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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
216
ChIP-seq
32
DNase-seq
16
total RNA-seq
4
ATAC-seq
4
small RNA-seq
3
Hi-C
3
pCHi-C
3
single cell RNA-seq
2
RRBS
1
FAIRE-seq
Assay category
216
DNA binding
37
DNA accessibility
23
Transcription
3
3D chromatin structure
2
DNA methylation
Target of assay
185
histone
185
histone modification
115
narrow histone mark
70
broad histone mark
31
control
3
RNA binding protein
3
transcription factor
Date released
91
November, 2017
84
October, 2019
30
June, 2019
28
May, 2019
18
July, 2019
16
October, 2017
11
February, 2020
3
March, 2020
2
November, 2018
1
February, 2023
Available data
241
bam
220
bigWig
201
bed narrowPeak
127
bigBed narrowPeak
118
tagAlign
47
bed broadPeak
38
bigBed broadPeak
35
bed bed3+
26
tsv
21
fastq
3
hdf5
2
bed bedMethyl
2
bigBed bedMethyl
1
bed bed3
1
tagAlign bed3+
Organism
284
Homo sapiens
Biosample type
263
tissue
21
primary cell
Organ
860
pancreas
759
liver
665
connective tissue
490
adipose tissue
432
epithelium
387
heart
329
kidney
283
brain
235
vasculature
230
blood vessel
141
artery
121
limb
87
musculature of body
75
bone element
69
blood
69
bodily fluid
61
eye
43
nerve
31
embryo
25
spleen
22
vein
20
lung
18
ureter
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
Project
284
AMP
Genome assembly (visualization)
215
GRCh38
162
hg19
Lab
284
AMP-T2D consortium
Audit category:
inconsistent ontology term
Audit category:
4
missing controlled_by
assay_title!
CRISPR genome editing followed by sgRNA sequencing
audit.ERROR.category!
inconsistent ontology term
lab.title!
Bing Ren, UCSD
BIOSAMPLE
ASSAY
284 results
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ChIP-seq
DNase-seq
total RNA-seq
ATAC-seq
small RNA-seq
Hi-C
pCHi-C
single cell RNA-seq
RRBS
FAIRE-seq
tissue
brain
20
14
1
1
1
layer of hippocampus
23
caudate nucleus
15
1
1
substantia nigra
16
1
temporal lobe
15
1
1
+ See 76 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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