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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
431
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
431
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
326
transcription factor
control
102
histone modification
101
histone
81
recombinant protein
59
narrow histone mark
56
RNA binding protein
42
broad histone mark
17
chromatin remodeller
2
other context
2
other post-translational modification
Date released
249
November, 2017
171
May, 2020
50
December, 2017
50
November, 2018
43
August, 2017
40
May, 2022
30
August, 2021
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
bigWig
567
bam
429
bed narrowPeak
375
fastq
346
bigBed narrowPeak
174
tsv
63
bed broadPeak
63
bigBed broadPeak
58
tagAlign
12
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
670
Homo sapiens
Biosample type
328
cell line
315
tissue
14
in vitro differentiated cells
13
primary cell
Organ
839
pancreas
670
liver
632
connective tissue
473
epithelium
455
adipose tissue
373
heart
342
kidney
251
brain
214
vasculature
209
blood vessel
159
bone element
132
artery
105
limb
90
musculature of body
63
blood
63
bodily fluid
60
eye
32
nerve
20
lung
20
vein
19
embryo
18
ureter
17
spleen
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
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
670
AMP
Genome assembly (visualization)
599
hg19
525
GRCh38
Lab
603
AMP-T2D consortium
40
Karen Mohlke, UNC
27
Bing Ren, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
missing controlled_by
Audit category:
22
inconsistent control read length
2
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
month_released!
February, 2018
organ_slims!
pituitary gland
target.investigated_as!
control
BIOSAMPLE
ASSAY
670 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
305
14
1
1
2
2
2
1
tissue
liver
102
167
20
2
3
1
1
1
1
1
right lobe of liver
7
3
1
2
1
2
in vitro differentiated cells
hepatocyte
14
primary cell
hepatocyte
3
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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