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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
618
ChIP-seq
196
total RNA-seq
41
DNase-seq
30
ATAC-seq
6
Hi-C
6
WGBS
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
618
DNA binding
200
Transcription
71
DNA accessibility
8
DNA methylation
6
3D chromatin structure
1
DNA sequencing
Target of assay
338
transcription factor
152
histone modification
151
histone
125
control
82
recombinant protein
76
broad histone mark
75
narrow histone mark
58
RNA binding protein
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
315
November, 2017
194
May, 2020
75
October, 2019
63
December, 2017
54
August, 2017
53
November, 2018
40
May, 2022
34
August, 2021
33
June, 2019
15
July, 2019
9
February, 2021
7
May, 2019
5
December, 2019
5
January, 2019
4
February, 2020
2
March, 2020
1
December, 2018
Available data
793
bam
712
bigWig
531
bed narrowPeak
465
fastq
441
bigBed narrowPeak
181
tsv
98
bed broadPeak
98
bigBed broadPeak
86
tagAlign
48
bed bed3+
4
bed bedMethyl
4
bigBed bedMethyl
3
tar
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
909
Homo sapiens
Biosample type
481
tissue
400
cell line
15
in vitro differentiated cells
13
primary cell
Organ
857
pancreas
788
liver
664
connective tissue
489
adipose tissue
429
epithelium
384
heart
331
kidney
283
brain
233
vasculature
228
blood vessel
141
artery
121
limb
85
musculature of body
75
bone element
69
blood
69
bodily fluid
61
eye
43
nerve
31
embryo
25
spleen
21
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
Project
909
AMP
Genome assembly (visualization)
717
hg19
625
GRCh38
Lab
839
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
27
inconsistent control
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!
inconsistent ontology term
files.file_type!
bedpe bed3+
lab.title!
Mark McCarthy, Oxford
BIOSAMPLE
ASSAY
909 results
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ChIP-seq
total RNA-seq
DNase-seq
ATAC-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
145
167
2
20
3
1
1
1
1
tibial nerve
35
5
2
1
tibial artery
23
1
2
1
muscle of leg
7
12
1
right lobe of liver
10
3
2
1
1
2
+ See 11 more…
cell line
HepG2
378
14
1
1
1
2
2
1
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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