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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
189
total RNA-seq
184
ChIP-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
190
Transcription
184
DNA binding
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
97
transcription factor
88
histone modification
87
histone
narrow histone mark
52
control
34
broad histone mark
24
RNA binding protein
16
recombinant protein
8
chromatin remodeller
Date released
November, 2017
167
May, 2020
56
December, 2017
53
November, 2018
41
August, 2017
40
May, 2022
31
August, 2021
7
July, 2019
5
December, 2019
5
January, 2019
5
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
321
bam
306
bigWig
171
tsv
147
bed narrowPeak
138
fastq
101
bigBed narrowPeak
39
tagAlign
11
bed bed3+
5
bed broadPeak
5
bigBed broadPeak
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
420
Homo sapiens
Biosample type
314
tissue
84
cell line
12
primary cell
10
in vitro differentiated cells
Organ
871
pancreas
648
connective tissue
476
adipose tissue
471
epithelium
420
liver
352
heart
338
kidney
206
vasculature
203
blood vessel
159
bone element
135
artery
107
limb
105
brain
81
musculature of body
68
blood
68
bodily fluid
58
eye
35
nerve
29
embryo
23
spleen
20
lung
18
ureter
16
skeleton
16
vein
2
intestine
2
pericardium
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
gonad
large intestine
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
420
AMP
Genome assembly (visualization)
311
hg19
276
GRCh38
Lab
351
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
3
missing controlled_by
Audit category:
5
inconsistent control read length
4
inconsistent control run_type
assay_title!
small RNA-seq
month_released!
November, 2017
organ_slims!
large intestine
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
420 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
103
20
2
3
1
1
1
1
right lobe of liver
3
8
1
2
1
cell line
HepG2
14
61
1
1
2
2
2
1
primary cell
hepatocyte
5
2
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
10
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