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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
120
ChIP-seq
109
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
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
120
DNA binding
111
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
82
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
91
February, 2021
74
November, 2017
31
August, 2021
21
May, 2021
15
November, 2019
15
October, 2019
9
January, 2019
9
March, 2020
6
February, 2023
6
November, 2020
4
November, 2018
3
December, 2018
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
225
bam
161
bigWig
113
tsv
90
fastq
51
bed narrowPeak
26
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
15
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
285
Homo sapiens
Biosample type
2350
tissue
1044
primary cell
345
in vitro differentiated cells
289
cell line
10
stem cell
Organ
104
liver
91
pancreas
78
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
kidney
10
blood
10
bodily fluid
8
embryo
1
mammary gland
Project
278
AMP
9
T1D
2
community
Genome assembly (visualization)
173
hg19
150
GRCh38
Lab
255
AMP-T2D consortium
21
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
76
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
1
inconsistent assembly
organ_slims!
kidney
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
289 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
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
81
14
1
2
2
2
1
1
EndoC_BH1
14
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
2
52
8
Panc1
13
1
1
GM12878
9
1
H1-hESC
8
EndoC-BH1
1
1
early embryonic cell
2
MCF-7
1
MIN6
1
Synthesized DNA
1
fibroblast cell line
1
iPSC derived cell line
1
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