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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
552
ChIP-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
ATAC-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
9
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
1
Transcription
Target of assay
338
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
58
RNA binding protein
42
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
63
December, 2017
54
August, 2017
53
November, 2018
50
May, 2020
May, 2022
26
August, 2021
6
October, 2019
3
February, 2021
3
July, 2019
2
June, 2019
1
December, 2018
1
March, 2020
1
May, 2021
Available data
681
bam
602
bigWig
465
fastq
421
bed narrowPeak
358
bigBed narrowPeak
tsv
86
tagAlign
63
bed broadPeak
63
bigBed broadPeak
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
578
Homo sapiens
Biosample type
386
cell line
168
tissue
15
in vitro differentiated cells
9
primary cell
Organ
577
liver
425
pancreas
330
kidney
288
epithelium
260
brain
225
heart
206
connective tissue
168
vasculature
162
blood vessel
115
limb
101
bone element
90
adipose tissue
85
musculature of body
83
artery
69
blood
69
bodily fluid
56
eye
38
nerve
24
spleen
23
embryo
22
vein
19
lung
18
ureter
16
skeleton
4
gonad
4
ovary
2
pituitary gland
1
bone marrow
1
lymph node
1
pericardium
1
skin of body
1
thymus
0
spinal cord
Project
577
AMP
1
T1D
Genome assembly (visualization)
443
hg19
369
GRCh38
Lab
555
AMP-T2D consortium
22
Bing Ren, UCSD
1
Kyle Gaulton, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
27
inconsistent control read length
8
inconsistent control run_type
files.file_type!
tsv
month_released!
May, 2022
BIOSAMPLE
ASSAY
578 results
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ChIP-seq
DNase-seq
WGBS
Hi-C
ATAC-seq
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
2
1
2
1
1
tissue
liver
145
2
3
1
1
1
right lobe of liver
10
2
1
1
thymus
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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