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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
187
ChIP-seq
174
single cell RNA-seq
123
total RNA-seq
100
ATAC-seq
87
RNA microarray
28
snATAC-seq
23
pCHi-C
16
Hi-C
11
WGBS
10
RRBS
4
MeRIP-seq
3
FAIRE-seq
3
snDrop-seq
1
DNase-seq
Assay category
297
Transcription
187
DNA binding
132
DNA accessibility
21
DNA methylation
16
3D chromatin structure
Target of assay
126
control
62
histone
62
histone modification
37
narrow histone mark
25
broad histone mark
2
nucleotide modification
1
RNA binding protein
1
transcription factor
Date released
165
August, 2021
93
February, 2021
73
August, 2017
71
October, 2019
66
May, 2022
59
February, 2023
47
September, 2023
29
March, 2020
29
October, 2018
20
May, 2019
19
April, 2020
16
April, 2019
14
July, 2019
13
February, 2020
12
December, 2017
8
January, 2021
4
December, 2018
4
July, 2018
4
November, 2018
4
November, 2020
4
September, 2017
3
December, 2019
3
March, 2019
3
May, 2023
2
January, 2018
2
May, 2021
1
August, 2022
1
January, 2019
1
November, 2019
Available data
179
bam
157
txt
145
tsv
99
bed narrowPeak
94
fastq
tagAlign
58
bigWig
21
bed broadPeak
11
hic
10
bedpe bed3+
8
bed bedMethyl
8
bigBed bedMethyl
6
csv
5
bigBed narrowPeak
4
bed bed3
1
bed bed3+
1
bedpe
Organism
768
Homo sapiens
Biosample type
770
tissue
543
primary cell
192
cell line
107
in vitro differentiated cells
7
stem cell
Organ
134
kidney
122
heart
109
pancreas
92
bone element
72
liver
59
connective tissue
58
adipose tissue
53
eye
28
blood vessel
28
vasculature
brain
26
limb
25
musculature of body
20
lung
15
epithelium
12
nerve
11
artery
9
spleen
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
675
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
GRCh38
1550
hg19
Lab
536
AMP-T2D consortium
67
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
86
inconsistent ontology term
9
audit script error
assembly!
GRCh38
files.file_type!
tagAlign
organ_slims!
brain
BIOSAMPLE
ASSAY
770 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
ATAC-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
WGBS
RRBS
MeRIP-seq
FAIRE-seq
snDrop-seq
DNase-seq
tissue
islet of Langerhans
37
32
45
7
4
3
1
4
1
kidney
7
64
49
6
1
1
1
bone element
84
liver
19
1
20
20
1
1
3
1
subcutaneous abdominal adipose tissue
28
3
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