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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
446
ChIP-seq
189
total RNA-seq
22
ATAC-seq
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
STARR-seq
2
WGBS
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
446
DNA binding
193
Transcription
22
DNA accessibility
4
3D chromatin structure
3
DNA methylation
1
DNA sequencing
Target of assay
290
transcription factor
97
control
82
recombinant protein
56
histone
56
histone modification
54
RNA binding protein
41
narrow histone mark
19
chromatin remodeller
15
broad histone mark
1
other context
1
other post-translational modification
Date released
257
November, 2017
194
May, 2020
63
December, 2017
August, 2017
50
November, 2018
40
May, 2022
35
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
1
December, 2018
1
February, 2020
Available data
655
bam
604
bigWig
437
fastq
423
bed narrowPeak
352
bigBed narrowPeak
174
tsv
66
tagAlign
63
bed broadPeak
bigBed broadPeak
10
bed bed3+
3
tar
2
bed bedMethyl
2
bedpe bed3+
2
bigBed bedMethyl
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
674
Homo sapiens
Biosample type
343
cell line
304
tissue
15
in vitro differentiated cells
12
primary cell
Organ
700
pancreas
674
liver
550
connective tissue
473
epithelium
432
adipose tissue
363
heart
276
kidney
248
brain
219
vasculature
217
blood vessel
158
bone element
137
artery
86
limb
61
blood
61
bodily fluid
57
eye
41
nerve
37
embryo
37
musculature of body
24
spleen
20
lung
18
vein
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
674
AMP
Genome assembly (visualization)
542
hg19
463
GRCh38
Lab
603
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
files.file_type!
bigBed broadPeak
lab.title!
Kyle Gaulton, UCSD
month_released!
August, 2017
organ_slims!
mammary gland
BIOSAMPLE
ASSAY
674 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
pCHi-C
small RNA-seq
STARR-seq
WGBS
RRBS
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
320
14
1
2
2
2
1
1
tissue
liver
97
167
20
1
1
1
1
right lobe of liver
10
3
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
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