title: Control eCLIP from K562 (ENCLB247MAV)

description:
https://www.encodeproject.org/experiments/ENCSR816TOM/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against DDX43
experiment encode accession: ENCSR816TOM
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB247MAV
fragmentation methods: see document
size range: 175-300

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: CRISPR-Cas9-low-2

status: Public on Jan 14 2025

type: SRA

city: Tianjin

first: Shuai

last: Li

state: Tianjin

address: Huanhuxi Road

country: China

institute: Tianjin Tumor Hospital

description: Library name: CRISPR-Cas9-low-2

library_source: genomic

data_processing:
Clean reads were obtained by filtering out low-quality sequences and subsequently merged using FLASH software (v1.2.11).
In-house Perl scripts were developed to analyze the library sequences.
Supplementary files format and content: Tab-delimited text files. Column 1 (TIS sequence): This column contains the unique translation initiation site (TIS) sequences identified in our analysis. Column 2 (read count): This column indicates the number of sequencing reads.

molecule: genomic DNA

organism: Homo sapiens

growth_protocol: The HEK293T cell line (American Type Culture Collection, ATCC, USA) is cultured in Dulbecco's Modified Eagle Medium (DMEM) (Thermo Fisher Scientific, USA) supplemented with 10% Fetal Bovine Serum (FBS) (Corning, USA) and 1% Penicillin-Streptomycin Solution (Thermo Fisher Scientific, USA), and maintained in an incubator at 37°C with 5% CO2.

extract_protocol:
Genomic DNA was extracted with the TaKaRa MiniBEST Universal Genomic DNA Extraction Kit (TaKaRa, Japan). Library sequences were amplified using high-fidelity KOD-Plus-Neo DNA polymerase (TOYOBO, Japan). For each library, the number of PCR cycles has been determined to ensure that the amplification is in the exponential phase.
Library construction and high-throughput sequencing were performed by Novogene (China). The PCR products were processed for sequencing library preparation using the NEBNext Ultra II FS DNA PCR-free Library Prep Kit for Illumina (NEB, USA), following the High Inputs (100–500 ng) protocol.

treatment_protocol: HEK293T cells were seeded into 10 cm dishes one day before transfection (60-70% confluency). Using Lipofectamine 2000 (Thermo Fisher Scientific, USA), 6 μg of the dsDNA-assembly-PCR library and 6 μg of the px330-sgAAVS1 plasmid or hyPBase plasmid were co-transfected into HEK293T cells. Forty-eight hours post-transfection, the cell culture medium was supplemented with 2 μg/ml puromycin (Selleck Chemicals, USA) to select for cells with stable library integration. The selection process was maintained for a minimum of 10 days.

tag: cell type


title: CRISPR-Cas9-low-1

description: Library name: CRISPR-Cas9-low-1


title: IVF_mi699a-5p_scRNA-seq_A3

city: Odense

first: Jan

middle: Wilhelm

last: Kornfeld

address: Campusbej 50

department: Biochemistry and Molecular Biology

country: Denmark

institute: University of Southern Denmark

library_source: transcriptomic single cell

data_processing:
Sequencing reads were aligned to the mouse reference genome from Gencode (vM25) using STAR aligner and gene features were counted by using featureCountsv (2.0.3).
Assembly: GRCm38.p6
Supplementary files format and content: tab-delimited text files includes raw reads for each sample.
Supplementary files format and content: tab-delimited text files includes RPKM values for each sample.

molecule: total RNA

organism: Mus musculus

growth_protocol: MicroRNA microinjected zygotes were kept until 8-cell-stage and then disassociated for further sequencing.

extract_protocol:
Custom-made Smart-seq2 protocol was implemented as before.
RNA libraries for scRNA-seq were prepared using Dual-indexed Illumina Nextera XT sequencing librarie kit.

treatment_protocol: Zygote were microinjected with miR-let-7d/e, mi699a-5p or negative control.

tag: tissue

tag: mouse id

value: blastomeres

tag: genotype

value: WT

tag: strain

tag: treatment


title: CRISPR-Cas9-medium-4

description: Library name: CRISPR-Cas9-medium-4


title: CRISPR-Cas9-medium-3

description: Library name: CRISPR-Cas9-medium-3


title: Control eCLIP from K562 (ENCLB712KAX)

city: Stanford

first: ENCODE

last: DCC

state: CA

address: 300 Pasteur Dr

country: USA

institute: ENCODE DCC

description:
https://www.encodeproject.org/experiments/ENCSR816TOM/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against DDX43
experiment encode accession: ENCSR816TOM
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB712KAX
fragmentation methods: see document
size range: 175-300

library_source: transcriptomic

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

source_name: Homo sapiens K562 cell line

tag: line

value: cell line

tag: biosample encode accession

tag: Sex

value: female

tag: health state

value: chronic myelogenous leukemia (CML)

tag: dev stage

value: adult

tag: age

value: 53 year

tag: passage number

tag: lab

value: Gene Yeo, UCSD

tag: source

value: ATCC

tag: collection date

value: not applicable

tag: geographic location

tag: link

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: IVF_mi699a-5p_scRNA-seq_A2

tag: tissue

tag: cell type


title: Control eCLIP from K562 (ENCLB416LNL)

description:
https://www.encodeproject.org/experiments/ENCSR344GAQ/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against EEF2
experiment encode accession: ENCSR344GAQ
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-09-12
lab: Gene Yeo, UCSD
library encode accession: ENCLB416LNL
fragmentation methods: see document
size range: 175-300

value: ENCBS344MAK at ENCODE; https://www.encodeproject.org/ENCBS344MAK/

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


title: CRISPR-Cas9-medium-1

description: Library name: CRISPR-Cas9-medium-1


title: Control eCLIP from K562 (ENCLB793WJR)

description:
https://www.encodeproject.org/experiments/ENCSR585TQT/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against POLR2G
experiment encode accession: ENCSR585TQT
assay title: Control eCLIP
assembly: GRCh38, hg19
encode release date: 2017-11-28
lab: Gene Yeo, UCSD
library encode accession: ENCLB793WJR
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 immortalized cell line

value: ENCBS931MQO at ENCODE; https://www.encodeproject.org/ENCBS931MQO/


title: eCLIP from HepG2 (ENCLB548OUS)

description:
https://www.encodeproject.org/experiments/ENCSR379GZS/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on HepG2 against NSUN2
experiment encode accession: ENCSR379GZS
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR293CFE
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB548OUS
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens HepG2 cell line

tag: antibody

value: male

value: hepatocellular carcinoma

value: child

value: 15 year

value: ENCBS859DVG at ENCODE; https://www.encodeproject.org/ENCBS859DVG/


title: CRISPR-Cas9-medium-2

description: Library name: CRISPR-Cas9-medium-2


title: CRISPR-Cas9-high-3

description: Library name: CRISPR-Cas9-high-3


title: IVF_Let7e_scRNA-seq_H3

tag: mouse id

value: blastomeres

tag: genotype

value: WT

tag: strain


title: IVF_mi699a-5p_scRNA-seq_A1

tag: treatment


title: CRISPR-Cas9-high-1

description: Library name: CRISPR-Cas9-high-1


title: Control eCLIP from K562 (ENCLB764EDZ)

description:
https://www.encodeproject.org/experiments/ENCSR344GAQ/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against EEF2
experiment encode accession: ENCSR344GAQ
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-09-12
lab: Gene Yeo, UCSD
library encode accession: ENCLB764EDZ
fragmentation methods: see document
size range: 175-300

tag: line

value: cell line

tag: biosample encode accession

tag: Sex

value: female

value: chronic myelogenous leukemia (CML)

value: ENCBS177POD at ENCODE; https://www.encodeproject.org/ENCBS177POD/


title: IVF_Let7e_scRNA-seq_H2


title: CRISPR-Cas9-ultra high-4

description: Library name: CRISPR-Cas9-ultra high-4


title: CRISPR-Cas9-ultra high-3

description: Library name: CRISPR-Cas9-ultra high-3


title: Control eCLIP from K562 (ENCLB542ABH)

description:
https://www.encodeproject.org/experiments/ENCSR567ZND/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against RPS24
experiment encode accession: ENCSR567ZND
assay title: Control eCLIP
assembly: GRCh38, hg19
encode release date: 2017-11-28
lab: Gene Yeo, UCSD
library encode accession: ENCLB542ABH
fragmentation methods: see document
size range: 175-300

tag: dev stage

value: adult

tag: age

value: 53 year

tag: health state

value: Gene Yeo, UCSD

value: ENCBS318IMK at ENCODE; https://www.encodeproject.org/ENCBS318IMK/

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: CRISPR-Cas9-ultra high-2

description: Library name: CRISPR-Cas9-ultra high-2


title: CRISPR-Cas9-ultra high-1

description: Library name: CRISPR-Cas9-ultra high-1


title: IVF_Let7e_scRNA-seq_G3


title: CRISPR-Cas9-background-4

description: Library name: CRISPR-Cas9-background-4


title: Control eCLIP from K562 (ENCLB826VGA)

description:
https://www.encodeproject.org/experiments/ENCSR561QXJ/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against DDX1
experiment encode accession: ENCSR561QXJ
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-02-03
lab: Gene Yeo, UCSD
library encode accession: ENCLB826VGA
fragmentation methods: see document
size range: 175-300

tag: passage number

tag: lab

tag: source

value: ATCC

value: not applicable

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: CRISPR-Cas9-background-3

description: Library name: CRISPR-Cas9-background-3


title: IVF_Let7e_scRNA-seq_G2


title: Control eCLIP from K562 (ENCLB873ZDL)

description:
https://www.encodeproject.org/experiments/ENCSR561QXJ/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against DDX1
experiment encode accession: ENCSR561QXJ
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-02-03
lab: Gene Yeo, UCSD
library encode accession: ENCLB873ZDL
fragmentation methods: see document
size range: 175-300

tag: link

value: ENCBS505ILK at ENCODE; https://www.encodeproject.org/ENCBS505ILK/

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


title: CRISPR-Cas9-background-2

description: Library name: CRISPR-Cas9-background-2


title: Control eCLIP from K562 (ENCLB159WWB)

description:
https://www.encodeproject.org/experiments/ENCSR327BBW/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against ELAVL1
experiment encode accession: ENCSR327BBW
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB159WWB
fragmentation methods: see document
size range: 175-300

tag: collection date

tag: geographic location


title: CRISPR-Cas9-background-1

description: Library name: CRISPR-Cas9-background-1

tag: cell type


title: CRISPR-Cas9-high-4

description: Library name: CRISPR-Cas9-high-4


title: IVF_Let7e_scRNA-seq_G1

tag: tissue

tag: mouse id

value: blastomeres


title: Control eCLIP from K562 (ENCLB655LUQ)

description:
https://www.encodeproject.org/experiments/ENCSR327BBW/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against ELAVL1
experiment encode accession: ENCSR327BBW
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB655LUQ
fragmentation methods: see document
size range: 175-300

value: ENCBS344MAK at ENCODE; https://www.encodeproject.org/ENCBS344MAK/


title: snRNA-seq from heart left ventricle (ENCLB555STO)

description:
https://www.encodeproject.org/experiments/ENCSR991LHO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR991LHO
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB555STO
size range: 300-600

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

value: heart left ventricle

value: tissue

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: ischemic (EF 5%)

value: 65 year

value: Michael Snyder, Stanford

value: Shin Lin

value: ENCBS198GNK at ENCODE; https://www.encodeproject.org/ENCBS198GNK/

value: Derived from ENCODE donor ENCDO187SDN; https://www.encodeproject.org/ENCDO187SDN/


title: snRNA-seq from heart left ventricle (ENCLB414SND)

description:
https://www.encodeproject.org/experiments/ENCSR994VEG/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR994VEG
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB414SND
size range: 300-600

source_name: Homo sapiens female adult (51 years) heart left ventricle tissue, preserved by flash-freezing

value: female

value: healthy

value: adult

value: 51 year

value: ENCBS303DQG at ENCODE; https://www.encodeproject.org/ENCBS303DQG/

value: Derived from ENCODE donor ENCDO068KYD; https://www.encodeproject.org/ENCDO068KYD/


title: IVF_Let7e_scRNA-seq_F3

value: blastomeres

tag: genotype

value: WT

tag: strain

tag: treatment


title: CRISPR-Cas9-high-2

description: Library name: CRISPR-Cas9-high-2


title: Control eCLIP from K562 (ENCLB652BNW)

description:
https://www.encodeproject.org/experiments/ENCSR325HDY/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against FXR2
experiment encode accession: ENCSR325HDY
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB652BNW
fragmentation methods: see document
size range: 175-300

tag: line

value: cell line

tag: biosample encode accession

tag: Sex

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Gene Yeo, UCSD

value: ATCC

value: not applicable

value: ENCBS177POD at ENCODE; https://www.encodeproject.org/ENCBS177POD/


title: IVF_Let7e_scRNA-seq_H1


title: snRNA-seq from left lung (ENCLB061STU)

description:
https://www.encodeproject.org/experiments/ENCSR966DDY/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR816NWE).
experiment encode accession: ENCSR966DDY
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB061STU
fragmentation methods: none
size range: 150-1000

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

value: left lung

value: tissue

tag: health state

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

tag: dev stage

value: child

tag: age

value: 16 year

value: Michael Snyder, Stanford

tag: subcellular fraction term name

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS517LMU at ENCODE; https://www.encodeproject.org/ENCBS517LMU/

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


title: snRNA-seq from ureter (ENCLB196FUF)

description:
https://www.encodeproject.org/experiments/ENCSR964JZN/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR964JZN
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB196FUF
fragmentation methods: none
size range: 300-800

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

value: ureter

value: female

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

value: adult

value: 47 year

tag: lab

tag: source

tag: link

value: ENCBS779XQT at ENCODE; https://www.encodeproject.org/ENCBS779XQT/

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


title: Control eCLIP from K562 (ENCLB133TCR)

description:
https://www.encodeproject.org/experiments/ENCSR325HDY/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against FXR2
experiment encode accession: ENCSR325HDY
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB133TCR
fragmentation methods: see document
size range: 175-300

value: cell line

value: 53 year

value: chronic myelogenous leukemia (CML)

tag: passage number

value: Gene Yeo, UCSD

value: ENCBS039CVO at ENCODE; https://www.encodeproject.org/ENCBS039CVO/

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

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: IVF_Let7e_scRNA-seq_F1

tag: tissue

tag: cell type

value: blastomeres

value: WT


title: snRNA-seq from heart left ventricle (ENCLB845QWH)

description:
https://www.encodeproject.org/experiments/ENCSR962JKS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR962JKS
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB845QWH
size range: 300-600

source_name: Homo sapiens male adult (21 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: healthy

value: 21 year

value: Michael Snyder, Stanford

value: Shin Lin

value: ENCBS107FQC at ENCODE; https://www.encodeproject.org/ENCBS107FQC/

value: Derived from ENCODE donor ENCDO934DRK; https://www.encodeproject.org/ENCDO934DRK/


title: snRNA-seq from heart left ventricle (ENCLB032OPR)

description:
https://www.encodeproject.org/experiments/ENCSR980OCK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR980OCK
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-08-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB032OPR
size range: 300-600

source_name: Homo sapiens female adult (47 years) heart left ventricle tissue, preserved by flash-freezing

value: female

value: adult

value: 47 year

value: ENCBS546CBA at ENCODE; https://www.encodeproject.org/ENCBS546CBA/

value: Derived from ENCODE donor ENCDO280SCV; https://www.encodeproject.org/ENCDO280SCV/


title: IVF_Let7e_scRNA-seq_F2

tag: mouse id

value: blastomeres

tag: genotype


title: eCLIP from K562 (ENCLB509JKW)

description:
https://www.encodeproject.org/experiments/ENCSR321PWZ/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against SRSF1
experiment encode accession: ENCSR321PWZ
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR961NOR
encode release date: 2022-12-17
lab: Gene Yeo, UCSD
library encode accession: ENCLB509JKW
fragmentation methods: see document
size range: 175-300

tag: antibody

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Gene Yeo, UCSD

value: ATCC

value: ENCBS344MAK at ENCODE; https://www.encodeproject.org/ENCBS344MAK/

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


title: IVF_Let7e_scRNA-seq_E2

value: WT

tag: strain

tag: treatment


title: snRNA-seq from right cardiac atrium (ENCLB123ZDT)

description:
https://www.encodeproject.org/experiments/ENCSR943HBF/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR943HBF
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB123ZDT
fragmentation methods: none
size range: 150-1000

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

value: right cardiac atrium

value: tissue

tag: biosample encode accession

tag: Sex

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

value: 59 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS757KBR at ENCODE; https://www.encodeproject.org/ENCBS757KBR/

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


title: IVF_Let7e_scRNA-seq_E3

value: blastomeres


title: snRNA-seq from heart left ventricle (ENCLB452QHE)

description:
https://www.encodeproject.org/experiments/ENCSR919ENI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR919ENI
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-09-30
lab: Michael Snyder, Stanford
library encode accession: ENCLB452QHE
size range: 300-600

source_name: Homo sapiens male adult (51 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: Homo sapiens heart left ventricle tissue

value: male

tag: dev stage

value: adult

value: 51 year

value: Shin Lin

tag: health state

value: LMNA-related dilated cardiomyopathy (EF 27.9%, LVEDD 6.1, LVPWd 1.3)

value: ENCBS631QFV at ENCODE; https://www.encodeproject.org/ENCBS631QFV/

value: Derived from ENCODE donor ENCDO098ZMW; https://www.encodeproject.org/ENCDO098ZMW/


title: snRNA-seq from heart left ventricle (ENCLB907NAX)

description:
https://www.encodeproject.org/experiments/ENCSR899GYX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR899GYX
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB907NAX
size range: 300-600

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

value: tissue

value: ischemic (EF 30%, LVEDD 5.8)

tag: age

value: 58 year

value: ENCBS352UMO at ENCODE; https://www.encodeproject.org/ENCBS352UMO/

value: Derived from ENCODE donor ENCDO545EJY; https://www.encodeproject.org/ENCDO545EJY/


title: snRNA-seq from ovary (ENCLB418IDT)

description:
https://www.encodeproject.org/experiments/ENCSR938CZJ/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR197GLE).
experiment encode accession: ENCSR938CZJ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB418IDT
fragmentation methods: none
size range: 300-800

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

value: ovary

value: female

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

value: 46 year

tag: lab

value: Michael Snyder, Stanford

tag: subcellular fraction term name

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS857ABX at ENCODE; https://www.encodeproject.org/ENCBS857ABX/

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


title: snRNA-seq from heart left ventricle (ENCLB140VOU)

description:
https://www.encodeproject.org/experiments/ENCSR906MRL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR906MRL
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB140VOU
size range: 300-600

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

tag: source

value: Shin Lin

tag: link

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

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


title: Control eCLIP from K562 (ENCLB111DUO)

description:
https://www.encodeproject.org/experiments/ENCSR546JKS/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against ADAT1
experiment encode accession: ENCSR546JKS
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB111DUO
fragmentation methods: see document
size range: 175-300

tag: line

value: cell line

value: female

value: 53 year

value: chronic myelogenous leukemia (CML)

tag: passage number

value: Gene Yeo, UCSD

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: IVF_Let7e_scRNA-seq_E1

tag: tissue

tag: cell type

value: blastomeres

value: WT


title: snRNA-seq from ovary (ENCLB179BOW)

description:
https://www.encodeproject.org/experiments/ENCSR876EUH/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR876EUH
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB179BOW
fragmentation methods: none
size range: 150-1000

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

value: ovary

value: tissue

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

value: child

value: 16 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS510IAV at ENCODE; https://www.encodeproject.org/ENCBS510IAV/

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


title: Control eCLIP from K562 (ENCLB169TEE)

description:
https://www.encodeproject.org/experiments/ENCSR546JKS/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against ADAT1
experiment encode accession: ENCSR546JKS
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB169TEE
fragmentation methods: see document
size range: 175-300

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: adult

value: 53 year

value: Gene Yeo, UCSD

value: ATCC

tag: collection date

value: not applicable

tag: geographic location

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: IVF_Let7e_scRNA-seq_D2

tag: mouse id

value: blastomeres

tag: genotype

value: WT

tag: strain


title: snRNA-seq from heart left ventricle (ENCLB487ULG)

description:
https://www.encodeproject.org/experiments/ENCSR851JBE/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR851JBE
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-09-30
lab: Michael Snyder, Stanford
library encode accession: ENCLB487ULG
size range: 300-600

source_name: Homo sapiens male adult (63 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

tag: description

value: Homo sapiens heart left ventricle tissue

tag: biosample encode accession

tag: Sex

value: male

value: 63 year

value: Shin Lin

value: sarcoid (EF 23%, LVEDD 5.7, LVPWd:0.68)

value: ENCBS853VCN at ENCODE; https://www.encodeproject.org/ENCBS853VCN/

value: Derived from ENCODE donor ENCDO208BPU; https://www.encodeproject.org/ENCDO208BPU/


title: IVF_Let7e_scRNA-seq_D1

tag: treatment


title: snRNA-seq from heart left ventricle (ENCLB366ZFV)

description:
https://www.encodeproject.org/experiments/ENCSR814LMX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR814LMX
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-08-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB366ZFV
size range: 300-600

source_name: Homo sapiens male adult (31 years) heart left ventricle tissue, preserved by flash-freezing

tag: dev stage

value: adult

tag: age

value: 31 year

tag: lab

value: Michael Snyder, Stanford

tag: health state

value: healthy

value: ENCBS505KRY at ENCODE; https://www.encodeproject.org/ENCBS505KRY/

value: Derived from ENCODE donor ENCDO862XAV; https://www.encodeproject.org/ENCDO862XAV/


title: Control eCLIP from K562 (ENCLB236HON)

description:
https://www.encodeproject.org/experiments/ENCSR545KBT/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against ELAC2
experiment encode accession: ENCSR545KBT
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB236HON
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 cell line

tag: line

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Gene Yeo, UCSD

tag: source

value: ATCC

value: not applicable

tag: link

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: snRNA-seq from liver (ENCLB401UMP)

description:
https://www.encodeproject.org/experiments/ENCSR807BYQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR807BYQ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2023-03-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB401UMP
size range: 300-600

source_name: Homo sapiens male adult (31 years) liver tissue, preserved by flash-freezing nuclear fraction

value: liver

value: tissue

tag: note

value: Homo sapiens liver tissue?

value: male

tag: subcellular fraction term name

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS856BWW at ENCODE; https://www.encodeproject.org/ENCBS856BWW/


title: Control eCLIP from K562 (ENCLB593SRW)

description:
https://www.encodeproject.org/experiments/ENCSR545KBT/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against ELAC2
experiment encode accession: ENCSR545KBT
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB593SRW
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 immortalized cell line

value: adult

tag: passage number

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: IVF_Let7e_scRNA-seq_C2

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

value: WT


title: snRNA-seq from liver (ENCLB054SXC)

description:
https://www.encodeproject.org/experiments/ENCSR955TRT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR955TRT
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2023-03-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB054SXC
size range: 300-600

source_name: Homo sapiens female adult (33 years) liver tissue, preserved by flash-freezing nuclear fraction

value: female

value: healthy

value: 33 year

value: Michael Snyder, Stanford

tag: collection date

tag: geographic location

value: ENCBS748WBD at ENCODE; https://www.encodeproject.org/ENCBS748WBD/


title: IVF_Let7e_scRNA-seq_C1

tag: genotype

tag: strain


title: Control eCLIP from K562 (ENCLB534XBO)

description:
https://www.encodeproject.org/experiments/ENCSR790SPV/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against MORC2
experiment encode accession: ENCSR790SPV
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB534XBO
fragmentation methods: see document
size range: 175-300

value: cell line

tag: biosample encode accession

tag: dev stage

tag: Sex

value: 53 year

value: chronic myelogenous leukemia (CML)

value: Gene Yeo, UCSD


title: snRNA-seq from placenta (ENCLB701RZY)

description:
https://www.encodeproject.org/experiments/ENCSR789PLK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR789PLK
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB701RZY
size range: 300-800

source_name: Homo sapiens male embryo placenta tissue nuclear fraction

value: placenta

value: tissue

value: male

value: embryonic

tag: age

value: not collected

tag: lab

value: John Stamatoyannopoulos, UW

value: nucleus

value: John Stamatoyannopoulos

value: ENCBS241ZXP at ENCODE; https://www.encodeproject.org/ENCBS241ZXP/

value: Derived from ENCODE donor ENCDO384FEJ; https://www.encodeproject.org/ENCDO384FEJ/


title: eCLIP from K562 (ENCLB605NRG)

description:
https://www.encodeproject.org/experiments/ENCSR321PWZ/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against SRSF1
experiment encode accession: ENCSR321PWZ
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR961NOR
encode release date: 2022-12-17
lab: Gene Yeo, UCSD
library encode accession: ENCLB605NRG
fragmentation methods: see document
size range: 175-300

tag: antibody

tag: line

value: female

tag: health state

value: adult

tag: source

value: ATCC

value: not applicable

value: ENCBS177POD at ENCODE; https://www.encodeproject.org/ENCBS177POD/


title: snRNA-seq from heart left ventricle (ENCLB900EOL)

description:
https://www.encodeproject.org/experiments/ENCSR788SNY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR788SNY
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB900EOL
size range: 300-600

source_name: Homo sapiens male adult (68 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

tag: description

value: Homo sapiens heart left ventricle tissue

value: ischemic (EF 35%, LVEDD mild enlargement)

value: 68 year

value: Michael Snyder, Stanford

value: Shin Lin

tag: link

value: ENCBS519OPS at ENCODE; https://www.encodeproject.org/ENCBS519OPS/

value: Derived from ENCODE donor ENCDO076AMT; https://www.encodeproject.org/ENCDO076AMT/


title: snRNA-seq from heart left ventricle (ENCLB296LDF)

description:
https://www.encodeproject.org/experiments/ENCSR801DHT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR801DHT
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB296LDF
fragmentation methods: none
size range: 300-800

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

value: tissue

value: male

value: nonischemic

value: 41 year

tag: subcellular fraction term name

value: nucleus

value: ENCBS041JJC at ENCODE; https://www.encodeproject.org/ENCBS041JJC/

value: Derived from ENCODE donor ENCDO216BMM; https://www.encodeproject.org/ENCDO216BMM/


title: IVF_Let7e_scRNA-seq_B3

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

value: WT

tag: treatment


title: snRNA-seq from heart left ventricle (ENCLB258LQF)

description:
https://www.encodeproject.org/experiments/ENCSR777RUZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR777RUZ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-09-30
lab: Michael Snyder, Stanford
library encode accession: ENCLB258LQF
size range: 300-600

source_name: Homo sapiens male adult (62 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: adult

value: 62 year

value: viral->sarcoid (EF 15%, LVEDD 5.8, LVPWd 0.79)

value: ENCBS315KVT at ENCODE; https://www.encodeproject.org/ENCBS315KVT/

value: Derived from ENCODE donor ENCDO768WUT; https://www.encodeproject.org/ENCDO768WUT/


title: Control eCLIP from K562 (ENCLB384AYR)

description:
https://www.encodeproject.org/experiments/ENCSR790SPV/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against MORC2
experiment encode accession: ENCSR790SPV
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB384AYR
fragmentation methods: see document
size range: 175-300

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

tag: passage number

value: Gene Yeo, UCSD

value: ATCC

tag: collection date

value: not applicable

tag: geographic location

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: snRNA-seq from bile duct (ENCLB812SMT)

description:
https://www.encodeproject.org/experiments/ENCSR769KWM/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR769KWM
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB812SMT
fragmentation methods: none
size range: 300-800

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

value: bile duct

value: tissue

tag: biosample encode accession

tag: Sex

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

tag: dev stage

value: 47 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS335IVP at ENCODE; https://www.encodeproject.org/ENCBS335IVP/

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


title: IVF_Let7e_scRNA-seq_B2

value: blastomeres

tag: genotype

value: WT

tag: strain


title: snRNA-seq from heart left ventricle (ENCLB888MGZ)

description:
https://www.encodeproject.org/experiments/ENCSR763BII/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR763BII
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB888MGZ
size range: 300-600

source_name: Homo sapiens female adult (42 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: Homo sapiens heart left ventricle tissue

value: female

tag: health state

value: nonischemic (EF 29%, LVEDD 7.2)

value: adult

tag: age

value: 42 year

tag: lab

value: Shin Lin

value: ENCBS528MOI at ENCODE; https://www.encodeproject.org/ENCBS528MOI/

value: Derived from ENCODE donor ENCDO423HZU; https://www.encodeproject.org/ENCDO423HZU/


title: eCLIP from K562 (ENCLB131HXR)

description:
https://www.encodeproject.org/experiments/ENCSR521GON/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against EXOSC10
experiment encode accession: ENCSR521GON
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR481MVN
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB131HXR
fragmentation methods: see document
size range: 175-300

tag: antibody

tag: line

value: cell line

value: 53 year

value: chronic myelogenous leukemia (CML)

value: Gene Yeo, UCSD

tag: link

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: snRNA-seq from uterus (ENCLB455UTN)

description:
https://www.encodeproject.org/experiments/ENCSR762LZV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR762LZV
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB455UTN
fragmentation methods: none
size range: 300-800

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

value: uterus

value: tissue

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

value: 59 year

value: Michael Snyder, Stanford

tag: subcellular fraction term name

value: nucleus

tag: source

value: Yiing Lin, MD, PhD

value: ENCBS067MIE at ENCODE; https://www.encodeproject.org/ENCBS067MIE/

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


title: snRNA-seq from heart left ventricle (ENCLB280OVJ)

description:
https://www.encodeproject.org/experiments/ENCSR762LML/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR762LML
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB280OVJ
size range: 300-600

source_name: Homo sapiens male adult (54 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: nonischemic (EF 27%, LVEDD 7.9)

value: adult

value: 54 year

value: Shin Lin

value: ENCBS530IBJ at ENCODE; https://www.encodeproject.org/ENCBS530IBJ/

value: Derived from ENCODE donor ENCDO593PZY; https://www.encodeproject.org/ENCDO593PZY/


title: snRNA-seq from lower lobe of left lung (ENCLB039THH)

description:
https://www.encodeproject.org/experiments/ENCSR753YPW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR753YPW
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB039THH
fragmentation methods: none
size range: 300-800

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

value: lower lobe of left lung

value: tissue

value: female

value: ENCBS287DGI at ENCODE; https://www.encodeproject.org/ENCBS287DGI/


title: snRNA-seq from heart left ventricle (ENCLB338RBX)

description:
https://www.encodeproject.org/experiments/ENCSR755CIF/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on left heart ventricle. Please note that this experiment is part of 10x multiome and has a correspoding scATAC experiment (ENCSR918VTH).
experiment encode accession: ENCSR755CIF
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB338RBX
size range: 300-600
spikeins used: Illumina PhiX sequencing control

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

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

value: 47 year

value: Michael Snyder, Stanford

value: nucleus

value: ENCBS580LUW at ENCODE; https://www.encodeproject.org/ENCBS580LUW/

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


title: eCLIP from K562 (ENCLB478VDG)

description:
https://www.encodeproject.org/experiments/ENCSR767OEY/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against FXR2
experiment encode accession: ENCSR767OEY
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR325HDY
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB478VDG
fragmentation methods: see document
size range: 175-300

value: cell line

value: 53 year

value: chronic myelogenous leukemia (CML)

tag: passage number

value: Gene Yeo, UCSD

value: ENCBS039CVO at ENCODE; https://www.encodeproject.org/ENCBS039CVO/

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

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: eCLIP from K562 (ENCLB810KHO)

description:
https://www.encodeproject.org/experiments/ENCSR521GON/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against EXOSC10
experiment encode accession: ENCSR521GON
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR481MVN
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB810KHO
fragmentation methods: see document
size range: 175-300

value: adult

value: ATCC

tag: collection date

value: not applicable

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: IVF_Let7e_scRNA-seq_B1

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

value: WT

tag: treatment


title: IVF_Let7e_scRNA-seq_A3

tag: genotype


title: snRNA-seq from Right ventricle myocardium superior (ENCLB342YHF)

description:
https://www.encodeproject.org/experiments/ENCSR813PWQ/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on human right ventricle myocardium superior. Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR548IRG)
experiment encode accession: ENCSR813PWQ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB342YHF
size range: 300-600
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens male adult (60 years) Right ventricle myocardium superior tissue nuclear fraction

value: Right ventricle myocardium superior

value: tissue

tag: biosample encode accession

tag: Sex

value: male

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

tag: dev stage

value: 60 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: ENCBS296OWY at ENCODE; https://www.encodeproject.org/ENCBS296OWY/

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


title: snRNA-seq from heart left ventricle (ENCLB860YRM)

description:
https://www.encodeproject.org/experiments/ENCSR753YOZ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR753YOZ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB860YRM
size range: 300-600

source_name: Homo sapiens male adult (55 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: Homo sapiens heart left ventricle tissue

tag: health state

value: nonischemic (EF 25%, LVEDD 5.8)

tag: age

value: 55 year

tag: lab

value: Shin Lin

value: ENCBS652JMT at ENCODE; https://www.encodeproject.org/ENCBS652JMT/

value: Derived from ENCODE donor ENCDO865TFF; https://www.encodeproject.org/ENCDO865TFF/


title: snRNA-seq from heart left ventricle (ENCLB960RBM)

description:
https://www.encodeproject.org/experiments/ENCSR727OYO/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR785BSP).
experiment encode accession: ENCSR727OYO
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB960RBM
fragmentation methods: none
size range: 300-800

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

value: female

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

value: adult

value: 41 year

value: nucleus

tag: link

value: ENCBS103VRO at ENCODE; https://www.encodeproject.org/ENCBS103VRO/

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


title: IVF_Let7e_scRNA-seq_A2

value: blastomeres

value: WT

tag: strain


title: snRNA-seq from adrenal gland (ENCLB025XJD)

description:
https://www.encodeproject.org/experiments/ENCSR726IPC/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on human adrenal gland. Please note that this experiment is part of 10x multiome and has a correspoding scATAC experiment (ENCSR194KHA).
experiment encode accession: ENCSR726IPC
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB025XJD
size range: 300-600
spikeins used: Illumina PhiX sequencing control

source_name: Homo sapiens female adult (59 years) adrenal gland tissue, preserved by flash-freezing nuclear fraction

value: adrenal gland

value: tissue

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

value: 59 year

value: Michael Snyder, Stanford

tag: subcellular fraction term name

tag: source

value: Yiing Lin, MD, PhD

value: ENCBS291MOC at ENCODE; https://www.encodeproject.org/ENCBS291MOC/

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


title: snRNA-seq from adrenal gland (ENCLB002DZK)

description:
https://www.encodeproject.org/experiments/ENCSR724KET/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on human adrenal gland. Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR693GAD)
experiment encode accession: ENCSR724KET
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB002DZK
size range: 300-600
spikeins used: Illumina PhiX sequencing control

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

value: female

value: child

value: 16 year

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

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


title: IVF_Let7e_scRNA-seq_A1


title: snRNA-seq from posterior vena cava (ENCLB954OKJ)

description:
https://www.encodeproject.org/experiments/ENCSR716VLR/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR352RMS).
experiment encode accession: ENCSR716VLR
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB954OKJ
fragmentation methods: none
size range: 300-800

source_name: Homo sapiens male adult (26 years) posterior vena cava tissue, preserved by flash-freezing nuclear fraction

value: posterior vena cava

value: male

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

value: adult

value: 26 year

value: nucleus

value: ENCBS769AKF at ENCODE; https://www.encodeproject.org/ENCBS769AKF/

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


title: eCLIP from K562 (ENCLB569OYB)

description:
https://www.encodeproject.org/experiments/ENCSR293FWY/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against DDX1
experiment encode accession: ENCSR293FWY
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR561QXJ
encode release date: 2023-02-03
lab: Gene Yeo, UCSD
library encode accession: ENCLB569OYB
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 immortalized cell line

tag: antibody

tag: line

value: cell line

value: 53 year

tag: passage number

value: Gene Yeo, UCSD

value: chronic myelogenous leukemia (CML)

value: ENCBS505ILK at ENCODE; https://www.encodeproject.org/ENCBS505ILK/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: snRNA-seq from mucosa of descending colon (ENCLB272QLF)

description:
https://www.encodeproject.org/experiments/ENCSR707LLI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR707LLI
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB272QLF
fragmentation methods: none
size range: 300-800

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

value: mucosa of descending colon

value: tissue

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

value: 40 year

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

tag: collection date

value: not applicable

tag: geographic location

value: ENCBS542UKZ at ENCODE; https://www.encodeproject.org/ENCBS542UKZ/


title: eCLIP from K562 (ENCLB899EWW)

description:
https://www.encodeproject.org/experiments/ENCSR293FWY/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against DDX1
experiment encode accession: ENCSR293FWY
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR561QXJ
encode release date: 2023-02-03
lab: Gene Yeo, UCSD
library encode accession: ENCLB899EWW
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 cell line

value: female

value: adult

value: ATCC

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: snRNA-seq from colonic mucosa (ENCLB801PEP)

description:
https://www.encodeproject.org/experiments/ENCSR707ECV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR707ECV
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB801PEP
fragmentation methods: none
size range: 300-800

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

value: colonic mucosa

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

value: 41 year

value: nucleus

value: ENCBS811KDJ at ENCODE; https://www.encodeproject.org/ENCBS811KDJ/


title: IVF_Let7d_scRNA-seq_H1

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

value: WT

tag: treatment


title: Control eCLIP from HepG2 (ENCLB223OWH)

description:
https://www.encodeproject.org/experiments/ENCSR293CFE/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on HepG2 against NSUN2
experiment encode accession: ENCSR293CFE
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB223OWH
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens HepG2 cell line

value: cell line

tag: biosample encode accession

tag: Sex

value: male

value: hepatocellular carcinoma

tag: dev stage

value: child

value: 15 year

value: Gene Yeo, UCSD

value: ENCBS859DVG at ENCODE; https://www.encodeproject.org/ENCBS859DVG/


title: snRNA-seq from lower lobe of left lung (ENCLB681VIY)

description:
https://www.encodeproject.org/experiments/ENCSR683ONV/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR683ONV
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB681VIY
fragmentation methods: none
size range: 300-800

source_name: Homo sapiens male adult (60 years) lower lobe of left lung tissue, preserved by flash-freezing nuclear fraction

value: lower lobe of left lung

value: tissue

tag: health state

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

value: adult

tag: age

value: 60 year

tag: lab

value: Michael Snyder, Stanford

value: Yiing Lin, MD, PhD

value: not applicable

value: ENCBS462WFL at ENCODE; https://www.encodeproject.org/ENCBS462WFL/


title: snRNA-seq from pancreas (ENCLB549SMV)

description:
https://www.encodeproject.org/experiments/ENCSR684KYI/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on human pancreas
experiment encode accession: ENCSR684KYI
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB549SMV
size range: 300-600
spikeins used: Illumina PhiX sequencing control

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

value: pancreas

value: female

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

value: 61 year

tag: subcellular fraction term name

value: nucleus

tag: link

value: ENCBS371SOJ at ENCODE; https://www.encodeproject.org/ENCBS371SOJ/


title: IVF_Let7d_scRNA-seq_G3

value: blastomeres

tag: genotype

value: WT

tag: strain


title: snRNA-seq from heart left ventricle (ENCLB790XHI)

description:
https://www.encodeproject.org/experiments/ENCSR681GPY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR681GPY
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB790XHI
size range: 300-600

source_name: Homo sapiens male adult (43 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: healthy

value: 43 year

tag: source

value: Shin Lin

value: ENCBS405VQS at ENCODE; https://www.encodeproject.org/ENCBS405VQS/

value: Derived from ENCODE donor ENCDO738SLM; https://www.encodeproject.org/ENCDO738SLM/


title: Control eCLIP from HepG2 (ENCLB215KOV)

description:
https://www.encodeproject.org/experiments/ENCSR293CFE/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on HepG2 against NSUN2
experiment encode accession: ENCSR293CFE
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB215KOV
fragmentation methods: see document
size range: 175-300

tag: line

value: cell line

value: hepatocellular carcinoma

value: child

value: 15 year

tag: passage number

value: Gene Yeo, UCSD

value: ATCC

tag: collection date

value: not applicable

tag: geographic location

value: ENCBS133LVQ at ENCODE; https://www.encodeproject.org/ENCBS133LVQ/


title: snRNA-seq from left cardiac atrium (ENCLB527WWJ)

description:
https://www.encodeproject.org/experiments/ENCSR700UVN/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR777GVP).
experiment encode accession: ENCSR700UVN
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB527WWJ
fragmentation methods: none
size range: 300-800

source_name: Homo sapiens male adult (40 years) left cardiac atrium tissue, preserved by flash-freezing nuclear fraction

value: left cardiac atrium

value: tissue

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

value: adult

value: 40 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS772XDC at ENCODE; https://www.encodeproject.org/ENCBS772XDC/

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


title: snRNA-seq from lower lobe of right lung (ENCLB504FSE)

description:
https://www.encodeproject.org/experiments/ENCSR671FDY/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR671FDY
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB504FSE
fragmentation methods: none
size range: 300-800

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

value: lower lobe of right lung

value: male

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

value: 60 year

value: ENCBS329YVH at ENCODE; https://www.encodeproject.org/ENCBS329YVH/


title: snRNA-seq from upper lobe of left lung (ENCLB615BOP)

description:
https://www.encodeproject.org/experiments/ENCSR662VTU/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR662VTU
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB615BOP
fragmentation methods: none
size range: 300-800

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

value: upper lobe of left lung

value: ENCBS396OIY at ENCODE; https://www.encodeproject.org/ENCBS396OIY/

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


title: snRNA-seq from heart left ventricle (ENCLB067EKD)

description:
https://www.encodeproject.org/experiments/ENCSR751BHQ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR751BHQ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB067EKD
fragmentation methods: see document
size range: 300-600

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

value: heart left ventricle

value: tissue

value: nonischemic

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: IVF_Let7d_scRNA-seq_G2

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

value: WT

tag: treatment


title: IVF_Let7d_scRNA-seq_G1


title: snRNA-seq from colonic mucosa (ENCLB392SOP)

description:
https://www.encodeproject.org/experiments/ENCSR656VWP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR656VWP
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB392SOP
fragmentation methods: none
size range: 300-800

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

value: colonic mucosa

tag: biosample encode accession

tag: Sex

value: female

tag: health state

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

tag: dev stage

value: child

value: 16 year

value: Michael Snyder, Stanford

value: nucleus

value: Yiing Lin, MD, PhD

value: not applicable

value: ENCBS798KPL at ENCODE; https://www.encodeproject.org/ENCBS798KPL/


title: eCLIP from K562 (ENCLB277ZVY)

description:
https://www.encodeproject.org/experiments/ENCSR767OEY/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against FXR2
experiment encode accession: ENCSR767OEY
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR325HDY
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB277ZVY
fragmentation methods: see document
size range: 175-300

tag: antibody

value: cell line

value: chronic myelogenous leukemia (CML)

value: adult

tag: age

value: 53 year

tag: lab

value: Gene Yeo, UCSD

value: ATCC

tag: link

value: ENCBS177POD at ENCODE; https://www.encodeproject.org/ENCBS177POD/


title: snRNA-seq from heart left ventricle (ENCLB779BCG)

description:
https://www.encodeproject.org/experiments/ENCSR654MFX/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR654MFX
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB779BCG
size range: 300-600

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

value: heart left ventricle

value: tissue

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: healthy

value: 58 year

tag: source

value: Shin Lin

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

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


title: eCLIP from K562 (ENCLB547OYJ)

description:
https://www.encodeproject.org/experiments/ENCSR498DQS/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against METTL1
experiment encode accession: ENCSR498DQS
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR181YHI
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB547OYJ
fragmentation methods: see document
size range: 175-300

tag: line

value: female

tag: passage number

value: not applicable

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: snRNA-seq from psoas muscle (ENCLB025GOX)

description:
https://www.encodeproject.org/experiments/ENCSR641MWO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR641MWO
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB025GOX
fragmentation methods: none
size range: 300-800

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

value: psoas muscle

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

value: adult

value: 61 year

value: Michael Snyder, Stanford

tag: subcellular fraction term name

value: nucleus

value: Yiing Lin, MD, PhD

tag: collection date

tag: geographic location

value: ENCBS813JRH at ENCODE; https://www.encodeproject.org/ENCBS813JRH/


title: eCLIP from K562 (ENCLB313HNH)

description:
https://www.encodeproject.org/experiments/ENCSR497XZI/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against MBNL1
experiment encode accession: ENCSR497XZI
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR060MRW
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB313HNH
fragmentation methods: see document
size range: 175-300

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Gene Yeo, UCSD

value: ATCC

value: ENCBS177POD at ENCODE; https://www.encodeproject.org/ENCBS177POD/


title: IVF_Let7d_scRNA-seq_H2

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

tag: genotype

value: WT

tag: strain


title: snRNA-seq from fallopian tube (ENCLB986LXE)

description:
https://www.encodeproject.org/experiments/ENCSR642GFM/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR690KGJ).
experiment encode accession: ENCSR642GFM
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB986LXE
fragmentation methods: none
size range: 300-800

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

value: fallopian tube

value: tissue

tag: biosample encode accession

tag: Sex

value: female

tag: health state

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

tag: dev stage

value: 46 year

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

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


title: IVF_Let7d_scRNA-seq_F2

tag: treatment


title: snRNA-seq from heart left ventricle (ENCLB145HAH)

description:
https://www.encodeproject.org/experiments/ENCSR630LZS/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR630LZS
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB145HAH
size range: 300-600

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

value: heart left ventricle

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: healthy

value: adult

tag: age

value: 41 year

tag: lab

value: Michael Snyder, Stanford

value: Shin Lin

tag: link

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

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


title: eCLIP from K562 (ENCLB339JQZ)

description:
https://www.encodeproject.org/experiments/ENCSR497XZI/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against MBNL1
experiment encode accession: ENCSR497XZI
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR060MRW
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB339JQZ
fragmentation methods: see document
size range: 175-300

tag: antibody

tag: line

value: cell line

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Gene Yeo, UCSD

tag: source

value: ATCC

tag: passage number

value: ENCBS344MAK at ENCODE; https://www.encodeproject.org/ENCBS344MAK/

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


title: snRNA-seq from heart (ENCLB867TXT)

description:
https://www.encodeproject.org/experiments/ENCSR607AZP/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR607AZP
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2024-02-09
lab: Michael Snyder, Stanford
library encode accession: ENCLB867TXT
size range: 300-600

source_name: Homo sapiens female embryo (120 days) heart tissue, preserved by flash-freezing nuclear fraction

value: heart

value: tissue

tag: note

value: Homo sapiens heart tissue

value: female

value: embryonic

value: 120 day

tag: subcellular fraction term name

value: nucleus

value: BDRL

tag: collection date

value: not applicable

tag: geographic location

value: ENCBS788CMM at ENCODE; https://www.encodeproject.org/ENCBS788CMM/


title: Control eCLIP from HepG2 (ENCLB168DIP)

description:
https://www.encodeproject.org/experiments/ENCSR265LJL/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on HepG2 against TARDBP
experiment encode accession: ENCSR265LJL
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-12-17
lab: Gene Yeo, UCSD
library encode accession: ENCLB168DIP
fragmentation methods: see document
size range: 175-300

value: cell line

tag: biosample encode accession

value: male

value: hepatocellular carcinoma

value: child

value: 15 year

value: ENCBS133LVQ at ENCODE; https://www.encodeproject.org/ENCBS133LVQ/


title: snRNA-seq from heart (ENCLB115WMH)

description:
https://www.encodeproject.org/experiments/ENCSR627MEA/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR627MEA
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2024-02-09
lab: Michael Snyder, Stanford
library encode accession: ENCLB115WMH
size range: 300-600

source_name: Homo sapiens female embryo (84 days) heart tissue, preserved by flash-freezing nuclear fraction

tag: Sex

value: 84 day

value: Michael Snyder, Stanford

value: ENCBS835WTE at ENCODE; https://www.encodeproject.org/ENCBS835WTE/


title: snRNA-seq from right lobe of liver (ENCLB396URL)

description:
https://www.encodeproject.org/experiments/ENCSR602SGU/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on human right lobe of liver
experiment encode accession: ENCSR602SGU
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB396URL
size range: 300-600
spikeins used: Illumina PhiX sequencing control

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

value: right lobe of liver

value: tissue

tag: health state

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

value: 16 year

value: Yiing Lin, MD, PhD

value: ENCBS710LQG at ENCODE; https://www.encodeproject.org/ENCBS710LQG/


title: IVF_Let7d_scRNA-seq_F1

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

tag: genotype

value: WT

tag: strain


title: IVF_Let7d_scRNA-seq_E2

tag: treatment


title: Control eCLIP from HepG2 (ENCLB871TUL)

description:
https://www.encodeproject.org/experiments/ENCSR265LJL/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on HepG2 against TARDBP
experiment encode accession: ENCSR265LJL
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-12-17
lab: Gene Yeo, UCSD
library encode accession: ENCLB871TUL
fragmentation methods: see document
size range: 175-300

value: cell line

tag: dev stage

tag: age

tag: lab

value: Gene Yeo, UCSD

value: ATCC

tag: link

value: ENCBS768GCL at ENCODE; https://www.encodeproject.org/ENCBS768GCL/

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


title: IVF_Let7d_scRNA-seq_E3


title: snRNA-seq from adrenal gland (ENCLB234BIK)

description:
https://www.encodeproject.org/experiments/ENCSR620AJZ/
***************
biological replicate number: 1
technical replicate number: 1
description: snRNA on human adrenal gland
experiment encode accession: ENCSR620AJZ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB234BIK
size range: 300-600
spikeins used: Illumina PhiX sequencing control

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

value: adrenal gland

value: female

value: adult

value: 41 year

value: nucleus

tag: source

value: not applicable

value: ENCBS842JFS at ENCODE; https://www.encodeproject.org/ENCBS842JFS/


title: snRNA-seq from kidney (ENCLB997ETR)

description:
https://www.encodeproject.org/experiments/ENCSR548HED/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR548HED
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB997ETR
fragmentation methods: none
size range: 300-800

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

value: kidney

value: tissue

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

value: 47 year

value: Michael Snyder, Stanford

tag: subcellular fraction term name

value: ENCBS643FAW at ENCODE; https://www.encodeproject.org/ENCBS643FAW/


title: snRNA-seq from left colon (ENCLB212WDJ)

description:
https://www.encodeproject.org/experiments/ENCSR587SPO/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR587SPO
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB212WDJ
fragmentation methods: none
size range: 300-800

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

value: left colon

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

value: 46 year

value: Yiing Lin, MD, PhD

tag: collection date

value: ENCBS482YAV at ENCODE; https://www.encodeproject.org/ENCBS482YAV/


title: IVF_Let7d_scRNA-seq_E1

value: blastomeres

value: WT


title: eCLIP from K562 (ENCLB607OMB)

description:
https://www.encodeproject.org/experiments/ENCSR498DQS/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against METTL1
experiment encode accession: ENCSR498DQS
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR181YHI
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB607OMB
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 immortalized cell line

tag: antibody

tag: line

value: cell line

value: adult

value: female

value: 53 year

value: chronic myelogenous leukemia (CML)

tag: passage number

value: Gene Yeo, UCSD

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: snRNA-seq from heart left ventricle (ENCLB295OOS)

description:
https://www.encodeproject.org/experiments/ENCSR540DHJ/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR540DHJ
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB295OOS
size range: 300-600

source_name: Homo sapiens female adult (53 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

tag: description

value: Homo sapiens heart left ventricle tissue

tag: biosample encode accession

tag: Sex

tag: health state

value: ischemic (EF 29%, LVEDD 6.5)

value: Michael Snyder, Stanford

value: Shin Lin

value: ENCBS775ZAT at ENCODE; https://www.encodeproject.org/ENCBS775ZAT/

value: Derived from ENCODE donor ENCDO750LVJ; https://www.encodeproject.org/ENCDO750LVJ/


title: snRNA-seq from left cardiac atrium (ENCLB909DQG)

description:
https://www.encodeproject.org/experiments/ENCSR527MGL/
***************
biological replicate number: 1
technical replicate number: 1
description: Please note that this experiment is part of 10x multiome and has a corresponding scATAC experiment (ENCSR299NEP).
experiment encode accession: ENCSR527MGL
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB909DQG
fragmentation methods: none
size range: 300-800

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

value: left cardiac atrium

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

value: adult

value: 59 year

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS003OEL at ENCODE; https://www.encodeproject.org/ENCBS003OEL/

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


title: eCLIP from K562 (ENCLB555KHW)

description:
https://www.encodeproject.org/experiments/ENCSR750YOM/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP experiment on K562 against ADAT1
experiment encode accession: ENCSR750YOM
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR546JKS
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB555KHW
fragmentation methods: see document
size range: 175-300

source_name: Homo sapiens K562 cell line

value: cell line

value: female

value: chronic myelogenous leukemia (CML)

value: 53 year

value: Gene Yeo, UCSD

value: ATCC

value: not applicable

tag: geographic location

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: IVF_Let7d_scRNA-seq_F3

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

tag: genotype

value: WT

tag: strain


title: snRNA-seq from liver (ENCLB713GHH)

description:
https://www.encodeproject.org/experiments/ENCSR523HMC/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR523HMC
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2023-03-28
lab: Michael Snyder, Stanford
library encode accession: ENCLB713GHH
size range: 300-600

source_name: Homo sapiens female adult (51 years) liver tissue, preserved by flash-freezing nuclear fraction

value: liver

value: tissue

tag: note

value: Homo sapiens liver tissue?

value: healthy

tag: dev stage

tag: age

value: 51 year

tag: lab

value: Michael Snyder, Stanford

tag: link

value: ENCBS330QQM at ENCODE; https://www.encodeproject.org/ENCBS330QQM/


title: IVF_Let7d_scRNA-seq_D3

tag: treatment


title: snRNA-seq from right cardiac atrium (ENCLB327PYA)

description:
https://www.encodeproject.org/experiments/ENCSR522HNR/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR522HNR
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB327PYA
fragmentation methods: none
size range: 300-800

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

value: right cardiac atrium

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

value: adult

value: 46 year

tag: subcellular fraction term name

value: nucleus

tag: source

value: Yiing Lin, MD, PhD

value: ENCBS925UFW at ENCODE; https://www.encodeproject.org/ENCBS925UFW/

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


title: eCLIP from K562 (ENCLB579FLB)

description:
https://www.encodeproject.org/experiments/ENCSR750YOM/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP experiment on K562 against ADAT1
experiment encode accession: ENCSR750YOM
assay title: eCLIP
assembly: GRCh38
possible controls: ENCSR546JKS
encode release date: 2022-11-16
lab: Gene Yeo, UCSD
library encode accession: ENCLB579FLB
fragmentation methods: see document
size range: 175-300

tag: antibody

tag: line

value: cell line

tag: biosample encode accession

value: female

value: 53 year

value: chronic myelogenous leukemia (CML)

tag: passage number

value: Gene Yeo, UCSD

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: snRNA-seq from heart left ventricle (ENCLB505NAL)

description:
https://www.encodeproject.org/experiments/ENCSR489URW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR489URW
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB505NAL
size range: 300-600

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

value: heart left ventricle

value: tissue

tag: description

value: Homo sapiens heart left ventricle tissue

tag: Sex

value: male

tag: health state

value: ischemic (EF 24%, LVEDD 6.4)

value: 66 year

value: Michael Snyder, Stanford

value: Shin Lin

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

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


title: Control eCLIP from K562 (ENCLB074UES)

description:
https://www.encodeproject.org/experiments/ENCSR481MVN/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against EXOSC10
experiment encode accession: ENCSR481MVN
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB074UES
fragmentation methods: see document
size range: 175-300

value: cell line

value: female

value: adult

value: 53 year

value: ATCC

tag: collection date

value: not applicable

tag: geographic location

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: snRNA-seq from heart (ENCLB610VVE)

description:
https://www.encodeproject.org/experiments/ENCSR497FRI/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR497FRI
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2024-02-09
lab: Michael Snyder, Stanford
library encode accession: ENCLB610VVE
size range: 300-600

source_name: Homo sapiens male embryo (94 days) heart tissue, preserved by flash-freezing nuclear fraction

value: heart

tag: note

value: Homo sapiens heart tissue

value: embryonic

value: 94 day

value: nucleus

value: BDRL

value: ENCBS104EDP at ENCODE; https://www.encodeproject.org/ENCBS104EDP/


title: Control eCLIP from K562 (ENCLB883YNT)

description:
https://www.encodeproject.org/experiments/ENCSR481MVN/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against EXOSC10
experiment encode accession: ENCSR481MVN
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB883YNT
fragmentation methods: see document
size range: 175-300

tag: dev stage

value: chronic myelogenous leukemia (CML)

value: Gene Yeo, UCSD

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: IVF_Let7d_scRNA-seq_D1

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

tag: genotype

value: WT

tag: strain


title: snRNA-seq from heart left ventricle (ENCLB323ARH)

description:
https://www.encodeproject.org/experiments/ENCSR488UUT/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR488UUT
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB323ARH
size range: 300-600

source_name: Homo sapiens female adult (68 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

value: tissue

value: Homo sapiens heart left ventricle tissue

value: female

value: ischemic

value: adult

tag: age

value: 68 year

tag: lab

value: Michael Snyder, Stanford

tag: source

value: Shin Lin

tag: link

value: ENCBS211LOV at ENCODE; https://www.encodeproject.org/ENCBS211LOV/

value: Derived from ENCODE donor ENCDO435KUZ; https://www.encodeproject.org/ENCDO435KUZ/


title: Control eCLIP from K562 (ENCLB819ZZT)

description:
https://www.encodeproject.org/experiments/ENCSR254NWE/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against RNF187
experiment encode accession: ENCSR254NWE
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB819ZZT
fragmentation methods: see document
size range: 175-300

tag: line

value: cell line

tag: biosample encode accession

value: chronic myelogenous leukemia (CML)

value: 53 year

tag: passage number

value: Gene Yeo, UCSD

value: ATCC

value: not applicable

value: ENCBS592SHU at ENCODE; https://www.encodeproject.org/ENCBS592SHU/


title: snRNA-seq from right lobe of liver (ENCLB508DVG)

description:
https://www.encodeproject.org/experiments/ENCSR484YSK/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR484YSK
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-03-25
lab: Michael Snyder, Stanford
library encode accession: ENCLB508DVG
fragmentation methods: none
size range: 300-800

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

value: right lobe of liver

value: tissue

tag: Sex

tag: health state

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

value: 41 year

tag: subcellular fraction term name

value: nucleus

value: Yiing Lin, MD, PhD

value: ENCBS564SWD at ENCODE; https://www.encodeproject.org/ENCBS564SWD/


title: snRNA-seq from heart (ENCLB460GQW)

description:
https://www.encodeproject.org/experiments/ENCSR571FEW/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR571FEW
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2024-02-09
lab: Michael Snyder, Stanford
library encode accession: ENCLB460GQW
size range: 300-600

source_name: Homo sapiens female embryo (105 days) heart tissue, preserved by flash-freezing nuclear fraction

value: heart

tag: note

value: Homo sapiens heart tissue

value: female

value: embryonic

value: 105 day

value: Michael Snyder, Stanford

value: BDRL

tag: collection date

tag: geographic location

value: ENCBS534KHU at ENCODE; https://www.encodeproject.org/ENCBS534KHU/


title: snRNA-seq from heart left ventricle (ENCLB138XBO)

description:
https://www.encodeproject.org/experiments/ENCSR485GOL/
***************
biological replicate number: 1
technical replicate number: 1
description:
experiment encode accession: ENCSR485GOL
assay title: snRNA-seq
assembly: GRCh38
encode release date: 2022-07-27
lab: Michael Snyder, Stanford
library encode accession: ENCLB138XBO
size range: 300-600

source_name: Homo sapiens male adult (51 years) heart left ventricle tissue, preserved by flash-freezing

value: heart left ventricle

tag: description

value: Homo sapiens heart left ventricle tissue

value: male

value: nonischemic (EF 31%, LVEDD 7.0)

tag: dev stage

value: adult

value: 51 year

value: Shin Lin

value: ENCBS371YBL at ENCODE; https://www.encodeproject.org/ENCBS371YBL/

value: Derived from ENCODE donor ENCDO580GZH; https://www.encodeproject.org/ENCDO580GZH/


title: IVF_Let7d_scRNA-seq_C2

tag: tissue

tag: mouse id

tag: cell type

value: blastomeres

tag: genotype

value: WT

tag: treatment


title: Control eCLIP from K562 (ENCLB449LJX)

description:
https://www.encodeproject.org/experiments/ENCSR254NWE/
***************
biological replicate number: 1
technical replicate number: 1
description: eCLIP control experiment on K562 against RNF187
experiment encode accession: ENCSR254NWE
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2023-01-24
lab: Gene Yeo, UCSD
library encode accession: ENCLB449LJX
fragmentation methods: see document
size range: 175-300

value: cell line

value: female

tag: age

value: 53 year

value: chronic myelogenous leukemia (CML)

tag: lab

value: Gene Yeo, UCSD

tag: link

value: ENCBS175JIH at ENCODE; https://www.encodeproject.org/ENCBS175JIH/

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

value: ENCODE dbxrefs Cellosaurus CVCL_0004; http://web.expasy.org/cellosaurus/CVCL_0004

value: ATCC sample source; http://www.atcc.org/Products/All/HB-8065.aspx


title: Control eCLIP from K562 (ENCLB403SOD)

description:
https://www.encodeproject.org/experiments/ENCSR720EEM/
***************
biological replicate number: 2
technical replicate number: 1
description: eCLIP control experiment on K562 against TARDBP
experiment encode accession: ENCSR720EEM
assay title: Control eCLIP
assembly: GRCh38
encode release date: 2022-07-19
lab: Gene Yeo, UCSD
library encode accession: ENCLB403SOD
fragmentation methods: see document
size range: 175-300

tag: line

tag: biosample encode accession

tag: passage number

tag: source

value: ATCC

value: not applicable

value: ENCBS177POD at ENCODE; https://www.encodeproject.org/ENCBS177POD/