCODE; https://www.encodeproject.org/ENCBS057OKE/


title: DNase-seq from K562 (ENCLB276HZX)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 11
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB276HZX

value: ATCC

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


title: PRO-cap from trachea (ENCLB024QKB)

description:
https://www.encodeproject.org/experiments/ENCSR117JKC/
***************
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 Trachea.
experiment encode accession: ENCSR117JKC
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB024QKB

value: trachea

value: tissue

value: male

value: 54 year

value: Haiyuan Yu, Cornell

value: CHTN

value: ENCBS106IJH at ENCODE; https://www.encodeproject.org/ENCBS106IJH/


title: PRO-cap from pancreas (ENCLB296UYL)

description:
https://www.encodeproject.org/experiments/ENCSR104MSL/
***************
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 Pancreas.
experiment encode accession: ENCSR104MSL
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB296UYL

source_name: Homo sapiens pancreas organoid

value: pancreas

value: organoid

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

value: 61 year

value: Michael Snyder

value: ENCBS040TRX at ENCODE; https://www.encodeproject.org/ENCBS040TRX/


title: DNase-seq from K562 (ENCLB829AOY)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 8
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB829AOY

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: John Stamatoyannopoulos, UW


title: PRO-cap from pancreas (ENCLB059WCT)

description:
https://www.encodeproject.org/experiments/ENCSR104MSL/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Pancreas.
experiment encode accession: ENCSR104MSL
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB059WCT


title: DNase-seq from K562 (ENCLB589PWA)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
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: ENCLB589PWA

value: ATCC

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


title: proliferation CRISPR screen from K562 (ENCLB537ACR)

description:
https://www.encodeproject.org/experiments/ENCSR056FSY/
***************
biological replicate number: 1
technical replicate number: 1
description: Functional characterization experiment for Cas9/CRISPR fine-mapping proliferation screens at hit and non-hit CTCF motifs in loop anchors (and their partner anchors) from the CTCF growth screen
experiment encode accession: ENCSR056FSY
assay title: proliferation CRISPR screen
assembly: GRCh38
encode release date: 2021-12-14
lab: Will Greenleaf, Stanford
library encode accession: ENCLB537ACR

value: Will Greenleaf, Stanford

value: Michael Bassik, Stanford

value: treatment_term_id:CHEBI:17939; treatment_term_name:Puromycin; treatment_type:chemical; duration:96; duration_units:hour;

value: ENCBS680ULZ at ENCODE; https://www.encodeproject.org/ENCBS680ULZ/


title: DNase-seq from K562 (ENCLB373WMX)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 7
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: ENCLB373WMX

value: ENCBS599DCW at ENCODE; https://www.encodeproject.org/ENCBS599DCW/


title: DNase-seq from bone marrow (ENCLB812HHL)

description:
https://www.encodeproject.org/experiments/ENCSR054JPT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR054JPT
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB812HHL

source_name: Homo sapiens bone marrow tissue

value: bone marrow

value: tissue

value: not collected

value: unknown

value: Shelly Heimfeld

value: ENCBS863SHC at ENCODE; https://www.encodeproject.org/ENCBS863SHC/


title: PRO-cap from paraaortic lymph node (ENCLB683YWM)

description:
https://www.encodeproject.org/experiments/ENCSR100PNA/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Periaortic lymph node.
experiment encode accession: ENCSR100PNA
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB683YWM

source_name: Homo sapiens female adult (68 years) paraaortic lymph node tissue

value: paraaortic lymph node

value: female

value: 68 year

value: Haiyuan Yu, Cornell

value: CHTN

value: ENCBS970NSC at ENCODE; https://www.encodeproject.org/ENCBS970NSC/


title: PRO-cap from paraaortic lymph node (ENCLB542FND)

description:
https://www.encodeproject.org/experiments/ENCSR100PNA/
***************
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 Periaortic lymph node.
experiment encode accession: ENCSR100PNA
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB542FND

value: adult


title: DNase-seq from K562 (ENCLB440IZF)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 18
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: ENCLB440IZF

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ATCC

value: ENCBS275QRX at ENCODE; https://www.encodeproject.org/ENCBS275QRX/


title: Control CRISPR screen from SW620 (ENCLB936XTF)

description:
https://www.encodeproject.org/experiments/ENCSR053SNW/
***************
biological replicate number: 2
technical replicate number: 1
description: Growth-based CRISPR screen targeting genomic regions near MYC and MYB genes.
experiment encode accession: ENCSR053SNW
assay title: Control CRISPR screen
possible controls: ENCSR772AWX
encode release date: 2020-08-06
lab: Bing Ren, UCSD
library encode accession: ENCLB936XTF
size range: 710-720

source_name: Homo sapiens SW620 cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (pgRNA) 0 days after the sample was treated with 2 ug/mL Puromycin for 2 days, 0.2 ug/mL Puromycin for 2 days

value: male

value: 50 year

value: Bing Ren, UCSD

value: treatment_term_id:CHEBI:17939; treatment_term_name:Puromycin; treatment_type:chemical; duration:2; duration_units:day; treatment_term_id:CHEBI:17939; treatment_term_name:Puromycin; treatment_type:chemical; duration:2; duration_units:day;

value: ENCBS264GGJ at ENCODE; https://www.encodeproject.org/ENCBS264GGJ/


title: PRO-cap from monocyte (ENCLB738PDZ)

description:
https://www.encodeproject.org/experiments/ENCSR093JST/
***************
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 Monocytes.
experiment encode accession: ENCSR093JST
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB738PDZ

source_name: Homo sapiens monocyte primary cell

value: monocyte

value: primary cell

value: not collected

value: unknown

value: Remi J. Creusot

value: ENCBS075AEP at ENCODE; https://www.encodeproject.org/ENCBS075AEP/


title: Flow-FISH CRISPR screen from K562 (ENCLB724MXN)

description:
https://www.encodeproject.org/experiments/ENCSR053OQS/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR053OQS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB724MXN
size range: 200-210

value: cell line

value: female

value: adult

value: Jesse Engreitz, Stanford

value: ENCBS865KYR at ENCODE; https://www.encodeproject.org/ENCBS865KYR/


title: Control CRISPR screen from SW620 (ENCLB612HUB)

description:
https://www.encodeproject.org/experiments/ENCSR053SNW/
***************
biological replicate number: 1
technical replicate number: 1
description: Growth-based CRISPR screen targeting genomic regions near MYC and MYB genes.
experiment encode accession: ENCSR053SNW
assay title: Control CRISPR screen
possible controls: ENCSR772AWX
encode release date: 2020-08-06
lab: Bing Ren, UCSD
library encode accession: ENCLB612HUB
size range: 710-720

value: ATCC

value: ENCBS865CYA at ENCODE; https://www.encodeproject.org/ENCBS865CYA/


title: PRO-cap from monocyte (ENCLB833JOD)

description:
https://www.encodeproject.org/experiments/ENCSR093JST/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Monocytes.
experiment encode accession: ENCSR093JST
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB833JOD

value: Haiyuan Yu, Cornell


title: DNase-seq from activated CD4-positive, CD25-positive, alpha-beta regulatory T cell (ENCLB899ZJR)

description:
https://www.encodeproject.org/experiments/ENCSR090JIM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR090JIM
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB899ZJR

source_name: Homo sapiens female adult (51 years) activated CD4-positive, CD25-positive, alpha-beta regulatory T primary cell treated with anti-CD3 and anti-CD28 coated beads for 48 hours, 50 U/mL Interleukin-2 for 48 hours

value: 51 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: ENCBS095GBN at ENCODE; https://www.encodeproject.org/ENCBS095GBN/


title: Flow-FISH CRISPR screen from K562 (ENCLB264WXG)

description:
https://www.encodeproject.org/experiments/ENCSR053OQS/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR053OQS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB264WXG
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: 53 year


title: Flow-FISH CRISPR screen from K562 (ENCLB399WUG)

description:
https://www.encodeproject.org/experiments/ENCSR053OQS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR053OQS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB399WUG
size range: 200-210


title: DNase-seq from K562 (ENCLB931YYH)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 101
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: ENCLB931YYH

source_name: Homo sapiens K562 cell line

value: ENCBS893XEL at ENCODE; https://www.encodeproject.org/ENCBS893XEL/


title: DNase-seq from K562 (ENCLB463PMB)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 10
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: ENCLB463PMB

value: ENCBS831YDU at ENCODE; https://www.encodeproject.org/ENCBS831YDU/


title: DNase-seq from K562 (ENCLB984HOY)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 22
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: ENCLB984HOY

value: cell line

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


title: PRO-cap from T-cell (ENCLB398BUL)

description:
https://www.encodeproject.org/experiments/ENCSR089CQL/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in T cells from T1D donor.
experiment encode accession: ENCSR089CQL
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB398BUL

source_name: Homo sapiens female adult (29 years) with type 1 diabetes mellitus; T-cell primary cell

value: T-cell

value: primary cell

value: female

value: adult

value: 29 year

value: Dieter Egli

value: ENCBS691QEE at ENCODE; https://www.encodeproject.org/ENCBS691QEE/


title: DNase-seq from K562 (ENCLB294HZJ)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 22
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: ENCLB294HZJ

value: John Stamatoyannopoulos, UW

value: ATCC


title: PRO-cap from ovary (ENCLB530ZKF)

description:
https://www.encodeproject.org/experiments/ENCSR087CGY/
***************
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 Ovary.
experiment encode accession: ENCSR087CGY
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB530ZKF

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

value: ovary

value: tissue

value: Haiyuan Yu, Cornell

value: GTEx

value: ENCBS142ONM at ENCODE; https://www.encodeproject.org/ENCBS142ONM/


title: DNase-seq from K562 (ENCLB285LSQ)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 10
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: ENCLB285LSQ

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ENCBS831YDU at ENCODE; https://www.encodeproject.org/ENCBS831YDU/


title: Flow-FISH CRISPR screen from K562 (ENCLB389QGN)

description:
https://www.encodeproject.org/experiments/ENCSR053OQS/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR053OQS
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB389QGN
size range: 200-210

value: cell line

value: Jesse Engreitz, Stanford

value: ENCBS865KYR at ENCODE; https://www.encodeproject.org/ENCBS865KYR/


title: DNase-seq from K562 (ENCLB382IRK)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
technical replicate number: 6
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB382IRK

value: female

value: adult

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


title: DNase-seq from activated CD4-positive, alpha-beta T cell (ENCLB380EGH)

description:
https://www.encodeproject.org/experiments/ENCSR051UEN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR051UEN
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB380EGH

source_name: Homo sapiens male adult (42 years) activated CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads for 1 hour

value: primary cell

value: male

value: 42 year

value: AllCells

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

value: ENCBS245SAQ at ENCODE; https://www.encodeproject.org/ENCBS245SAQ/


title: PRO-cap from B cell (ENCLB669TZT)

description:
https://www.encodeproject.org/experiments/ENCSR083AMN/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in B cells.
experiment encode accession: ENCSR083AMN
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB669TZT

source_name: Homo sapiens B primary cell

value: B cell

value: not collected

value: unknown

value: Haiyuan Yu, Cornell

value: Remi J. Creusot

value: ENCBS047VKV at ENCODE; https://www.encodeproject.org/ENCBS047VKV/


title: DNase-seq from activated CD4-positive, alpha-beta T cell (ENCLB356MLA)

description:
https://www.encodeproject.org/experiments/ENCSR053DYH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR053DYH
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB356MLA

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 4 hours, 100 ng/mL TNF-alpha for 4 hours

value: 33 year

value: John Stamatoyannopoulos, UW

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody; duration:4; duration_units:hour; treatment_term_id:UniProtKB:P01375; treatment_term_name:TNF-alpha; treatment_type:protein; duration:4; duration_units:hour;

value: ENCBS148EYH at ENCODE; https://www.encodeproject.org/ENCBS148EYH/


title: DNase-seq from activated CD4-positive, alpha-beta T cell (ENCLB501QKM)

description:
https://www.encodeproject.org/experiments/ENCSR053DYH/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR053DYH
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-20
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB501QKM

value: female

value: adult

value: ENCBS590UKA at ENCODE; https://www.encodeproject.org/ENCBS590UKA/


title: DNase-seq from K562 (ENCLB891PQH)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 2
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: ENCLB891PQH

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: ATCC

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


title: PRO-cap from ovary (ENCLB144KQL)

description:
https://www.encodeproject.org/experiments/ENCSR087CGY/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Ovary.
experiment encode accession: ENCSR087CGY
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB144KQL

value: ovary

value: tissue

value: GTEx

value: ENCBS142ONM at ENCODE; https://www.encodeproject.org/ENCBS142ONM/


title: PRO-cap from B cell (ENCLB213OIG)

description:
https://www.encodeproject.org/experiments/ENCSR083AMN/
***************
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 B cells.
experiment encode accession: ENCSR083AMN
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB213OIG

value: B cell

value: primary cell

value: not collected

value: unknown

value: Haiyuan Yu, Cornell

value: Remi J. Creusot

value: ENCBS047VKV at ENCODE; https://www.encodeproject.org/ENCBS047VKV/


title: DNase-seq from K562 (ENCLB524AFZ)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 43
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: ENCLB524AFZ

value: female

value: adult

value: John Stamatoyannopoulos, UW

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


title: Flow-FISH CRISPR screen from THP-1 (ENCLB419OAS)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 2
technical replicate number: 3
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB419OAS
size range: 200-210

source_name: Homo sapiens THP-1 cell line genetically modified (insertion) using transduction, genetically modified using CRISPRi (sgRNA)

value: cell line

value: male

value: acute monocytic leukemia

value: child

value: 1 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS961FQK at ENCODE; https://www.encodeproject.org/ENCBS961FQK/


title: proliferation CRISPR screen from K562 (ENCLB016HLB)

description:
https://www.encodeproject.org/experiments/ENCSR077WEU/
***************
biological replicate number: 2
technical replicate number: 1
description: CRISPR screen targeting candidate CREs following survival
experiment encode accession: ENCSR077WEU
assay title: proliferation CRISPR screen
assembly: GRCh38
possible controls: ENCSR048GGL
encode release date: 2021-08-30
lab: Yin Shen, UCSF
library encode accession: ENCLB016HLB

source_name: Homo sapiens K562 cell line genetically modified (insertion) using transduction (low MOI), genetically modified using CRISPR cutting (sgRNA) 14 days after the sample was treated with Puromycin

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Yin Shen, UCSF

value: ENCBS892SNM at ENCODE; https://www.encodeproject.org/ENCBS892SNM/


title: DNase-seq from K562 (ENCLB221TGR)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 17
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: ENCLB221TGR

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


title: proliferation CRISPR screen from K562 (ENCLB871HGX)

description:
https://www.encodeproject.org/experiments/ENCSR077WEU/
***************
biological replicate number: 1
technical replicate number: 1
description: CRISPR screen targeting candidate CREs following survival
experiment encode accession: ENCSR077WEU
assay title: proliferation CRISPR screen
assembly: GRCh38
possible controls: ENCSR048GGL
encode release date: 2021-08-30
lab: Yin Shen, UCSF
library encode accession: ENCLB871HGX

value: female

value: ENCBS501PJO at ENCODE; https://www.encodeproject.org/ENCBS501PJO/


title: DNase-seq from K562 (ENCLB359OYX)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 48
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: ENCLB359OYX

value: adult

value: John Stamatoyannopoulos, UW

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


title: long read scRNA-seq from adrenal gland (ENCLB813QQB)

description:
https://www.encodeproject.org/experiments/ENCSR399GDY/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P25 male normal 2k
experiment encode accession: ENCSR399GDY
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB813QQB
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

organism: Mus musculus

source_name: Mus musculus strain B6CASTF1/J male postnatal (25 days) adrenal gland tissue nuclear fraction

value: adrenal gland

value: tissue

tag: description

value: B6/Cast F1 adrenal P25 male 2

value: male

value: postnatal

value: 25 day

value: Ali Mortazavi, UCI

tag: subcellular fraction term name

value: nucleus

value: The Jackson Laboratory

value: ENCBS683KKF at ENCODE; https://www.encodeproject.org/ENCBS683KKF/

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


title: Flow-FISH CRISPR screen from THP-1 (ENCLB203TTR)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB203TTR
size range: 200-210

value: cell line

value: acute monocytic leukemia

value: child

value: 1 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS961FQK at ENCODE; https://www.encodeproject.org/ENCBS961FQK/


title: PRO-cap from tibial nerve (ENCLB976VSD)

description:
https://www.encodeproject.org/experiments/ENCSR077MAX/
***************
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 Tibial nerve.
experiment encode accession: ENCSR077MAX
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB976VSD

source_name: Homo sapiens male adult (37 years) tibial nerve tissue

value: tibial nerve

value: tissue

value: adult

value: 37 year

value: Haiyuan Yu, Cornell

value: GTEx

value: ENCBS970NUD at ENCODE; https://www.encodeproject.org/ENCBS970NUD/


title: Flow-FISH CRISPR screen from THP-1 (ENCLB309IVI)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB309IVI
size range: 200-210

value: male


title: DNase-seq from K562 (ENCLB966AFW)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 10
technical replicate number: 8
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB966AFW

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ENCBS831YDU at ENCODE; https://www.encodeproject.org/ENCBS831YDU/


title: DNase-seq from K562 (ENCLB532HZD)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 6
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB532HZD

value: cell line

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


title: long read scRNA-seq from adrenal gland (ENCLB628AKL)

description:
https://www.encodeproject.org/experiments/ENCSR399GDY/
***************
biological replicate number: 1
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P25 male normal 2k
experiment encode accession: ENCSR399GDY
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB628AKL
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

value: adrenal gland

value: B6/Cast F1 adrenal P25 male 1

value: postnatal

value: 25 day

value: Ali Mortazavi, UCI

value: nucleus

value: The Jackson Laboratory

value: ENCBS826WGQ at ENCODE; https://www.encodeproject.org/ENCBS826WGQ/

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


title: Flow-FISH CRISPR screen from THP-1 (ENCLB588FQR)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 1
technical replicate number: 4
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB588FQR
size range: 200-210

value: male

value: acute monocytic leukemia

value: child

value: 1 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS505UNG at ENCODE; https://www.encodeproject.org/ENCBS505UNG/


title: PRO-cap from tibial nerve (ENCLB106OTI)

description:
https://www.encodeproject.org/experiments/ENCSR077MAX/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Tibial nerve.
experiment encode accession: ENCSR077MAX
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB106OTI

value: tibial nerve

value: tissue

value: adult

value: 37 year

value: Haiyuan Yu, Cornell

value: GTEx

value: ENCBS970NUD at ENCODE; https://www.encodeproject.org/ENCBS970NUD/


title: Flow-FISH CRISPR screen from THP-1 (ENCLB105FBQ)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB105FBQ
size range: 200-210

value: cell line


title: long read scRNA-seq from adrenal gland (ENCLB991IRI)

description:
https://www.encodeproject.org/experiments/ENCSR598DOS/
***************
biological replicate number: 1
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P2mo female normal 2k
experiment encode accession: ENCSR598DOS
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB991IRI
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J female adult (2 months) adrenal gland tissue nuclear fraction

value: adrenal gland

value: B6/Cast F1 adrenal P2mo female 1

value: female

value: 2 month

value: Ali Mortazavi, UCI

value: nucleus

value: The Jackson Laboratory

value: ENCBS194GJK at ENCODE; https://www.encodeproject.org/ENCBS194GJK/


title: Flow-FISH CRISPR screen from THP-1 (ENCLB384CSO)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 2
technical replicate number: 4
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB384CSO
size range: 200-210

value: male

value: acute monocytic leukemia

value: child

value: 1 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS961FQK at ENCODE; https://www.encodeproject.org/ENCBS961FQK/


title: long read scRNA-seq from layer of hippocampus (ENCLB632FJF)

description:
https://www.encodeproject.org/experiments/ENCSR355VSY/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 hippocampus P14 male normal 2k
experiment encode accession: ENCSR355VSY
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB632FJF
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J male postnatal (14 days) layer of hippocampus tissue nuclear fraction

value: layer of hippocampus

value: tissue

value: B6/Cast F1 hippocampus P14 male 2

value: postnatal

value: 14 day

value: ENCBS013DIR at ENCODE; https://www.encodeproject.org/ENCBS013DIR/

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


title: DNase-seq from K562 (ENCLB720NCE)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
technical replicate number: 13
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB720NCE

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: John Stamatoyannopoulos, UW

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


title: DNase-seq from K562 (ENCLB679YSO)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 56
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: ENCLB679YSO


title: DNase-seq from K562 (ENCLB665GXR)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 50
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: ENCLB665GXR

value: ENCBS983TWO at ENCODE; https://www.encodeproject.org/ENCBS983TWO/


title: Flow-FISH CRISPR screen from THP-1 (ENCLB348FDR)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB348FDR
size range: 200-210

value: male

value: acute monocytic leukemia

value: child

value: 1 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS505UNG at ENCODE; https://www.encodeproject.org/ENCBS505UNG/


title: Flow-FISH CRISPR screen from THP-1 (ENCLB103QHE)

description:
https://www.encodeproject.org/experiments/ENCSR050KOD/
***************
biological replicate number: 1
technical replicate number: 3
description:
experiment encode accession: ENCSR050KOD
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2022-07-11
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB103QHE
size range: 200-210


title: long read scRNA-seq from adrenal gland (ENCLB418XFQ)

description:
https://www.encodeproject.org/experiments/ENCSR598DOS/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P2mo female normal 2k
experiment encode accession: ENCSR598DOS
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB418XFQ
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

value: adrenal gland

value: tissue

value: B6/Cast F1 adrenal P2mo female 2

value: 2 month

value: Ali Mortazavi, UCI

value: nucleus

value: The Jackson Laboratory

value: ENCBS266BTE at ENCODE; https://www.encodeproject.org/ENCBS266BTE/


title: long read scRNA-seq from layer of hippocampus (ENCLB023UQB)

description:
https://www.encodeproject.org/experiments/ENCSR355VSY/
***************
biological replicate number: 1
technical replicate number: 1
description: PacBio long-read B6/Cast F1 hippocampus P14 male normal 2k
experiment encode accession: ENCSR355VSY
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB023UQB
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

value: layer of hippocampus

value: B6/Cast F1 hippocampus P14 male 1

value: postnatal

value: 14 day

value: ENCBS857GBI at ENCODE; https://www.encodeproject.org/ENCBS857GBI/

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


title: Control CRISPR screen from glutamatergic neuron (ENCLB508SXP)

description:
https://www.encodeproject.org/experiments/ENCSR072YHQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR072YHQ
assay title: Control CRISPR screen
assembly: GRCh38
encode release date: 2022-07-19
lab: Yin Shen, UCSF
library encode accession: ENCLB508SXP

source_name: Homo sapiens male adult (30 years) glutamatergic neuron in vitro differentiated cells genetically modified (insertion) using CRISPR (pgRNA) targeting H. sapiens MECP2, genetically modified (insertion) using transduction, genetically modified using...

value: glutamatergic neuron

value: in vitro differentiated cells

value: male

value: adult

value: 30 year

value: Yin Shen, UCSF

value: Li Gan

value: ENCBS047KHK at ENCODE; https://www.encodeproject.org/ENCBS047KHK/


title: Control CRISPR screen from glutamatergic neuron (ENCLB259EAR)

description:
https://www.encodeproject.org/experiments/ENCSR072YHQ/
***************
biological replicate number: 2
technical replicate number: 2
description:
experiment encode accession: ENCSR072YHQ
assay title: Control CRISPR screen
assembly: GRCh38
encode release date: 2022-07-19
lab: Yin Shen, UCSF
library encode accession: ENCLB259EAR

value: ENCBS358TAG at ENCODE; https://www.encodeproject.org/ENCBS358TAG/


title: DNase-seq from K562 (ENCLB255MUN)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 45
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: ENCLB255MUN

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ATCC

value: ENCBS664YJR at ENCODE; https://www.encodeproject.org/ENCBS664YJR/


title: long read scRNA-seq from adrenal gland (ENCLB774HHJ)

description:
https://www.encodeproject.org/experiments/ENCSR497PUD/
***************
biological replicate number: 1
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P2mo male normal 2k
experiment encode accession: ENCSR497PUD
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB774HHJ
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J male adult (2 months) adrenal gland tissue nuclear fraction

value: adrenal gland

value: tissue

value: B6/Cast F1 adrenal P2mo male 1

value: 2 month

value: Ali Mortazavi, UCI

value: nucleus

value: The Jackson Laboratory

value: ENCBS709OTD at ENCODE; https://www.encodeproject.org/ENCBS709OTD/

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


title: DNase-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB049LHN)

description:
https://www.encodeproject.org/experiments/ENCSR049EWR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR049EWR
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-19
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB049LHN

source_name: Homo sapiens male adult (42 years) activated naive CD4-positive, alpha-beta T primary cell

value: primary cell

value: male

value: adult

value: 42 year

value: AllCells

value: ENCBS411WEM at ENCODE; https://www.encodeproject.org/ENCBS411WEM/


title: DNase-seq from K562 (ENCLB462JXM)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 103
technical replicate number: 16
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB462JXM

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: John Stamatoyannopoulos, UW

value: ATCC

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


title: PRO-cap from liver (ENCLB414RCO)

description:
https://www.encodeproject.org/experiments/ENCSR072JHG/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Liver.
experiment encode accession: ENCSR072JHG
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB414RCO

source_name: Homo sapiens female adult (71 years) liver tissue

value: liver

value: tissue

value: 71 year

value: Haiyuan Yu, Cornell

value: CHTN

value: ENCBS527CMP at ENCODE; https://www.encodeproject.org/ENCBS527CMP/


title: DNase-seq from K562 (ENCLB404YZN)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 18
technical replicate number: 8
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB404YZN

value: adult

value: ENCBS275QRX at ENCODE; https://www.encodeproject.org/ENCBS275QRX/


title: PRO-cap from liver (ENCLB298FCA)

description:
https://www.encodeproject.org/experiments/ENCSR072JHG/
***************
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 Liver.
experiment encode accession: ENCSR072JHG
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB298FCA


title: PRO-cap from Colon Carcinoma Metastatic in the Brain (ENCLB023YXU)

description:
https://www.encodeproject.org/experiments/ENCSR074XYR/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Metastatic colon cancer to brain.
experiment encode accession: ENCSR074XYR
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB023YXU

source_name: Homo sapiens male adult (50 years) Colon Carcinoma Metastatic in the Brain tissue

value: Colon Carcinoma Metastatic in the Brain

value: male

value: 50 year

value: ENCBS151VMQ at ENCODE; https://www.encodeproject.org/ENCBS151VMQ/


title: Flow-FISH CRISPR screen from K562 (ENCLB246WLV)

description:
https://www.encodeproject.org/experiments/ENCSR048WSZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR048WSZ
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB246WLV
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: Jesse Engreitz, Stanford

value: ENCBS708TTP at ENCODE; https://www.encodeproject.org/ENCBS708TTP/


title: long read scRNA-seq from adrenal gland (ENCLB851TGK)

description:
https://www.encodeproject.org/experiments/ENCSR497PUD/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P2mo male normal 2k
experiment encode accession: ENCSR497PUD
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB851TGK
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

value: adrenal gland

value: B6/Cast F1 adrenal P2mo male 2

value: 2 month

value: Ali Mortazavi, UCI

value: nucleus

value: The Jackson Laboratory

value: ENCBS606AOJ at ENCODE; https://www.encodeproject.org/ENCBS606AOJ/

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


title: long read scRNA-seq from layer of hippocampus (ENCLB981JZM)

description:
https://www.encodeproject.org/experiments/ENCSR483UXN/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 hippocampus P10 female normal 2k
experiment encode accession: ENCSR483UXN
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB981JZM
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J female postnatal (10 days) layer of hippocampus tissue nuclear fraction

value: layer of hippocampus

value: tissue

value: B6/Cast F1 hippocampus P10 female 2

value: postnatal

value: 10 day

value: ENCBS600VDJ at ENCODE; https://www.encodeproject.org/ENCBS600VDJ/


title: long read scRNA-seq from layer of hippocampus (ENCLB680FVT)

description:
https://www.encodeproject.org/experiments/ENCSR483UXN/
***************
biological replicate number: 1
technical replicate number: 1
description: PacBio long-read B6/Cast F1 hippocampus P10 female normal 2k
experiment encode accession: ENCSR483UXN
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB680FVT
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

value: B6/Cast F1 hippocampus P10 female 1

value: female

value: ENCBS830ZRU at ENCODE; https://www.encodeproject.org/ENCBS830ZRU/


title: proliferation CRISPR screen from WTC11 (ENCLB698RWF)

description:
https://www.encodeproject.org/experiments/ENCSR071ZGB/
***************
biological replicate number: 1
technical replicate number: 1
description: Cell survival-based CRISPR screen targeting genomic regions near MSH2, MSH6, MLH1, PMS2, PCNA and HPRT1 genes.
experiment encode accession: ENCSR071ZGB
assay title: proliferation CRISPR screen
assembly: GRCh38
possible controls: ENCSR250ZWC
encode release date: 2020-12-08
lab: Yin Shen, UCSF
library encode accession: ENCLB698RWF

source_name: Homo sapiens WTC11 cell line genetically modified (insertion) using transduction, genetically modified using CRISPR cutting (sgRNA) treated with 160 ng/mL tioguanine for 7 days

value: cell line

value: male

value: adult

value: 30 year

value: Yin Shen, UCSF

value: The Gladstone Stem Cell Core

value: treatment_term_id:CHEBI:9555; treatment_term_name:tioguanine; treatment_type:chemical; duration:7; duration_units:day;

value: ENCBS548ITS at ENCODE; https://www.encodeproject.org/ENCBS548ITS/


title: Flow-FISH CRISPR screen from K562 (ENCLB310UCA)

description:
https://www.encodeproject.org/experiments/ENCSR048WSZ/
***************
biological replicate number: 1
technical replicate number: 2
description:
experiment encode accession: ENCSR048WSZ
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB310UCA
size range: 200-210

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Jesse Engreitz, Stanford

value: ATCC

value: ENCBS708TTP at ENCODE; https://www.encodeproject.org/ENCBS708TTP/


title: Flow-FISH CRISPR screen from K562 (ENCLB093YDE)

description:
https://www.encodeproject.org/experiments/ENCSR048WSZ/
***************
biological replicate number: 4
technical replicate number: 3
description:
experiment encode accession: ENCSR048WSZ
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB093YDE
size range: 200-210

value: ENCBS503ZUJ at ENCODE; https://www.encodeproject.org/ENCBS503ZUJ/


title: DNase-seq from K562 (ENCLB519JDI)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 10
technical replicate number: 17
description:
experiment encode accession: ENCSR160FPV
assay title: DNase-seq
assembly: GRCh38
encode release date: 2025-09-30
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB519JDI

source_name: Homo sapiens K562 cell line

value: John Stamatoyannopoulos, UW

value: ENCBS831YDU at ENCODE; https://www.encodeproject.org/ENCBS831YDU/


title: DNase-seq from K562 (ENCLB642FYB)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 18
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: ENCLB642FYB

value: female

value: ENCBS275QRX at ENCODE; https://www.encodeproject.org/ENCBS275QRX/


title: Flow-FISH CRISPR screen from K562 (ENCLB849ELD)

description:
https://www.encodeproject.org/experiments/ENCSR048WSZ/
***************
biological replicate number: 2
technical replicate number: 1
description:
experiment encode accession: ENCSR048WSZ
assay title: Flow-FISH CRISPR screen
assembly: hg19
encode release date: 2021-01-07
lab: Jesse Engreitz, Stanford
library encode accession: ENCLB849ELD
size range: 200-210

value: cell line

value: ENCBS576UYR at ENCODE; https://www.encodeproject.org/ENCBS576UYR/


title: DNase-seq from K562 (ENCLB168MVC)

description:
https://www.encodeproject.org/experiments/ENCSR160FPV/
***************
biological replicate number: 18
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: ENCLB168MVC

value: adult


title: long read scRNA-seq from adrenal gland (ENCLB744HKE)

description:
https://www.encodeproject.org/experiments/ENCSR239HYJ/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 adrenal P4 female normal 2k
experiment encode accession: ENCSR239HYJ
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB744HKE
nucleic acid starting quantity: 42
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J female postnatal (4 days) adrenal gland tissue nuclear fraction

value: adrenal gland

value: tissue

value: B6/Cast F1 adrenal P4 female 2

value: postnatal

value: 4 day

value: Ali Mortazavi, UCI

value: nucleus

value: The Jackson Laboratory

value: ENCBS588QYH at ENCODE; https://www.encodeproject.org/ENCBS588QYH/

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


title: proliferation CRISPR screen from WTC11 (ENCLB584DGM)

description:
https://www.encodeproject.org/experiments/ENCSR071ZGB/
***************
biological replicate number: 2
technical replicate number: 1
description: Cell survival-based CRISPR screen targeting genomic regions near MSH2, MSH6, MLH1, PMS2, PCNA and HPRT1 genes.
experiment encode accession: ENCSR071ZGB
assay title: proliferation CRISPR screen
assembly: GRCh38
possible controls: ENCSR250ZWC
encode release date: 2020-12-08
lab: Yin Shen, UCSF
library encode accession: ENCLB584DGM

value: male

value: 30 year

value: Yin Shen, UCSF

value: The Gladstone Stem Cell Core

value: treatment_term_id:CHEBI:9555; treatment_term_name:tioguanine; treatment_type:chemical; duration:7; duration_units:day;

value: ENCBS760MRZ at ENCODE; https://www.encodeproject.org/ENCBS760MRZ/


title: long read scRNA-seq from layer of hippocampus (ENCLB899SDA)

description:
https://www.encodeproject.org/experiments/ENCSR232UUS/
***************
biological replicate number: 2
technical replicate number: 1
description: PacBio long-read B6/Cast F1 hippocampus P25 female normal 2k
experiment encode accession: ENCSR232UUS
assay title: long read scRNA-seq
assembly: mm10
encode release date: 2023-02-09
lab: Ali Mortazavi, UCI
library encode accession: ENCLB899SDA
nucleic acid starting quantity: 83
nucleic acid starting quantity units: cells

source_name: Mus musculus strain B6CASTF1/J female postnatal (25 days) layer of hippocampus tissue nuclear fraction

value: layer of hippocampus

value: B6/Cast F1 hippocampus P25 female 2

value: female

value: 25 day

value: ENCBS434NYG at ENCODE; https://www.encodeproject.org/ENCBS434NYG/


title: PRO-cap from cytotoxic T cell (ENCLB266ZVS)

description:
https://www.encodeproject.org/experiments/ENCSR069DQH/
***************
biological replicate number: 1
technical replicate number: 1
description: A run-on assay that precisely maps the transcription start sites genome-wide with high sensitivity and specificity in Cytotoxic T cells.
experiment encode accession: ENCSR069DQH
assay title: PRO-cap
assembly: GRCh38
encode release date: 2025-12-11
lab: Haiyuan Yu, Cornell
library encode accession: ENCLB266ZVS

source_name: Homo sapiens cytotoxic T primary cell

value: cytotoxic T cell

value: primary cell

value: not collected

value: unknown

value: Haiyuan Yu, Cornell

value: Remi J. Creusot

value: ENCBS901WDC at ENCODE; https://www.encodeproject.org/ENCBS901WDC/