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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
184
total RNA-seq
100
ChIP-seq
22
ATAC-seq
3
DNase-seq
3
WGBS
3
pCHi-C
3
small RNA-seq
2
Hi-C
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
100
DNA binding
25
DNA accessibility
4
DNA methylation
2
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
58
histone modification
41
narrow histone mark
31
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
194
May, 2020
40
May, 2022
35
August, 2021
26
August, 2017
9
July, 2019
7
October, 2019
5
December, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
Available data
681
bam
622
bigWig
fastq
441
bed narrowPeak
358
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
hdf5
1
vcf
Organism
325
Homo sapiens
Biosample type
278
tissue
34
cell line
13
primary cell
Organ
582
connective tissue
474
pancreas
447
adipose tissue
393
heart
354
kidney
325
liver
265
epithelium
262
brain
228
vasculature
225
blood vessel
159
bone element
141
artery
122
limb
94
musculature of body
61
eye
43
nerve
22
vein
20
lung
18
ureter
16
skeleton
10
embryo
blood
9
bodily fluid
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
spleen
1
stomach
1
urinary bladder
Project
325
AMP
Genome assembly (visualization)
234
hg19
188
GRCh38
Lab
254
AMP-T2D consortium
40
Karen Mohlke, UNC
31
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
organ_slims!
blood
files.file_type!
fastq
hdf5
BIOSAMPLE
ASSAY
325 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
78
20
2
1
1
1
1
right lobe of liver
3
1
1
2
cell line
HepG2
9
18
1
2
1
2
1
primary cell
hepatocyte
5
4
1
1
Liver fetal (hepatocyte)
1
hepatic stellate cell
1
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