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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
188
ChIP-seq
30
total RNA-seq
20
ATAC-seq
4
Hi-C
3
pCHi-C
2
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
DNA binding
31
Transcription
21
DNA accessibility
DNA methylation
4
3D chromatin structure
1
DNA sequencing
Target of assay
107
control
50
transcription factor
31
histone
31
histone modification
18
narrow histone mark
13
broad histone mark
6
RNA binding protein
1
chromatin remodeller
1
recombinant protein
Date released
94
November, 2017
40
May, 2022
32
August, 2021
32
May, 2020
31
August, 2017
13
December, 2017
2
February, 2021
2
March, 2020
1
December, 2018
1
February, 2020
1
July, 2019
1
November, 2018
Available data
146
bam
116
fastq
90
bigWig
72
bed narrowPeak
53
tagAlign
30
bigBed narrowPeak
12
bed broadPeak
12
bigBed broadPeak
12
tsv
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
csv
1
hdf5
1
vcf
Organism
250
Homo sapiens
Biosample type
129
cell line
118
tissue
2
primary cell
1
in vitro differentiated cells
Organ
262
pancreas
250
liver
177
epithelium
145
kidney
123
heart
113
connective tissue
93
bone element
67
brain
63
adipose tissue
54
eye
43
vasculature
42
blood vessel
38
musculature of body
26
limb
20
lung
15
blood
15
bodily fluid
13
artery
12
nerve
10
vein
9
spleen
8
embryo
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
bone marrow
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
250
AMP
Genome assembly (visualization)
596
hg19
GRCh38
Lab
179
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
7
missing controlled_by
Audit category:
inconsistent control read length
2
inconsistent control run_type
assay_slims!
DNA methylation
assembly!
GRCh38
audit.WARNING.category!
inconsistent control read length
BIOSAMPLE
ASSAY
250 results
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ChIP-seq
total RNA-seq
ATAC-seq
Hi-C
pCHi-C
STARR-seq
DNase-seq
single cell RNA-seq
whole genome sequencing assay
cell line
HepG2
113
9
2
2
2
1
tissue
liver
70
20
20
1
1
1
right lobe of liver
3
1
1
primary cell
endothelial cell of hepatic sinusoid
1
hepatocyte
1
in vitro differentiated cells
hepatocyte
1
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