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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
218
ChIP-seq
32
DNase-seq
17
total RNA-seq
12
single cell RNA-seq
10
snATAC-seq
4
small RNA-seq
3
ATAC-seq
3
Hi-C
3
pCHi-C
2
RRBS
1
FAIRE-seq
Assay category
218
DNA binding
46
DNA accessibility
33
Transcription
3
3D chromatin structure
2
DNA methylation
Target of assay
187
histone
187
histone modification
117
narrow histone mark
70
broad histone mark
31
control
3
RNA binding protein
3
transcription factor
Date released
91
November, 2017
86
October, 2019
30
June, 2019
28
May, 2019
19
April, 2020
18
July, 2019
16
October, 2017
12
February, 2020
3
March, 2020
2
November, 2018
Available data
243
bam
222
bigWig
203
bed narrowPeak
127
bigBed narrowPeak
118
tagAlign
47
bed broadPeak
38
bigBed broadPeak
35
bed bed3+
27
tsv
21
fastq
3
hdf5
2
bed bedMethyl
2
bigBed bedMethyl
bed bed3
1
tagAlign bed3+
Organism
304
Homo sapiens
Biosample type
284
tissue
21
primary cell
Organ
946
pancreas
790
liver
677
connective tissue
524
epithelium
490
adipose tissue
393
heart
340
kidney
285
brain
236
vasculature
230
blood vessel
155
bone element
141
artery
122
limb
96
musculature of body
69
blood
69
bodily fluid
61
eye
43
nerve
37
embryo
25
spleen
22
vein
20
lung
18
ureter
12
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
286
AMP
19
LungMap
Genome assembly (visualization)
217
GRCh38
163
hg19
Lab
286
AMP-T2D consortium
19
Xin Sun, UCSD
Audit category:
3
inconsistent ontology term
Audit category:
4
missing controlled_by
month_released!
May, 2023
files.file_type!
bed bed3
BIOSAMPLE
ASSAY
305 results
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ChIP-seq
DNase-seq
total RNA-seq
single cell RNA-seq
snATAC-seq
small RNA-seq
ATAC-seq
Hi-C
pCHi-C
RRBS
FAIRE-seq
tissue
brain
20
14
1
1
layer of hippocampus
23
lung
9
10
1
caudate nucleus
15
1
1
substantia nigra
16
1
+ See 78 more…
primary cell
astrocyte of the cerebellum
3
1
1
brain microvascular endothelial cell
3
1
1
choroid plexus epithelial cell
3
1
1
brain pericyte
1
1
cerebellar granule cell
2
+ See 2 more…
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