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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
525
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
5
pCHi-C
4
Hi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
525
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
323
transcription factor
108
control
91
histone modification
90
histone
81
recombinant protein
54
narrow histone mark
52
RNA binding protein
36
broad histone mark
12
chromatin remodeller
2
other context
2
other post-translational modification
Date released
294
November, 2017
194
May, 2020
63
December, 2017
53
August, 2017
48
November, 2018
40
May, 2022
35
August, 2021
10
July, 2019
7
October, 2019
5
December, 2019
5
January, 2019
4
March, 2020
3
February, 2021
2
June, 2019
1
December, 2018
1
February, 2020
1
May, 2021
Available data
654
bam
595
bigWig
438
fastq
416
bed narrowPeak
333
bigBed narrowPeak
175
tsv
75
tagAlign
50
bed broadPeak
50
bigBed broadPeak
13
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
766
Homo sapiens
Biosample type
375
cell line
362
tissue
15
in vitro differentiated cells
14
primary cell
Organ
937
pancreas
764
liver
678
connective tissue
519
epithelium
491
adipose tissue
393
heart
354
kidney
286
brain
236
vasculature
230
blood vessel
159
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
34
embryo
25
spleen
22
vein
20
lung
18
ureter
16
skeleton
5
gonad
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
765
AMP
1
T1D
Genome assembly (visualization)
598
hg19
508
GRCh38
Lab
694
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
1
Kyle Gaulton, UCSD
Audit category:
27
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
8
missing controlled_by
Audit category:
inconsistent control read length
8
inconsistent control run_type
audit.WARNING.category!
inconsistent control read length
organ_slims!
ovary
BIOSAMPLE
ASSAY
766 results
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ChIP-seq
total RNA-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
Hi-C
small RNA-seq
RRBS
STARR-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
352
14
1
1
2
2
2
1
tissue
liver
144
167
20
2
3
1
1
1
1
1
right lobe of liver
10
3
1
2
1
2
thymus
2
in vitro differentiated cells
hepatocyte
15
primary cell
hepatocyte
4
5
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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