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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
126
ChIP-seq
30
total RNA-seq
8
snATAC-seq
4
WGBS
3
Hi-C
3
pCHi-C
2
ATAC-seq
2
RRBS
STARR-seq
1
DNase-seq
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
126
DNA binding
31
Transcription
11
DNA accessibility
6
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
101
control
20
histone
20
histone modification
12
broad histone mark
8
narrow histone mark
5
transcription factor
2
RNA binding protein
1
recombinant protein
Date released
47
November, 2017
36
August, 2017
24
May, 2020
20
May, 2022
16
August, 2021
13
December, 2017
8
January, 2021
4
November, 2018
3
February, 2021
3
January, 2019
2
July, 2019
2
March, 2020
1
December, 2018
1
February, 2020
1
October, 2019
Available data
741
bam
bigWig
525
fastq
495
bed narrowPeak
412
bigBed narrowPeak
174
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
181
Homo sapiens
Biosample type
96
tissue
73
cell line
11
primary cell
1
in vitro differentiated cells
Organ
323
pancreas
223
epithelium
221
kidney
169
heart
167
liver
114
connective tissue
101
bone element
81
vasculature
80
blood vessel
66
adipose tissue
64
brain
56
artery
55
eye
31
limb
28
musculature of body
20
lung
16
skeleton
14
blood
14
bodily fluid
nerve
9
spleen
8
embryo
7
vein
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
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
173
AMP
8
T1D
Genome assembly (visualization)
8
hg19
3
GRCh38
Lab
138
AMP-T2D consortium
20
Karen Mohlke, UNC
15
Bing Ren, UCSD
8
Kyle Gaulton, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
assay_title!
STARR-seq
files.file_type!
bigWig
organ_slims!
nerve
BIOSAMPLE
ASSAY
181 results
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ChIP-seq
total RNA-seq
snATAC-seq
WGBS
Hi-C
pCHi-C
ATAC-seq
RRBS
DNase-seq
single cell RNA-seq
whole genome sequencing assay
tissue
liver
63
20
3
1
1
1
1
right lobe of liver
3
1
1
1
cell line
HepG2
52
9
2
2
1
1
GM12878
6
primary cell
peripheral blood mononuclear cell
8
hepatocyte
1
1
Liver fetal (hepatocyte)
1
in vitro differentiated cells
hepatocyte
1
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