Toggle navigation
Home
About
Project overview
Policies
News
Contact
Data
Experiments
Annotations
Single Cell Embeddings
Statistical Models
Gene Perturbations
Data Standards & QC
Pipelines
Consortia
Publications
Tools
Single Cell Browser
Help
Getting started
Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
387
ChIP-seq
35
total RNA-seq
20
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
387
DNA binding
37
Transcription
21
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
356
transcription factor
recombinant protein
80
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
249
November, 2017
February, 2021
45
November, 2018
44
August, 2021
28
December, 2018
23
January, 2019
21
May, 2021
21
October, 2019
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
398
bam
351
bigWig
345
fastq
302
bed narrowPeak
274
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
41
tsv
12
tagAlign
3
tar
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
471
Homo sapiens
Biosample type
2025
tissue
1004
primary cell
475
cell line
343
in vitro differentiated cells
7
stem cell
Organ
317
liver
64
pancreas
61
blood
61
bodily fluid
53
epithelium
12
kidney
8
embryo
1
mammary gland
Project
464
AMP
9
T1D
2
community
Genome assembly (visualization)
350
hg19
282
GRCh38
Lab
428
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
59
inconsistent ontology term
1
inconsistent control
Audit category:
12
missing controlled_by
Audit category:
25
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bed bed3+
month_released!
February, 2021
organ_slims!
thymus
target.investigated_as!
recombinant protein
BIOSAMPLE
ASSAY
475 results
search-icon
table-tab-icon
Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
296
14
2
1
2
1
1
GM12878
60
1
EndoC_BH1
15
7
19
6
3
1
2
2
1
Panc1
13
H1-hESC
8
+ See 12 more…
See all biosamples
Download