title: total RNA-seq from HG03063 (ENCLB103VSC)

description:
https://www.encodeproject.org/experiments/ENCSR150EPG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR150EPG
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB103VSC
nucleic acid starting quantity: 24
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03063 cell line

value: HG03063 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: male

value: ENCBS392VYQ at ENCODE; https://www.encodeproject.org/ENCBS392VYQ/


title: total RNA-seq from HG02768 (ENCLB017GDV)

status: Public on Jul 24 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/ENCSR147SNS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR147SNS
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB017GDV
nucleic acid starting quantity: 37
nucleic acid starting quantity units: µg

library_source: transcriptomic

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

molecule: total RNA

organism: Homo sapiens

source_name: Homo sapiens HG02768 cell line

extract_protocol: not provided

tag: line

value: cell line

tag: biosample encode accession

tag: encode accession

tag: note

value: HG02768 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

tag: Sex

tag: dev stage

value: adult

tag: lab

value: Stephen Montgomery, Stanford

tag: source

value: Coriell

tag: link

value: ENCBS317LZG at ENCODE; https://www.encodeproject.org/ENCBS317LZG/


title: snATAC-seq from natural killer cell (ENCLB208DGU)

description:
https://www.encodeproject.org/experiments/ENCSR710NDM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR710NDM
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB208DGU
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

library_source: genomic

molecule: genomic DNA

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

value: natural killer cell

value: primary cell

tag: age

value: 33 year

value: Yijun Ruan, JAX

tag: subcellular fraction term name

value: nucleus

value: AllCells

value: ENCBS650RYP at ENCODE; https://www.encodeproject.org/ENCBS650RYP/

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


title: total RNA-seq from GM18873 (ENCLB502WZV)

description:
https://www.encodeproject.org/experiments/ENCSR146NXN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR146NXN
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB502WZV
nucleic acid starting quantity: 18
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM18873 cell line

tag: description

value: GM18873 LCLs; Donor from the Yoruba in Ibadan, Nigeria (YRI)

value: female

value: unknown

value: ENCBS079FBY at ENCODE; https://www.encodeproject.org/ENCBS079FBY/

value: Derived from ENCODE donor ENCDO643GCU; https://www.encodeproject.org/ENCDO643GCU/


title: Expt2_PA3

first: Meenakshi

last: Chakraborty

address: 269 Campus Drive

institute: Stanford University

description: Library name: Expt2_PA3

data_processing:
TrimGalore v0.6.10
kallisto v0.50.1
Assembly: GRCm39
Supplementary files format and content: h5 files are outputs from kallisto
Supplementary files format and content: tsv files are outputs from kallisto

organism: Mus musculus

source_name: brain

extract_protocol:
Left brain hemispheres were stored in 1ml RNAlater overnight at 4 degrees C, and then dabbed on a Kimwipe to remove excess RNAlater before transfer to a fresh tube for storage at -80 degrees C. RNA was extracted from frozen left hemispheres using a modified version of the protocol from the QIAWave RNA Mini Kit (Qiagen, Catalog #74536). See our preprint at https://doi.org/10.1101/2025.10.03.680371 for more details.
mRNA libraries were prepared by Novogene from the extracted RNA, using a polyA enrichment strategy.

tag: tissue

value: brain

tag: genotype

tag: treatment

value: PA


title: snATAC-seq from activated T-helper 2 cell (ENCLB277WFJ)

description:
https://www.encodeproject.org/experiments/ENCSR704RYV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR704RYV
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB277WFJ
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (35 years) activated T-helper 2 primary cell treated with 5 ug/mL Interferon-gamma antibody, 100 ng/mL Interleukin-4, anti-CD3 and anti-CD28 coated beads nuclear fraction

value: activated T-helper 2 cell

value: male

value: adult

value: 35 year

tag: treatments

value: treatment_term_name:Interferon-gamma antibody; treatment_type:antibody; treatment_term_id:UniProtKB:P05112; treatment_term_name:Interleukin-4; treatment_type:protein; treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody;

value: ENCBS039VRQ at ENCODE; https://www.encodeproject.org/ENCBS039VRQ/

value: Derived from ENCODE donor ENCDO374BBL; https://www.encodeproject.org/ENCDO374BBL/


title: total RNA-seq from HG03457 (ENCLB705JZT)

description:
https://www.encodeproject.org/experiments/ENCSR144CGD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR144CGD
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB705JZT
nucleic acid starting quantity: 3
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03457 cell line

value: cell line

value: HG03457 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS976WAY at ENCODE; https://www.encodeproject.org/ENCBS976WAY/

value: Derived from ENCODE donor ENCDO326JNU; https://www.encodeproject.org/ENCDO326JNU/


title: Expt2_PA4

description: Library name: Expt2_PA4


title: total RNA-seq from HG03388 (ENCLB612JPX)

description:
https://www.encodeproject.org/experiments/ENCSR140FBG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR140FBG
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB612JPX
nucleic acid starting quantity: 31
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03388 cell line

value: HG03388 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: ENCBS781KEA at ENCODE; https://www.encodeproject.org/ENCBS781KEA/


title: snATAC-seq from heart left ventricle (ENCLB573PMJ)

description:
https://www.encodeproject.org/experiments/ENCSR702ELN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR702ELN
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB573PMJ
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (30 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

value: Homo sapiens heart left ventricle tissue

tag: health state

value: healthy

value: 30 year

value: Michael Snyder, Stanford

value: Shin Lin

value: ENCBS397INF at ENCODE; https://www.encodeproject.org/ENCBS397INF/

value: Derived from ENCODE donor ENCDO751PQQ; https://www.encodeproject.org/ENCDO751PQQ/


title: Expt2_IAA1

description: Library name: Expt2_IAA1

value: brain

value: IAA


title: total RNA-seq from HG02594 (ENCLB746SVF)

description:
https://www.encodeproject.org/experiments/ENCSR139WHO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR139WHO
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB746SVF
nucleic acid starting quantity: 26
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02594 cell line

tag: line

value: cell line

value: HG02594 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: male

value: adult

value: Stephen Montgomery, Stanford

value: ENCBS515END at ENCODE; https://www.encodeproject.org/ENCBS515END/


title: total RNA-seq from GM19023 (ENCLB109DTW)

description:
https://www.encodeproject.org/experiments/ENCSR137BGK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR137BGK
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB109DTW
nucleic acid starting quantity: 24
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19023 cell line

value: GM19023 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

tag: biosample encode accession

value: female

value: unknown

value: Coriell

value: ENCBS473MKT at ENCODE; https://www.encodeproject.org/ENCBS473MKT/

value: Derived from ENCODE donor ENCDO296NPE; https://www.encodeproject.org/ENCDO296NPE/


title: Expt2_IAA2

description: Library name: Expt2_IAA2


title: snATAC-seq from heart left ventricle (ENCLB351YOQ)

description:
https://www.encodeproject.org/experiments/ENCSR701JAT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR701JAT
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-09-30
lab: Michael Snyder, Stanford
library encode accession: ENCLB351YOQ
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (65 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

value: Homo sapiens heart left ventricle tissue

value: 65 year

value: Michael Snyder, Stanford

value: Shin Lin

value: sarcoid and CAD (EF 22%, LVEDD 6.4, LVPWd 0.81)

value: ENCBS313XWX at ENCODE; https://www.encodeproject.org/ENCBS313XWX/

value: Derived from ENCODE donor ENCDO240MDH; https://www.encodeproject.org/ENCDO240MDH/


title: total RNA-seq from HG03352 (ENCLB668VSG)

description:
https://www.encodeproject.org/experiments/ENCSR136MBP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR136MBP
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB668VSG
nucleic acid starting quantity: 20
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03352 cell line

value: cell line

tag: encode accession

value: HG03352 LCLs; Donor from the Esan in Nigeria (ESN)

value: male

value: adult

value: Stephen Montgomery, Stanford

value: ENCBS165UXI at ENCODE; https://www.encodeproject.org/ENCBS165UXI/


title: Expt2_IAA3

description: Library name: Expt2_IAA3

value: brain

value: IAA


title: V141-CGND-HRA-02402-D

city: New York

first: Christopher

last: Jackson

state: NY

address: 101 Avenue of the Americas

department: Center for the Genomics of Neurodegenerative Disease

institute: New York Genome Center

description: Library name: V141-CGND-HRA-02402-D

data_processing:
Each sequenced 10X Visium library was aligned to a standard reference genome (hg38; GENCODE v32/Ensembl98) and counted with spaceranger
Assembly: hg38
Supplementary files format and content: filtered_feature_bc_matrix.h5 file contains spaceranger counts in spaceranger h5 format
Supplementary files format and content: spatial.tar file contains slide images and spot & scaling metadata from spaceranger outs/spatial
Library strategy: Spatial Transcriptomics

molecule: polyA RNA

extract_protocol:
Frozen tissue blocks, kept at -80°C prior to processing, were equilibrated to -16°C inside a Leica CM3050S cryostat, embedded in Tissue Plus OCT Compound (Fisher Healthcare, #4585), and sectioned in a perpendicular orientation with regard to the pial surface. Tissue sections (10 µm-thick) from quality controlled blocks (H&E staining and imaging) were collected onto prechilled Visium Spatial Gene Expression Slides (10X Genomics, #1000185) while briefly warming the back of the slide with a gloved finger to improve adherence and minimize artifacts.
Visium libraries were prepared using unique Illumina-compatible PCR primers with Dual Index Kit TT Set A (10X Genomics, #1000215). Size distribution profiles of the final libraries were assessed by running Agilent High Sensitivity DNA chips (#5067-4626) on a 2100 Bioanalyzer system (Agilent, #G2939BA). Libraries outside the expected range (450 ± 50 bp) or that contained adapter dimer contaminants were discarded and reprocessed. Total yields were initially measured on a Qubit 3.0 fluorometer before final qPCR quantification (KAPA Library Quantification Kit for Illumina Platforms, KAPA Biosystems, #KK4824).

tag: subject id

tag: diagnosis

value: ALS

value: M

tag: rin


title: total RNA-seq from inflammatory macrophage (ENCLB780KJY)

description:
https://www.encodeproject.org/experiments/ENCSR129JAM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR129JAM
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2026-01-26
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB780KJY
instrument models: Illumina HiSeq 2500,Illumina NextSeq 500

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

value: inflammatory macrophage

value: primary cell

tag: Sex

tag: dev stage

value: 24 year

tag: lab

value: John Stamatoyannopoulos, UW

value: Shelly Heimfeld

value: ENCBS025HIT at ENCODE; https://www.encodeproject.org/ENCBS025HIT/


title: total RNA-seq from GM21528 (ENCLB433HNL)

description:
https://www.encodeproject.org/experiments/ENCSR126XIL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR126XIL
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB433HNL
nucleic acid starting quantity: 21
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21528 cell line

value: GM21528 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

tag: age

value: unknown

tag: source

value: Coriell

tag: link

value: ENCBS619PSH at ENCODE; https://www.encodeproject.org/ENCBS619PSH/

value: Derived from ENCODE donor ENCDO095MPC; https://www.encodeproject.org/ENCDO095MPC/


title: snATAC-seq from HCT116 (ENCLB426MJA)

description:
https://www.encodeproject.org/experiments/ENCSR694GIR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR694GIR
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB426MJA
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

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

value: cell line

value: male

value: colorectal carcinoma

value: adult

value: 48 year

value: Michael Snyder, Stanford

value: Dr. Masato Kanemaki

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

value: ENCBS892LZC at ENCODE; https://www.encodeproject.org/ENCBS892LZC/

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


title: total RNA-seq from GM21421 (ENCLB044TXL)

description:
https://www.encodeproject.org/experiments/ENCSR125SOW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR125SOW
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB044TXL
nucleic acid starting quantity: 2
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21421 cell line

tag: note

value: GM21421 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: female

value: Stephen Montgomery, Stanford

value: ENCBS812OZP at ENCODE; https://www.encodeproject.org/ENCBS812OZP/


title: snATAC-seq from adrenal gland (ENCLB718TZI)

description:
https://www.encodeproject.org/experiments/ENCSR693GAD/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC on human adrenal gland. Please note that this experiment is part of 10x multiome and has a corresponding scRNA experiment (ENCSR724KET)
experiment encode accession: ENCSR693GAD
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB718TZI
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens female child (16 years) adrenal gland tissue, preserved by flash-freezing nuclear fraction

value: adrenal gland

value: tissue

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

value: child

value: 16 year

tag: subcellular fraction term name

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS565RGW at ENCODE; https://www.encodeproject.org/ENCBS565RGW/

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


title: Expt2_IAA4

description: Library name: Expt2_IAA4

tag: tissue

value: brain

tag: genotype

tag: treatment

value: IAA


title: total RNA-seq from HG03382 (ENCLB329JKJ)

description:
https://www.encodeproject.org/experiments/ENCSR124OEJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR124OEJ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB329JKJ
nucleic acid starting quantity: 24
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03382 cell line

tag: line

value: cell line

value: HG03382 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: male

value: adult

value: Coriell

value: ENCBS405GPM at ENCODE; https://www.encodeproject.org/ENCBS405GPM/


title: Expt2_GDCA1

description: Library name: Expt2_GDCA1

value: GDCA


title: total RNA-seq from inflammatory macrophage (ENCLB645NBO)

description:
https://www.encodeproject.org/experiments/ENCSR123GNM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR123GNM
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2026-01-26
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB645NBO

source_name: Homo sapiens male adult (40 years) inflammatory macrophage primary cell

value: inflammatory macrophage

value: primary cell

tag: biosample encode accession

value: 40 year

value: John Stamatoyannopoulos, UW

value: Shelly Heimfeld

value: ENCBS741TNF at ENCODE; https://www.encodeproject.org/ENCBS741TNF/


title: snATAC-seq from heart right ventricle (ENCLB675YLM)

description:
https://www.encodeproject.org/experiments/ENCSR690TAY/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human heart right ventricle
experiment encode accession: ENCSR690TAY
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB675YLM
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens male adult (55 years) heart right ventricle tissue nuclear fraction

value: heart right ventricle

value: tissue

tag: health state

value: ischemic (EF 25% LVEDD 6.9; RV normal size, moderate dysfunction)

value: 55 year

value: Michael Snyder, Stanford

value: nucleus

value: Shin Lin

value: ENCBS136SKR at ENCODE; https://www.encodeproject.org/ENCBS136SKR/

value: Derived from ENCODE donor ENCDO439CAZ; https://www.encodeproject.org/ENCDO439CAZ/


title: total RNA-seq from GM19019 (ENCLB646FST)

description:
https://www.encodeproject.org/experiments/ENCSR122LSS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR122LSS
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB646FST
nucleic acid starting quantity: 32
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19019 cell line

value: cell line

tag: encode accession

value: GM19019 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: female

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS283EYH at ENCODE; https://www.encodeproject.org/ENCBS283EYH/


title: Expt2_GDCA2

description: Library name: Expt2_GDCA2

source_name: brain

value: brain

value: GDCA


title: total RNA-seq from GM21678 (ENCLB120HJF)

description:
https://www.encodeproject.org/experiments/ENCSR121IJT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR121IJT
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB120HJF
nucleic acid starting quantity: 20
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21678 cell line

value: GM21678 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: male

value: ENCBS996NFE at ENCODE; https://www.encodeproject.org/ENCBS996NFE/


title: total RNA-seq from inflammatory macrophage (ENCLB661MRQ)

description:
https://www.encodeproject.org/experiments/ENCSR121CEH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR121CEH
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2026-01-26
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB661MRQ
instrument models: Illumina HiSeq 2500,Illumina NextSeq 500

value: inflammatory macrophage

value: primary cell

value: 24 year

value: John Stamatoyannopoulos, UW

value: Shelly Heimfeld

value: ENCBS977GUF at ENCODE; https://www.encodeproject.org/ENCBS977GUF/


title: snATAC-seq from pancreas (ENCLB940GLP)

description:
https://www.encodeproject.org/experiments/ENCSR690NZI/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding snRNA experiment (ENCSR478FQR).
experiment encode accession: ENCSR690NZI
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB940GLP
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens female adult (47 years) pancreas tissue, preserved by flash-freezing nuclear fraction

value: pancreas

value: tissue

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

value: 47 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS941NVL at ENCODE; https://www.encodeproject.org/ENCBS941NVL/

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


title: total RNA-seq from GM19025 (ENCLB868YYS)

description:
https://www.encodeproject.org/experiments/ENCSR121CVF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR121CVF
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB868YYS
nucleic acid starting quantity: 21
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19025 cell line

value: cell line

tag: description

value: GM19025 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: male

value: adult

value: unknown

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS004MHU at ENCODE; https://www.encodeproject.org/ENCBS004MHU/

value: Derived from ENCODE donor ENCDO510QZD; https://www.encodeproject.org/ENCDO510QZD/


title: snATAC-seq from fallopian tube (ENCLB938XMN)

description:
https://www.encodeproject.org/experiments/ENCSR690KGJ/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding snRNA experiment (ENCSR642GFM).
experiment encode accession: ENCSR690KGJ
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB938XMN
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens female adult (46 years) fallopian tube tissue, preserved by flash-freezing nuclear fraction

value: fallopian tube

value: tissue

value: female

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

value: 46 year

value: ENCBS768XZD at ENCODE; https://www.encodeproject.org/ENCBS768XZD/

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


title: total RNA-seq from HG03109 (ENCLB033RXK)

description:
https://www.encodeproject.org/experiments/ENCSR120DWY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR120DWY
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB033RXK
nucleic acid starting quantity: 23
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03109 cell line

value: HG03109 LCLs; Donor from the Esan in Nigeria (ESN)

value: ENCBS493YZU at ENCODE; https://www.encodeproject.org/ENCBS493YZU/


title: total RNA-seq from HG02769 (ENCLB447KVK)

description:
https://www.encodeproject.org/experiments/ENCSR119EFB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR119EFB
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB447KVK
nucleic acid starting quantity: 37
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02769 cell line

value: cell line

value: HG02769 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: ENCBS586GQZ at ENCODE; https://www.encodeproject.org/ENCBS586GQZ/


title: Expt2_GDCA3

description: Library name: Expt2_GDCA3

value: brain

value: GDCA


title: snATAC-seq from heart left ventricle (ENCLB336LJK)

description:
https://www.encodeproject.org/experiments/ENCSR686FZG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR686FZG
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB336LJK
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (44 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: Homo sapiens heart left ventricle tissue

value: male

value: healthy

value: adult

value: 44 year

value: Michael Snyder, Stanford

value: Shin Lin

value: ENCBS635FKD at ENCODE; https://www.encodeproject.org/ENCBS635FKD/

value: Derived from ENCODE donor ENCDO107KXS; https://www.encodeproject.org/ENCDO107KXS/


title: total RNA-seq from GM19468 (ENCLB653TKB)

description:
https://www.encodeproject.org/experiments/ENCSR117BGR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR117BGR
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB653TKB
nucleic acid starting quantity: 29
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19468 cell line

value: GM19468 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: female

value: unknown

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS964GOV at ENCODE; https://www.encodeproject.org/ENCBS964GOV/

value: Derived from ENCODE donor ENCDO731HIP; https://www.encodeproject.org/ENCDO731HIP/


title: snATAC-seq from heart (ENCLB896PUK)

description:
https://www.encodeproject.org/experiments/ENCSR978JAI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR978JAI
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB896PUK
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J heart tissue nuclear fraction

value: heart

value: tissue

value: not collected

value: nucleus

value: The Jackson Laboratory

value: ENCBS008VIL at ENCODE; https://www.encodeproject.org/ENCBS008VIL/

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


title: total RNA-seq from HG03449 (ENCLB004PGH)

description:
https://www.encodeproject.org/experiments/ENCSR116LRD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR116LRD
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB004PGH
nucleic acid starting quantity: 27
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03449 cell line

value: cell line

value: HG03449 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: adult

value: ENCBS654BZX at ENCODE; https://www.encodeproject.org/ENCBS654BZX/


title: snATAC-seq from heart right ventricle (ENCLB811TZS)

description:
https://www.encodeproject.org/experiments/ENCSR681OLJ/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding snRNA experiment (ENCSR258SZI).
experiment encode accession: ENCSR681OLJ
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB811TZS
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens female adult (59 years) heart right ventricle tissue, preserved by flash-freezing nuclear fraction

value: heart right ventricle

value: female

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

value: 59 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS391QZV at ENCODE; https://www.encodeproject.org/ENCBS391QZV/

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


title: MO109-CGND-HRA-03519-ATAC

description: Library name: MO109-CGND-HRA-03519-ATAC

library_source: genomic single cell

data_processing:
Sequenced 10x libraries were aligned to a standard reference genome (hg38; GENCODE v32/Ensembl98) and counted (Cellranger-ARC v2.0.2). ATAC peaks were aligned between samples for quantification (Cellranger-ARC aggr v2.0.2)
Assembly: hg38
Supplementary files format and content: atac_fragments.tsv
Supplementary files format and content: gex_molecule_info.h5
Supplementary files format and content: filtered_feature_bc_matrix.h5
Supplementary files format and content: per_barcode_metrics.csv

extract_protocol:
Nuclei isolation protocol was adapted from previously described methods (PMID: 31042697; PMID: 36385529). All procedures were carried out on ice unless otherwise stated. Frozen post-mortem brain tissue was retrieved from storage at -80 °C and equilibrated on dry ice for 20–30 minutes before being transferred to a cryostat at -18 °C. Tissue samples were left for 15–20 minutes inside the cryostat before sectioning. We collected 20-50 mg of tissue per preparation, taking care to avoid excessive sampling of white matter. Tissue cuts were placed in a pre-chilled Dounce homogenizer containing 700 µL of ice-cold homogenization buffer (320 mM sucrose, 5 mM CaCl2 [#21115; Millipore Sigma], 3 mM magnesium acetate [#63052; Millipore Sigma], 10 mM Tris HCl [pH 7.8; prepared from Thermo Fisher’s #AM9850G and #AM9855G], 0.1 mM EDTA [pH 8.0; Thermo Fisher #AM9260G], 0.1% IGEPAL CA-630 [#I8896; Millipore Sigma], 1 mM DTT [#646563, Millipore Sigma], and 0.4 U/µl Protector RNase inhibitor [#03335402001, Millipore Sigma]). Homogenization was performed with 10 strokes of the loose pestle followed by 10 strokes of the tight pestle. After a 5-minute incubation on ice, the homogenized tissue was passed through a 70-µm Flowmi Cell Strainer (Bel-Art; H13680-0070) and combined with an equal volume of a solution made of 50% OptiPrep (#07820, STEMCELL Technologies), 5 mM CaCl2, 3 mM magnesium acetate, 10 mM Tris HCl (pH 7.8), 0.1 mM EDTA (pH 8.0), and 1 mM DTT. Using a 15-mL conical tube, this mixture was then layered onto a density gradient made up of 750 µL of a 30% OptiPrep solution supplemented with 134 mM sucrose, 5 mM CaCl2, 3 mM magnesium acetate, 10 mM Tris HCl (pH 7.8), 0.1 mM EDTA (pH 8.0), 1 mM DTT, 0.04% IGEPAL CA-630, and 0.17 U µl−1 RNase inhibitor) over 300 µL of 40% OptiPrep solution supplemented with 96 mM sucrose, 5 mM CaCl2, 3 mM magnesium acetate, 10 mM Tris HCl (pH 7.8), 0.1 mM EDTA (pH 8.0), 1 mM DTT, 0.03% IGEPAL CA-630, and 0.12 U µl−1 RNase inhibitor. Nuclei were separated by centrifugation at 3,000 × g for 20 minutes at 4 °C using a pre-chilled swinging-bucket rotor with the brake off. Approximately 150 µL of nuclei were collected from the 30%/40% gradient interphase and subsequently washed in PBS containing 1% BSA and 1 U µl-1 RNase inhibitor. Following a 5-minute incubation on ice, the nuclei were centrifuged at 450 × g for 3 minutes at 4 °C, and the pellet resuspended in 15 µL of diluted 10X Genomics Nuclei Buffer. Nuclei counting was performed using a Countess II FL instrument (Thermo Fisher) by staining with SYTOX Green (ThermoFisher; S7020). Additional quality control measures included Trypan Blue staining (#EBT-001, NanoEntek) to evaluate adequate permeabilization (cutoff: >95% of ‘dead cells’) and the assessment of nuclear morphology before proceeding with transposition.
Matched snRNA-seq and snATAC-seq libraries were prepared using the Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Kit (#PN-1000283) according to the protocol provided by 10X Genomics. Nuclei (16,100 per reaction; targeted recovery: 10,000 nuclei) from a single donor were used for each library preparation. Partitioning of nuclei was performed on a Chromium X instrument (10X Genomics). Quality control of cDNAs and libraries was conducted using Agilent High Sensitivity DNA Kits and a BioAnalyzer instrument. Final library quantification prior to pooling utilized KAPA Biosystems’ Library Quantification Kit for Illumina Platforms (KK4824). Libraries were sequenced on a NovaSeq X system using a 2 × 100 bp configuration run on a 10B flow cell. BA44/45 and BA46 libraries (n = 48) were prepared and sequenced in independent batches.

value: ALS

value: M

tag: age at_death

tag: age at_symptom_onset

tag: site of_motor_onset

value: Limb


title: snATAC-seq from gastrocnemius (ENCLB579RUV)

description:
https://www.encodeproject.org/experiments/ENCSR964PUM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR964PUM
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB579RUV
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

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

value: gastrocnemius

value: tissue

value: Encode B6CastF1 2 months male #2 Gastroc

tag: Sex

value: male

tag: dev stage

value: not collected

value: 2 month

tag: lab

value: Barbara Wold, Caltech

value: nucleus

value: The Jackson Laboratory

value: ENCBS969HWV at ENCODE; https://www.encodeproject.org/ENCBS969HWV/


title: total RNA-seq from HG02571 (ENCLB736ISK)

description:
https://www.encodeproject.org/experiments/ENCSR112ZML/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR112ZML
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB736ISK
nucleic acid starting quantity: 29
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02571 cell line

value: cell line

value: HG02571 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: female

value: adult

tag: age

value: unknown

value: Stephen Montgomery, Stanford

tag: source

value: Coriell

tag: link

value: ENCBS301TDC at ENCODE; https://www.encodeproject.org/ENCBS301TDC/

value: Derived from ENCODE donor ENCDO933PKK; https://www.encodeproject.org/ENCDO933PKK/


title: total RNA-seq from GM19440 (ENCLB694CNL)

description:
https://www.encodeproject.org/experiments/ENCSR113JEX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR113JEX
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB694CNL
nucleic acid starting quantity: 37
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19440 cell line

tag: note

value: GM19440 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: ENCBS556MEA at ENCODE; https://www.encodeproject.org/ENCBS556MEA/


title: snATAC-seq from activated naive CD4-positive, alpha-beta T cell (ENCLB440PMC)

description:
https://www.encodeproject.org/experiments/ENCSR675DJV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR675DJV
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB440PMC
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens male adult (43 years) activated naive CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads nuclear fraction

value: primary cell

value: male

value: 43 year

value: Yijun Ruan, JAX

tag: subcellular fraction term name

value: AllCells

tag: treatments

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody;

value: ENCBS976DCT at ENCODE; https://www.encodeproject.org/ENCBS976DCT/

value: Derived from ENCODE donor ENCDO791UJG; https://www.encodeproject.org/ENCDO791UJG/


title: total RNA-seq from GM21826 (ENCLB315SRY)

description:
https://www.encodeproject.org/experiments/ENCSR111VVJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR111VVJ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB315SRY
nucleic acid starting quantity: 32
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21826 cell line

tag: line

value: cell line

value: GM21826 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: female

value: ENCBS662LKA at ENCODE; https://www.encodeproject.org/ENCBS662LKA/


title: snATAC-seq from left cerebral cortex (ENCLB717BVU)

description:
https://www.encodeproject.org/experiments/ENCSR931EJA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR931EJA
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB717BVU
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J female (2 months) left cerebral cortex tissue nuclear fraction

value: left cerebral cortex

value: tissue

value: Encode B6CastF1 2 months female #2 L. Cortex

tag: biosample encode accession

value: not collected

value: 2 month

value: Barbara Wold, Caltech

value: nucleus

value: The Jackson Laboratory

value: ENCBS818JSY at ENCODE; https://www.encodeproject.org/ENCBS818JSY/

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


title: total RNA-seq from HG03485 (ENCLB698GLJ)

description:
https://www.encodeproject.org/experiments/ENCSR111FCV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR111FCV
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB698GLJ
nucleic acid starting quantity: 26
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03485 cell line

value: HG03485 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS749ZSI at ENCODE; https://www.encodeproject.org/ENCBS749ZSI/


title: snATAC-seq from HCT116 (ENCLB821ZQS)

description:
https://www.encodeproject.org/experiments/ENCSR672VKC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR672VKC
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB821ZQS
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

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

value: cell line

value: male

tag: health state

value: colorectal carcinoma

value: 48 year

value: Michael Snyder, Stanford

value: Dr. Masato Kanemaki

value: ENCBS699KIZ at ENCODE; https://www.encodeproject.org/ENCBS699KIZ/

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


title: total RNA-seq from GM21308 (ENCLB175WYB)

description:
https://www.encodeproject.org/experiments/ENCSR108RIM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR108RIM
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB175WYB
nucleic acid starting quantity: 27
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21308 cell line

tag: encode accession

value: GM21308 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: female

value: ENCBS686DZL at ENCODE; https://www.encodeproject.org/ENCBS686DZL/


title: snATAC-seq from left cerebral cortex (ENCLB714JSS)

description:
https://www.encodeproject.org/experiments/ENCSR924ZXU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR924ZXU
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB714JSS
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J cerebral cortex tissue nuclear fraction

value: left cerebral cortex

value: tissue

value: not collected

value: nucleus

value: The Jackson Laboratory

value: ENCBS275KKA at ENCODE; https://www.encodeproject.org/ENCBS275KKA/

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


title: total RNA-seq from HG03366 (ENCLB293CFY)

description:
https://www.encodeproject.org/experiments/ENCSR108MUL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR108MUL
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB293CFY
nucleic acid starting quantity: 31
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03366 cell line

value: cell line

value: HG03366 LCLs; Donor from the Esan in Nigeria (ESN)

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS869PDL at ENCODE; https://www.encodeproject.org/ENCBS869PDL/


title: Control ChIP-seq from HepG2 (ENCLB431ISE)

description:
https://www.encodeproject.org/experiments/ENCSR670SEW/
***************
biological replicate number: 1
technical replicate number: 1
description: Input for HepG2 cells treated with sgRNA targeting CEBPB
experiment encode accession: ENCSR670SEW
assay title: Control ChIP-seq
encode release date: 2025-09-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB431ISE
fragmentation methods: sonication (Bioruptor Pico)
size range: 250-450

source_name: Homo sapiens HepG2 cell line genetically modified (deletion) using CRISPR targeting H. sapiens CEBPB

value: male

value: hepatocellular carcinoma

value: child

value: 15 year

value: Michael Snyder, Stanford

value: ATCC

value: ENCBS636BBW at ENCODE; https://www.encodeproject.org/ENCBS636BBW/


title: total RNA-seq from GM21515 (ENCLB153FPJ)

description:
https://www.encodeproject.org/experiments/ENCSR106YRC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR106YRC
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB153FPJ
nucleic acid starting quantity: 2
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21515 cell line

tag: description

value: GM21515 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: unknown

value: ENCBS397SLW at ENCODE; https://www.encodeproject.org/ENCBS397SLW/

value: Derived from ENCODE donor ENCDO807MEJ; https://www.encodeproject.org/ENCDO807MEJ/


title: snATAC-seq from heart left ventricle (ENCLB677BHP)

description:
https://www.encodeproject.org/experiments/ENCSR668XPI/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding snRNA experiment (ENCSR012APQ).
experiment encode accession: ENCSR668XPI
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB677BHP
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens male adult (66 years) heart left ventricle tissue, preserved by flash-freezing nuclear fraction

value: heart left ventricle

value: tissue

value: ischemic

value: 66 year

value: nucleus

value: Shin Lin

value: ENCBS056RAF at ENCODE; https://www.encodeproject.org/ENCBS056RAF/

value: Derived from ENCODE donor ENCDO529CYH; https://www.encodeproject.org/ENCDO529CYH/


title: total RNA-seq from GM19338 (ENCLB927PYJ)

description:
https://www.encodeproject.org/experiments/ENCSR103VZI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR103VZI
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB927PYJ
nucleic acid starting quantity: 28
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19338 cell line

value: cell line

value: GM19338 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: female

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS111KRT at ENCODE; https://www.encodeproject.org/ENCBS111KRT/


title: total RNA-seq from HG02702 (ENCLB338JXM)

description:
https://www.encodeproject.org/experiments/ENCSR097JPR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR097JPR
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB338JXM
nucleic acid starting quantity: 57
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02702 cell line

value: HG02702 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: male

value: ENCBS205MFE at ENCODE; https://www.encodeproject.org/ENCBS205MFE/


title: snATAC-seq from left cerebral cortex (ENCLB403XAL)

description:
https://www.encodeproject.org/experiments/ENCSR921EFB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR921EFB
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB403XAL
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J male (2 months) left cerebral cortex tissue nuclear fraction

value: left cerebral cortex

value: tissue

value: Encode B6CastF1 2 months male #2 L. Cortex

value: not collected

value: 2 month

value: Barbara Wold, Caltech

value: The Jackson Laboratory

value: ENCBS894POY at ENCODE; https://www.encodeproject.org/ENCBS894POY/

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


title: total RNA-seq from HG03168 (ENCLB354SWR)

description:
https://www.encodeproject.org/experiments/ENCSR097IXN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR097IXN
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB354SWR
nucleic acid starting quantity: 27
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03168 cell line

value: cell line

value: HG03168 LCLs; Donor from the Esan in Nigeria (ESN)

value: female

value: ENCBS582SFV at ENCODE; https://www.encodeproject.org/ENCBS582SFV/


title: snATAC-seq from layer of hippocampus (ENCLB321ZNC)

description:
https://www.encodeproject.org/experiments/ENCSR888UYM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR888UYM
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB321ZNC
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J layer of hippocampus tissue nuclear fraction

value: layer of hippocampus

value: Michael Snyder, Stanford

value: nucleus

value: ENCBS818LEG at ENCODE; https://www.encodeproject.org/ENCBS818LEG/


title: snATAC-seq from heart left ventricle (ENCLB993HNT)

description:
https://www.encodeproject.org/experiments/ENCSR657WLS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR657WLS
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-23
lab: Michael Snyder, Stanford
library encode accession: ENCLB993HNT
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (25 years) heart left ventricle tissue, preserved by flash-freezing nuclear fraction

value: heart left ventricle

value: male

value: nonischemic

value: adult

value: 25 year

value: Shin Lin

value: ENCBS477QUD at ENCODE; https://www.encodeproject.org/ENCBS477QUD/

value: Derived from ENCODE donor ENCDO189VVY; https://www.encodeproject.org/ENCDO189VVY/


title: total RNA-seq from inflammatory macrophage (ENCLB846QMK)

description:
https://www.encodeproject.org/experiments/ENCSR097FKR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR097FKR
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2026-01-26
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB846QMK

source_name: Homo sapiens male adult (21 years) inflammatory macrophage primary cell

value: inflammatory macrophage

value: primary cell

value: 21 year

value: John Stamatoyannopoulos, UW

value: Shelly Heimfeld

value: ENCBS380GTS at ENCODE; https://www.encodeproject.org/ENCBS380GTS/


title: total RNA-seq from GM21650 (ENCLB297JAW)

description:
https://www.encodeproject.org/experiments/ENCSR096XEJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR096XEJ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB297JAW
nucleic acid starting quantity: 20
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21650 cell line

value: cell line

value: GM21650 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: female

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS117DQK at ENCODE; https://www.encodeproject.org/ENCBS117DQK/


title: snATAC-seq from adrenal gland (ENCLB091RNF)

description:
https://www.encodeproject.org/experiments/ENCSR858YSB/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR858YSB
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB091RNF
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J adrenal gland tissue, preserved by flash-freezing nuclear fraction

value: adrenal gland

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: nucleus

value: The Jackson Laboratory

value: ENCBS084MKW at ENCODE; https://www.encodeproject.org/ENCBS084MKW/

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


title: snATAC-seq from kidney (ENCLB817ELL)

description:
https://www.encodeproject.org/experiments/ENCSR643EOZ/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human kidney
experiment encode accession: ENCSR643EOZ
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB817ELL
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens female adult (47 years) kidney tissue, preserved by cryopreservation nuclear fraction

value: kidney

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

value: adult

value: 47 year

value: Yiing Lin, MD, PhD

value: ENCBS328HFD at ENCODE; https://www.encodeproject.org/ENCBS328HFD/

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


title: total RNA-seq from GM21304 (ENCLB849MGA)

description:
https://www.encodeproject.org/experiments/ENCSR095WQC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR095WQC
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB849MGA
nucleic acid starting quantity: 32
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21304 cell line

value: cell line

value: GM21304 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: male

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS976WAN at ENCODE; https://www.encodeproject.org/ENCBS976WAN/


title: snATAC-seq from heart (ENCLB991DDS)

description:
https://www.encodeproject.org/experiments/ENCSR847HTC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR847HTC
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB991DDS
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J heart tissue nuclear fraction

value: heart

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: nucleus

value: ENCBS556ZMG at ENCODE; https://www.encodeproject.org/ENCBS556ZMG/


title: total RNA-seq from HG02982 (ENCLB107KFH)

description:
https://www.encodeproject.org/experiments/ENCSR095BUO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR095BUO
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB107KFH
nucleic acid starting quantity: 36
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02982 cell line

value: HG02982 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: adult

value: ENCBS197FXO at ENCODE; https://www.encodeproject.org/ENCBS197FXO/


title: total RNA-seq from GM18907 (ENCLB680EPR)

description:
https://www.encodeproject.org/experiments/ENCSR094BAF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR094BAF
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB680EPR
nucleic acid starting quantity: 28
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM18907 cell line

value: GM18907 LCLs; Donor from the Yoruba in Ibadan, Nigeria (YRI)

value: female

value: unknown

value: ENCBS165WPY at ENCODE; https://www.encodeproject.org/ENCBS165WPY/

value: Derived from ENCODE donor ENCDO002IGY; https://www.encodeproject.org/ENCDO002IGY/


title: snATAC-seq from adrenal gland (ENCLB464IHK)

description:
https://www.encodeproject.org/experiments/ENCSR834NRP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR834NRP
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB464IHK
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

value: adrenal gland

value: The Jackson Laboratory

value: ENCBS577ZNJ at ENCODE; https://www.encodeproject.org/ENCBS577ZNJ/

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


title: snATAC-seq from heart left ventricle (ENCLB265AAI)

description:
https://www.encodeproject.org/experiments/ENCSR642ZIC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR642ZIC
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB265AAI
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (66 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

value: Homo sapiens heart left ventricle tissue

value: male

value: ischemic (EF 24%, LVEDD 6.4)

value: 66 year

value: Shin Lin

value: ENCBS937SHK at ENCODE; https://www.encodeproject.org/ENCBS937SHK/

value: Derived from ENCODE donor ENCDO308XYT; https://www.encodeproject.org/ENCDO308XYT/


title: snATAC-seq from esophagus mucosa (ENCLB483RSX)

description:
https://www.encodeproject.org/experiments/ENCSR639HAJ/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human esophagus mucosa
experiment encode accession: ENCSR639HAJ
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-23
lab: Michael Snyder, Stanford
library encode accession: ENCLB483RSX
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens female adult (47 years) esophagus mucosa tissue, preserved by flash-freezing nuclear fraction

value: esophagus mucosa

value: female

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

value: adult

value: 47 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS517RHY at ENCODE; https://www.encodeproject.org/ENCBS517RHY/

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


title: total RNA-seq from HG03199 (ENCLB252DLO)

description:
https://www.encodeproject.org/experiments/ENCSR093TPC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR093TPC
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB252DLO
nucleic acid starting quantity: 25
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03199 cell line

value: cell line

value: HG03199 LCLs; Donor from the Esan in Nigeria (ESN)

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS410FUN at ENCODE; https://www.encodeproject.org/ENCBS410FUN/


title: total RNA-seq from HG03572 (ENCLB867WHN)

description:
https://www.encodeproject.org/experiments/ENCSR090UCN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR090UCN
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB867WHN
nucleic acid starting quantity: 20
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03572 cell line

value: HG03572 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: ENCBS567TQF at ENCODE; https://www.encodeproject.org/ENCBS567TQF/


title: snATAC-seq from layer of hippocampus (ENCLB114NFA)

description:
https://www.encodeproject.org/experiments/ENCSR826NKW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR826NKW
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB114NFA
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J layer of hippocampus tissue, preserved by flash-freezing nuclear fraction

value: layer of hippocampus

value: tissue

value: not collected

value: The Jackson Laboratory

value: ENCBS192DDF at ENCODE; https://www.encodeproject.org/ENCBS192DDF/

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


title: snATAC-seq from GM12878 (ENCLB366NJA)

description:
https://www.encodeproject.org/experiments/ENCSR635OKA/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human cell line GM12878
experiment encode accession: ENCSR635OKA
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB366NJA
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens GM12878 cell line nuclear fraction

value: female

value: unknown

value: adult

value: Michael Snyder, Stanford

value: nucleus

value: ATCC

value: ENCBS076KMC at ENCODE; https://www.encodeproject.org/ENCBS076KMC/

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


title: total RNA-seq from HG03055 (ENCLB262RUT)

description:
https://www.encodeproject.org/experiments/ENCSR090IOW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR090IOW
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB262RUT
nucleic acid starting quantity: 28
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03055 cell line

value: cell line

value: HG03055 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS559AZF at ENCODE; https://www.encodeproject.org/ENCBS559AZF/


title: total RNA-seq from HG02836 (ENCLB783NYK)

description:
https://www.encodeproject.org/experiments/ENCSR089IOS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR089IOS
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB783NYK
nucleic acid starting quantity: 40
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02836 cell line

value: HG02836 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: male

value: ENCBS655PBZ at ENCODE; https://www.encodeproject.org/ENCBS655PBZ/


title: snATAC-seq from left cerebral cortex (ENCLB169ECR)

description:
https://www.encodeproject.org/experiments/ENCSR761TEQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR761TEQ
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB169ECR
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J male (2 months) left cerebral cortex tissue nuclear fraction

value: left cerebral cortex

value: tissue

value: Encode B6CastF1 2 months male #1 L. Cortex

value: not collected

value: 2 month

value: Barbara Wold, Caltech

value: The Jackson Laboratory

value: ENCBS180GAM at ENCODE; https://www.encodeproject.org/ENCBS180GAM/

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


title: total RNA-seq from HG02974 (ENCLB437APN)

description:
https://www.encodeproject.org/experiments/ENCSR088NYJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR088NYJ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB437APN
nucleic acid starting quantity: 31
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02974 cell line

value: cell line

value: HG02974 LCLs; Donor from the Esan in Nigeria (ESN)

value: female

value: adult

value: ENCBS485HJC at ENCODE; https://www.encodeproject.org/ENCBS485HJC/


title: snATAC-seq from right lobe of liver (ENCLB206CXZ)

description:
https://www.encodeproject.org/experiments/ENCSR630YEA/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding snRNA experiment (ENCSR367YUX).
experiment encode accession: ENCSR630YEA
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB206CXZ
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

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

value: right lobe of liver

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

value: 47 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS375LMS at ENCODE; https://www.encodeproject.org/ENCBS375LMS/

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


title: total RNA-seq from HG03247 (ENCLB693LHC)

description:
https://www.encodeproject.org/experiments/ENCSR087SMP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR087SMP
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB693LHC
nucleic acid starting quantity: 33
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03247 cell line

value: HG03247 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS282XAT at ENCODE; https://www.encodeproject.org/ENCBS282XAT/


title: snATAC-seq from adrenal gland (ENCLB768FAU)

description:
https://www.encodeproject.org/experiments/ENCSR736ABS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR736ABS
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB768FAU
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J adrenal gland tissue, preserved by flash-freezing nuclear fraction

value: adrenal gland

value: tissue

value: not collected

value: The Jackson Laboratory

value: ENCBS825FEU at ENCODE; https://www.encodeproject.org/ENCBS825FEU/

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


title: snATAC-seq from Right ventricle myocardium inferior (ENCLB831CLY)

description:
https://www.encodeproject.org/experiments/ENCSR628POB/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC on human right ventricle myocardium inferior. Please note that this experiment is part of 10x multiome and has a corresponding scRNA experiment (ENCSR151ONW)
experiment encode accession: ENCSR628POB
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB831CLY
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000
spikeins used: Illumina PhiX sequencing control

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

value: Right ventricle myocardium inferior

value: male

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

value: adult

value: 60 year

value: ENCBS397MLS at ENCODE; https://www.encodeproject.org/ENCBS397MLS/

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


title: total RNA-seq from HG02620 (ENCLB924ULF)

description:
https://www.encodeproject.org/experiments/ENCSR085ZNJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR085ZNJ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB924ULF
nucleic acid starting quantity: 36
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02620 cell line

value: cell line

value: HG02620 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: ENCBS252MES at ENCODE; https://www.encodeproject.org/ENCBS252MES/


title: snATAC-seq from heart (ENCLB062XKX)

description:
https://www.encodeproject.org/experiments/ENCSR727ZZE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR727ZZE
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB062XKX
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J heart tissue nuclear fraction

value: heart

value: Michael Snyder, Stanford

value: nucleus

value: ENCBS815YOH at ENCODE; https://www.encodeproject.org/ENCBS815YOH/


title: total RNA-seq from GM21635 (ENCLB743BUN)

description:
https://www.encodeproject.org/experiments/ENCSR085SBJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR085SBJ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB743BUN
nucleic acid starting quantity: 36
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21635 cell line

value: GM21635 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: female

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS417LTN at ENCODE; https://www.encodeproject.org/ENCBS417LTN/


title: total RNA-seq from HG02890 (ENCLB885GFE)

description:
https://www.encodeproject.org/experiments/ENCSR085NEA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR085NEA
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB885GFE
nucleic acid starting quantity: 34
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02890 cell line

value: HG02890 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: male

value: ENCBS710VOW at ENCODE; https://www.encodeproject.org/ENCBS710VOW/


title: snATAC-seq from activated CD4-positive, alpha-beta T cell (ENCLB634QSS)

description:
https://www.encodeproject.org/experiments/ENCSR628NXO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR628NXO
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB634QSS
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens male adult (20 years) activated CD4-positive, alpha-beta T primary cell treated with anti-CD3 and anti-CD28 coated beads nuclear fraction

value: primary cell

value: adult

value: 20 year

value: Yijun Ruan, JAX

value: AllCells

value: treatment_term_name:anti-CD3 and anti-CD28 coated beads; treatment_type:antibody;

value: ENCBS197YVN at ENCODE; https://www.encodeproject.org/ENCBS197YVN/

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


title: total RNA-seq from HG02983 (ENCLB476RVG)

description:
https://www.encodeproject.org/experiments/ENCSR083WME/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR083WME
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB476RVG
nucleic acid starting quantity: 24
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02983 cell line

value: cell line

value: HG02983 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: ENCBS977NML at ENCODE; https://www.encodeproject.org/ENCBS977NML/


title: snATAC-seq from heart (ENCLB381GLK)

description:
https://www.encodeproject.org/experiments/ENCSR714PLQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR714PLQ
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB381GLK
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

value: heart

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: nucleus

value: The Jackson Laboratory

value: ENCBS799OFC at ENCODE; https://www.encodeproject.org/ENCBS799OFC/

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


title: total RNA-seq from HG02971 (ENCLB733HTU)

description:
https://www.encodeproject.org/experiments/ENCSR082TWO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR082TWO
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB733HTU
nucleic acid starting quantity: 30
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02971 cell line

value: HG02971 LCLs; Donor from the Esan in Nigeria (ESN)

value: male

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS447PVS at ENCODE; https://www.encodeproject.org/ENCBS447PVS/


title: snATAC-seq from heart left ventricle (ENCLB026XLD)

description:
https://www.encodeproject.org/experiments/ENCSR627IOJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR627IOJ
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB026XLD
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (41 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: Homo sapiens heart left ventricle tissue

value: healthy

value: 41 year

value: Shin Lin

value: ENCBS835HEM at ENCODE; https://www.encodeproject.org/ENCBS835HEM/

value: Derived from ENCODE donor ENCDO182VFD; https://www.encodeproject.org/ENCDO182VFD/


title: total RNA-seq from GM19448 (ENCLB372YJG)

description:
https://www.encodeproject.org/experiments/ENCSR080ZWV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR080ZWV
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB372YJG
nucleic acid starting quantity: 22
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19448 cell line

value: cell line

value: GM19448 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: ENCBS885XSJ at ENCODE; https://www.encodeproject.org/ENCBS885XSJ/


title: total RNA-seq from GM18865 (ENCLB393WSD)

description:
https://www.encodeproject.org/experiments/ENCSR079VGX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR079VGX
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB393WSD
nucleic acid starting quantity: 22
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM18865 cell line

value: GM18865 LCLs; Donor from the Yoruba in Ibadan, Nigeria (YRI)

value: ENCBS210ZDS at ENCODE; https://www.encodeproject.org/ENCBS210ZDS/


title: snATAC-seq from A549 (ENCLB195NBW)

description:
https://www.encodeproject.org/experiments/ENCSR624OTN/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human cell line A549
experiment encode accession: ENCSR624OTN
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB195NBW
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens A549 cell line nuclear fraction

value: male

value: 58 year

value: Michael Snyder, Stanford

value: nucleus

value: ATCC

value: ENCBS408QES at ENCODE; https://www.encodeproject.org/ENCBS408QES/

value: Derived from ENCODE donor ENCDO000AAZ; https://www.encodeproject.org/ENCDO000AAZ/


title: total RNA-seq from HG03575 (ENCLB307FVP)

description:
https://www.encodeproject.org/experiments/ENCSR076ZTH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR076ZTH
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB307FVP
nucleic acid starting quantity: 28
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03575 cell line

value: HG03575 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: female

value: adult

value: unknown

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS935YBK at ENCODE; https://www.encodeproject.org/ENCBS935YBK/

value: Derived from ENCODE donor ENCDO378IEH; https://www.encodeproject.org/ENCDO378IEH/


title: snATAC-seq from heart left ventricle (ENCLB349MXX)

description:
https://www.encodeproject.org/experiments/ENCSR617IKC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR617IKC
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB349MXX
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens male adult (58 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

value: Homo sapiens heart left ventricle tissue

value: healthy

value: Shin Lin

value: ENCBS554YCY at ENCODE; https://www.encodeproject.org/ENCBS554YCY/

value: Derived from ENCODE donor ENCDO971VRE; https://www.encodeproject.org/ENCDO971VRE/


title: snATAC-seq from heart (ENCLB852PLZ)

description:
https://www.encodeproject.org/experiments/ENCSR692IEP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR692IEP
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB852PLZ
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

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

value: heart

value: Encode B6CastF1 2 months female #1 Heart

value: not collected

value: 2 month

value: Barbara Wold, Caltech

value: nucleus

value: The Jackson Laboratory

value: ENCBS834GBM at ENCODE; https://www.encodeproject.org/ENCBS834GBM/

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


title: snATAC-seq from adrenal gland (ENCLB347LBP)

description:
https://www.encodeproject.org/experiments/ENCSR713FPX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR713FPX
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB347LBP
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

value: adrenal gland

value: Michael Snyder, Stanford

value: ENCBS238PJP at ENCODE; https://www.encodeproject.org/ENCBS238PJP/


title: total RNA-seq from HG03556 (ENCLB547LBD)

description:
https://www.encodeproject.org/experiments/ENCSR074UEU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR074UEU
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB547LBD
nucleic acid starting quantity: 37
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03556 cell line

value: cell line

value: HG03556 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: male

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS066VHR at ENCODE; https://www.encodeproject.org/ENCBS066VHR/


title: snATAC-seq from layer of hippocampus (ENCLB842AYU)

description:
https://www.encodeproject.org/experiments/ENCSR672YNE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR672YNE
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB842AYU
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J layer of hippocampus tissue, preserved by flash-freezing nuclear fraction

value: layer of hippocampus

value: tissue

value: not collected

value: ENCBS841ZQP at ENCODE; https://www.encodeproject.org/ENCBS841ZQP/


title: total RNA-seq from GM21520 (ENCLB511TBN)

description:
https://www.encodeproject.org/experiments/ENCSR074IYA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR074IYA
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB511TBN
nucleic acid starting quantity: 28
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21520 cell line

value: GM21520 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: ENCBS033FYX at ENCODE; https://www.encodeproject.org/ENCBS033FYX/


title: snATAC-seq from heart right ventricle (ENCLB877ZUI)

description:
https://www.encodeproject.org/experiments/ENCSR615TSN/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human heart right ventricle
experiment encode accession: ENCSR615TSN
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB877ZUI
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens embryo (80 days) liver tissue

value: heart right ventricle

value: Homo sapiens female adult (56 years) heart right ventricle tissue nuclear fraction

value: female

value: PGD

value: 56 year

value: nucleus

value: Shin Lin

value: ENCBS001YDX at ENCODE; https://www.encodeproject.org/ENCBS001YDX/

value: Derived from ENCODE donor ENCDO907YUG; https://www.encodeproject.org/ENCDO907YUG/


title: total RNA-seq from HG02946 (ENCLB188KTN)

description:
https://www.encodeproject.org/experiments/ENCSR079FJT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR079FJT
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB188KTN
nucleic acid starting quantity: 50
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02946 cell line

value: cell line

value: HG02946 LCLs; Donor from the Esan in Nigeria (ESN)

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS799UNE at ENCODE; https://www.encodeproject.org/ENCBS799UNE/


title: total RNA-seq from HG02461 (ENCLB379LKV)

description:
https://www.encodeproject.org/experiments/ENCSR073YWU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR073YWU
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB379LKV
nucleic acid starting quantity: 40
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02461 cell line

value: HG02461 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: male

value: ENCBS777CNJ at ENCODE; https://www.encodeproject.org/ENCBS777CNJ/


title: snATAC-seq from adrenal gland (ENCLB281UVX)

description:
https://www.encodeproject.org/experiments/ENCSR668VPD/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR668VPD
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB281UVX
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J adrenal gland tissue nuclear fraction

value: adrenal gland

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: The Jackson Laboratory

value: ENCBS669LEM at ENCODE; https://www.encodeproject.org/ENCBS669LEM/

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


title: total RNA-seq from GM18523 (ENCLB918FTO)

description:
https://www.encodeproject.org/experiments/ENCSR073PJT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR073PJT
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB918FTO
nucleic acid starting quantity: 24
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM18523 cell line

value: GM18523 LCLs; Donor from the Yoruba in Ibadan, Nigeria (YRI)

value: female

value: ENCBS165MMT at ENCODE; https://www.encodeproject.org/ENCBS165MMT/


title: snATAC-seq from SK-N-SH (ENCLB585JCW)

description:
https://www.encodeproject.org/experiments/ENCSR615PXV/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human cell line SK-N-SH
experiment encode accession: ENCSR615PXV
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB585JCW
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens SK-N-SH cell line treated with 6 uM all-trans-retinoic acid for 48 hours nuclear fraction

value: SK-N-SH

value: cell line

value: Metastatic neuroblastoma from bone marrow

value: child

value: 4 year

value: nucleus

value: ATCC

value: treatment_term_id:CHEBI:15367; treatment_term_name:all-trans-retinoic acid; treatment_type:chemical; duration:48; duration_units:hour;

value: ENCBS600PUX at ENCODE; https://www.encodeproject.org/ENCBS600PUX/

value: Derived from ENCODE donor ENCDO000ABD; https://www.encodeproject.org/ENCDO000ABD/


title: snATAC-seq from left cerebral cortex (ENCLB184ZJQ)

description:
https://www.encodeproject.org/experiments/ENCSR657LRM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR657LRM
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB184ZJQ
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J cerebral cortex tissue nuclear fraction

value: left cerebral cortex

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: ENCBS512ZAC at ENCODE; https://www.encodeproject.org/ENCBS512ZAC/


title: total RNA-seq from CD14-positive monocyte (ENCLB900SXD)

description:
https://www.encodeproject.org/experiments/ENCSR072WBA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR072WBA
assay title: total RNA-seq
assembly: GRCh38
encode release date: 2026-01-26
lab: John Stamatoyannopoulos, UW
library encode accession: ENCLB900SXD

source_name: Homo sapiens male adult (40 years) CD14-positive monocyte primary cell

value: CD14-positive monocyte

value: primary cell

value: male

value: adult

value: 40 year

value: John Stamatoyannopoulos, UW

value: Shelly Heimfeld

value: ENCBS101FUX at ENCODE; https://www.encodeproject.org/ENCBS101FUX/


title: snATAC-seq from right cardiac atrium (ENCLB096SWN)

description:
https://www.encodeproject.org/experiments/ENCSR607OJR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR607OJR
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-23
lab: Michael Snyder, Stanford
library encode accession: ENCLB096SWN
fragmentation methods: chemical (Tn5 transposase)
size range: 150-1000

source_name: Homo sapiens male adult (60 years) right cardiac atrium tissue, preserved by flash-freezing nuclear fraction

value: right cardiac atrium

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

value: 60 year

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS137FZY at ENCODE; https://www.encodeproject.org/ENCBS137FZY/

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


title: total RNA-seq from HG03084 (ENCLB735JMM)

description:
https://www.encodeproject.org/experiments/ENCSR068IPN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR068IPN
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB735JMM
nucleic acid starting quantity: 30
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03084 cell line

value: cell line

value: HG03084 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS767FZD at ENCODE; https://www.encodeproject.org/ENCBS767FZD/


title: total RNA-seq from GM19319 (ENCLB534VYC)

description:
https://www.encodeproject.org/experiments/ENCSR068RYG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR068RYG
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB534VYC
nucleic acid starting quantity: 36
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM19319 cell line

value: GM19319 LCLs; Donor from the Luhya in Webuye, Kenya (LWK)

value: male

value: adult

value: ENCBS990TCG at ENCODE; https://www.encodeproject.org/ENCBS990TCG/


title: snATAC-seq from gastrocnemius (ENCLB838UJX)

description:
https://www.encodeproject.org/experiments/ENCSR634YIW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR634YIW
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB838UJX
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J gastrocnemius tissue nuclear fraction

value: gastrocnemius

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: The Jackson Laboratory

value: ENCBS342SAO at ENCODE; https://www.encodeproject.org/ENCBS342SAO/

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


title: total RNA-seq from HG03380 (ENCLB071KEG)

description:
https://www.encodeproject.org/experiments/ENCSR065ZHU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR065ZHU
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB071KEG
nucleic acid starting quantity: 48
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG03380 cell line

value: HG03380 LCLs; Donor from the Mende in Sierra Leone (MSL)

value: female

value: ENCBS309NMN at ENCODE; https://www.encodeproject.org/ENCBS309NMN/


title: snATAC-seq from left lung (ENCLB642NXW)

description:
https://www.encodeproject.org/experiments/ENCSR606VJQ/
***************
biological replicate number: 1
technical replicate number: 1
description: scATAC-seq on human left lung
experiment encode accession: ENCSR606VJQ
assay title: snATAC-seq
assembly: GRCh38
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB642NXW
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Homo sapiens female child (16 years) left lung tissue, preserved by cryopreservation nuclear fraction

value: left lung

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

value: child

value: 16 year

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS248BKB at ENCODE; https://www.encodeproject.org/ENCBS248BKB/

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


title: total RNA-seq from HG02879 (ENCLB652WRS)

description:
https://www.encodeproject.org/experiments/ENCSR065HUM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR065HUM
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB652WRS
nucleic acid starting quantity: 29
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02879 cell line

value: cell line

value: HG02879 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: adult

value: Stephen Montgomery, Stanford

value: Coriell

value: ENCBS225HVZ at ENCODE; https://www.encodeproject.org/ENCBS225HVZ/


title: snATAC-seq from layer of hippocampus (ENCLB243ISZ)

description:
https://www.encodeproject.org/experiments/ENCSR568LCP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR568LCP
assay title: snATAC-seq
assembly: mm10
encode release date: 2022-03-16
lab: Michael Snyder, Stanford
library encode accession: ENCLB243ISZ
fragmentation methods: chemical (Tn5 transposase)
size range: 200-7000

source_name: Mus musculus strain B6CASTF1/J layer of hippocampus tissue, preserved by flash-freezing nuclear fraction

value: layer of hippocampus

value: tissue

value: not collected

value: Michael Snyder, Stanford

value: The Jackson Laboratory

value: ENCBS545IYY at ENCODE; https://www.encodeproject.org/ENCBS545IYY/

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


title: total RNA-seq from GM21451 (ENCLB434XDO)

description:
https://www.encodeproject.org/experiments/ENCSR065DHQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR065DHQ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB434XDO
nucleic acid starting quantity: 29
nucleic acid starting quantity units: µg

source_name: Homo sapiens GM21451 cell line

value: GM21451 LCLs; Donor from the Maasai in Kinyawa, Kenya (MKK)

value: female

value: ENCBS259MSY at ENCODE; https://www.encodeproject.org/ENCBS259MSY/


title: total RNA-seq from HG02573 (ENCLB786SPV)

description:
https://www.encodeproject.org/experiments/ENCSR064ABZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR064ABZ
assay title: total RNA-seq
encode release date: 2026-05-12
lab: Stephen Montgomery, Stanford
library encode accession: ENCLB786SPV
nucleic acid starting quantity: 33
nucleic acid starting quantity units: µg

source_name: Homo sapiens HG02573 cell line

value: HG02573 LCLs; Donor from the Gambian in Western Divisions in the Gambia (GWD)

value: male

value: ENCBS568FPC at ENCODE; https://www.encodeproject.org/ENCBS568FPC/