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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
82
ChIP-seq
80
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
82
DNA binding
82
Transcription
11
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
72
control
60
RNA binding protein
26
chromatin remodeller
5
histone
5
histone modification
4
narrow histone mark
1
broad histone mark
1
other context
1
other post-translational modification
Date released
65
February, 2021
60
November, 2017
31
August, 2021
9
January, 2019
8
October, 2019
6
March, 2020
5
February, 2023
4
November, 2018
3
December, 2018
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
171
bam
111
bigWig
90
fastq
85
tsv
32
bed narrowPeak
20
bigBed narrowPeak
15
tagAlign
bed broadPeak
14
bigBed broadPeak
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
193
Homo sapiens
Biosample type
2002
tissue
688
primary cell
342
in vitro differentiated cells
196
cell line
10
stem cell
Organ
90
liver
pancreas
78
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
12
kidney
10
blood
10
bodily fluid
8
embryo
1
mammary gland
Project
189
AMP
5
T1D
2
community
Genome assembly (visualization)
107
hg19
89
GRCh38
Lab
166
AMP-T2D consortium
23
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
9
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
target.investigated_as!
transcription factor
files.file_type!
bed broadPeak
organ_slims!
pancreas
BIOSAMPLE
ASSAY
196 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
67
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
2
52
8
GM12878
9
1
H1-hESC
8
EndoC_BH1
3
2
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