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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
298
ChIP-seq
17
total RNA-seq
8
snATAC-seq
6
ATAC-seq
4
small RNA-seq
3
pCHi-C
3
single cell RNA-seq
2
RRBS
2
WGBS
1
FAIRE-seq
Assay category
298
DNA binding
24
Transcription
15
DNA accessibility
4
DNA methylation
Target of assay
194
histone
194
histone modification
120
narrow histone mark
74
broad histone mark
60
transcription factor
45
control
13
RNA binding protein
10
chromatin remodeller
3
other context
3
other post-translational modification
Date released
91
November, 2017
86
October, 2019
34
December, 2018
28
May, 2019
25
January, 2019
23
November, 2018
17
October, 2017
15
July, 2019
12
February, 2020
8
January, 2021
3
March, 2020
1
February, 2023
1
January, 2018
Available data
327
bam
293
bigWig
271
bed narrowPeak
194
bigBed narrowPeak
118
tagAlign
105
fastq
48
bed broadPeak
39
bigBed broadPeak
bed bed3+
27
tsv
4
bed bedMethyl
4
bigBed bedMethyl
3
hdf5
1
bed bed3
1
tagAlign bed3+
Organism
344
Homo sapiens
Biosample type
262
tissue
61
cell line
21
primary cell
Organ
917
pancreas
778
liver
657
connective tissue
503
epithelium
485
adipose tissue
363
heart
276
kidney
251
brain
223
vasculature
219
blood vessel
159
bone element
137
artery
86
limb
69
blood
69
bodily fluid
62
musculature of body
57
eye
41
nerve
34
embryo
24
spleen
20
lung
20
vein
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
336
AMP
8
T1D
Genome assembly (visualization)
254
GRCh38
207
hg19
Lab
336
AMP-T2D consortium
8
Kyle Gaulton, UCSD
Audit category:
3
inconsistent ontology term
1
inconsistent control
Audit category:
4
missing controlled_by
files.file_type!
bed bed3+
BIOSAMPLE
ASSAY
344 results
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ChIP-seq
total RNA-seq
snATAC-seq
ATAC-seq
small RNA-seq
pCHi-C
single cell RNA-seq
RRBS
WGBS
FAIRE-seq
tissue
spleen
20
1
1
2
brain
20
1
1
1
layer of hippocampus
23
substantia nigra
16
1
temporal lobe
15
1
1
+ See 73 more…
cell line
GM12878
60
1
primary cell
peripheral blood mononuclear cell
8
choroid plexus epithelial cell
3
1
astrocyte of the cerebellum
3
brain microvascular endothelial cell
3
cerebellar granule cell
2
+ See 1 more…
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