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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
585
ChIP-seq
189
total RNA-seq
24
ATAC-seq
8
snATAC-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
585
DNA binding
193
Transcription
38
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
374
transcription factor
114
control
92
histone modification
91
histone
81
recombinant protein
62
RNA binding protein
55
narrow histone mark
36
broad histone mark
22
chromatin remodeller
2
other context
2
other post-translational modification
Date released
294
November, 2017
194
May, 2020
63
December, 2017
63
November, 2018
53
August, 2017
40
May, 2022
35
August, 2021
28
December, 2018
23
January, 2019
10
July, 2019
8
January, 2021
7
October, 2019
5
December, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
1
January, 2018
Available data
714
bam
650
bigWig
498
fastq
470
bed narrowPeak
387
bigBed narrowPeak
174
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
833
Homo sapiens
Biosample type
436
cell line
360
tissue
22
primary cell
15
in vitro differentiated cells
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
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
825
AMP
8
T1D
Genome assembly (visualization)
653
hg19
562
GRCh38
Lab
754
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
28
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
BIOSAMPLE
ASSAY
833 results
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ChIP-seq
total RNA-seq
ATAC-seq
snATAC-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
352
14
1
1
2
2
2
1
GM12878
60
1
tissue
liver
144
167
20
2
3
1
1
1
1
1
right lobe of liver
10
3
1
2
1
2
primary cell
hepatocyte
4
5
1
1
peripheral blood mononuclear cell
8
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
in vitro differentiated cells
hepatocyte
15
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