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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
467
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
3
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
467
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
311
transcription factor
108
control
103
histone modification
102
histone
82
recombinant protein
60
narrow histone mark
RNA binding protein
42
broad histone mark
21
chromatin remodeller
2
other context
2
other post-translational modification
Date released
281
November, 2017
194
May, 2020
54
August, 2017
40
May, 2022
34
August, 2021
34
November, 2018
32
December, 2017
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
597
bam
539
bigWig
381
fastq
358
bed narrowPeak
276
bigBed narrowPeak
174
tsv
86
tagAlign
59
bed broadPeak
59
bigBed broadPeak
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
706
Homo sapiens
Biosample type
347
cell line
332
tissue
14
primary cell
13
in vitro differentiated cells
Organ
937
pancreas
706
liver
674
connective tissue
516
epithelium
486
adipose tissue
382
heart
351
kidney
283
brain
231
vasculature
226
blood vessel
159
bone element
140
artery
122
limb
96
musculature of body
60
eye
58
blood
58
bodily fluid
43
nerve
37
embryo
25
spleen
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
2
thymus
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
706
AMP
Genome assembly (visualization)
543
hg19
453
GRCh38
Lab
636
AMP-T2D consortium
40
Karen Mohlke, UNC
30
Bing Ren, UCSD
Audit category:
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
21
inconsistent control read length
5
inconsistent control run_type
audit.ERROR.category!
inconsistent control
lab.title!
Xin Sun, UCSD
organ_slims!
adrenal gland
target.investigated_as!
RNA binding protein
BIOSAMPLE
ASSAY
706 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
Hi-C
pCHi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
324
14
1
1
2
2
2
1
tissue
liver
117
167
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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