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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
48
ATAC-seq
31
total RNA-seq
24
ChIP-seq
7
Hi-C
7
RRBS
6
MeRIP-seq
6
pCHi-C
2
Capture-C
2
DNase-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
RNA microarray
Assay category
50
DNA accessibility
31
Transcription
24
DNA binding
7
3D chromatin structure
7
DNA methylation
Target of assay
23
histone
23
histone modification
14
narrow histone mark
9
broad histone mark
4
control
3
nucleotide modification
Date released
33
February, 2023
27
October, 2019
16
May, 2021
13
February, 2020
13
November, 2017
11
July, 2019
7
October, 2017
6
November, 2020
5
March, 2020
2
August, 2021
1
December, 2019
1
November, 2019
Available data
bam
503
bigWig
364
bed narrowPeak
203
fastq
200
bigBed narrowPeak
177
tsv
125
tagAlign
66
bed broadPeak
57
bigBed broadPeak
56
bed bed3+
7
bed bedMethyl
7
bigBed bedMethyl
4
hdf5
3
hic
2
bedpe bed3+
1
bed bed3
1
tagAlign bed3+
1
tar
Organism
134
Homo sapiens
Biosample type
93
tissue
28
cell line
14
primary cell
Organ
182
heart
163
kidney
110
liver
92
bone element
90
connective tissue
77
pancreas
55
epithelium
54
eye
51
vasculature
50
blood vessel
49
adipose tissue
43
brain
39
artery
39
musculature of body
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
vein
1
adrenal gland
1
blood
1
bodily fluid
1
embryo
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
nerve
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
thymus
1
urinary bladder
Project
152
HPAP
135
AMP
Genome assembly (visualization)
47
hg19
2
GRCh38
Lab
129
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
29
inconsistent ontology term
2
audit script error
Audit category:
1
missing controlled_by
files.file_type!
bam
BIOSAMPLE
ASSAY
135 results
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ATAC-seq
total RNA-seq
ChIP-seq
Hi-C
RRBS
MeRIP-seq
pCHi-C
Capture-C
DNase-seq
CRISPR genome editing followed by sgRNA sequencing
RNA microarray
tissue
islet of Langerhans
2
14
2
4
retina
15
3
pigmented layer of retina
12
2
brain
1
7
1
cingulate gyrus
6
+ See 18 more…
cell line
EndoC_BH1
18
1
6
2
1
primary cell
endothelial cell of umbilical vein
2
astrocyte of the cerebellum
1
brain microvascular endothelial cell
1
brain pericyte
1
choroid plexus epithelial cell
1
+ See 8 more…
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