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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
24
DNase-seq
23
ATAC-seq
20
total RNA-seq
5
WGBS
4
Hi-C
2
RRBS
2
STARR-seq
1
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
552
DNA binding
47
DNA accessibility
21
Transcription
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
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
40
May, 2022
26
August, 2021
20
June, 2019
6
October, 2019
3
February, 2021
3
July, 2019
1
December, 2018
1
March, 2020
Available data
699
bam
640
bigWig
465
fastq
459
bed narrowPeak
376
bigBed narrowPeak
tsv
86
tagAlign
81
bed broadPeak
81
bigBed broadPeak
31
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
635
Homo sapiens
Biosample type
386
cell line
225
tissue
15
in vitro differentiated cells
9
primary cell
Organ
617
liver
525
pancreas
364
epithelium
330
kidney
260
brain
225
heart
206
connective tissue
167
vasculature
161
blood vessel
115
limb
101
bone element
90
adipose tissue
86
musculature of body
83
artery
69
blood
69
bodily fluid
56
eye
38
nerve
24
spleen
23
embryo
21
vein
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
Project
635
AMP
Genome assembly (visualization)
481
hg19
387
GRCh38
Lab
573
AMP-T2D consortium
40
Karen Mohlke, UNC
22
Bing Ren, 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
audit.ERROR.category!
audit script error
files.file_type!
tsv
organ_slims!
lung
BIOSAMPLE
ASSAY
635 results
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ChIP-seq
DNase-seq
ATAC-seq
total RNA-seq
WGBS
Hi-C
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
378
1
1
2
2
1
1
tissue
liver
145
2
20
20
3
1
1
1
right lobe of liver
10
2
1
1
renal pelvis
10
left renal pelvis
4
right renal pelvis
4
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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