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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
539
ChIP-seq
189
total RNA-seq
23
ATAC-seq
6
DNase-seq
5
WGBS
4
Hi-C
4
pCHi-C
3
small RNA-seq
2
RRBS
2
STARR-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
539
DNA binding
193
Transcription
29
DNA accessibility
7
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
326
transcription factor
108
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
305
November, 2017
194
May, 2020
63
December, 2017
54
August, 2017
50
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
Available data
668
bam
610
bigWig
452
fastq
429
bed narrowPeak
346
bigBed narrowPeak
175
tsv
86
tagAlign
63
bed broadPeak
63
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
779
Homo sapiens
Biosample type
388
cell line
362
tissue
15
in vitro differentiated cells
14
primary cell
Organ
892
pancreas
778
liver
667
connective tissue
503
epithelium
479
adipose tissue
393
heart
354
kidney
282
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
36
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
779
AMP
Genome assembly (visualization)
613
hg19
526
GRCh38
Lab
708
AMP-T2D consortium
40
Karen Mohlke, UNC
31
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
assay_title!
MPRA
audit.NOT_COMPLIANT.category!
missing controlled_by
BIOSAMPLE
ASSAY
779 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
365
14
1
1
2
2
2
1
tissue
liver
145
167
20
2
3
1
1
1
1
1
right lobe of liver
10
3
1
2
1
2
adrenal gland
1
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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