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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
362
ChIP-seq
46
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
2
pCHi-C
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
362
DNA binding
50
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
85
control
recombinant protein
76
histone modification
75
histone
RNA binding protein
42
broad histone mark
33
narrow histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
215
November, 2017
May, 2020
59
December, 2017
54
August, 2017
40
May, 2022
34
August, 2021
18
November, 2018
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
December, 2018
1
February, 2020
Available data
349
bam
326
fastq
315
bigWig
277
bed narrowPeak
222
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
36
tagAlign
30
tsv
13
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
2
bedpe bed3+
2
hic
2
tar
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
457
Homo sapiens
Biosample type
264
cell line
166
tissue
14
primary cell
13
in vitro differentiated cells
Organ
937
pancreas
674
connective tissue
516
epithelium
486
adipose tissue
457
liver
382
heart
344
kidney
283
brain
231
vasculature
226
blood vessel
159
bone element
140
artery
122
limb
96
musculature of body
60
eye
59
blood
59
bodily fluid
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
457
AMP
Genome assembly (visualization)
322
hg19
237
GRCh38
Lab
387
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
10
missing controlled_by
Audit category:
20
inconsistent control read length
5
inconsistent control run_type
target.investigated_as!
RNA binding protein
recombinant protein
month_released!
May, 2020
BIOSAMPLE
ASSAY
457 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
small RNA-seq
RRBS
STARR-seq
pCHi-C
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
242
14
1
1
2
2
1
1
tissue
liver
94
24
20
2
3
1
1
1
1
1
right lobe of liver
9
3
1
2
1
2
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
13
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