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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
252
ChIP-seq
174
single cell RNA-seq
129
total RNA-seq
87
RNA microarray
83
ATAC-seq
28
snATAC-seq
25
pCHi-C
16
Hi-C
9
WGBS
8
RRBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
1
DNase-seq
Assay category
303
Transcription
252
DNA binding
114
DNA accessibility
17
DNA methylation
16
3D chromatin structure
Target of assay
133
histone
133
histone modification
120
control
73
narrow histone mark
60
broad histone mark
2
nucleotide modification
1
RNA binding protein
1
transcription factor
Date released
165
August, 2021
109
August, 2017
93
February, 2021
81
October, 2019
60
February, 2023
47
September, 2023
42
May, 2022
31
March, 2020
31
May, 2020
25
February, 2020
25
November, 2017
23
May, 2019
19
April, 2020
16
April, 2019
16
July, 2019
8
January, 2021
6
October, 2017
4
July, 2018
4
November, 2020
3
December, 2019
3
May, 2023
2
January, 2018
2
March, 2019
2
May, 2021
2
October, 2018
1
August, 2022
1
November, 2019
Available data
204
bam
159
tsv
157
txt
122
tagAlign
101
bed narrowPeak
fastq
60
bigWig
22
bed broadPeak
11
hic
10
bedpe bed3+
9
bed bedMethyl
9
bigBed bedMethyl
6
bigBed narrowPeak
6
csv
5
bed bed3
1
bed bed3+
1
bedpe
Organism
819
Homo sapiens
Biosample type
821
tissue
372
primary cell
106
in vitro differentiated cells
92
cell line
6
stem cell
Organ
134
kidney
122
heart
102
liver
92
bone element
76
pancreas
59
brain
53
eye
47
connective tissue
46
adipose tissue
38
musculature of body
28
blood vessel
28
vasculature
26
limb
20
lung
15
epithelium
12
nerve
11
artery
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
spleen
1
stomach
1
urinary bladder
Project
726
AMP
47
KPMP
29
T1D
19
LungMap
Genome assembly (visualization)
GRCh38
1461
hg19
Lab
612
AMP-T2D consortium
67
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
28
Kyle Gaulton, UCSD
19
Xin Sun, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
Audit category:
87
inconsistent ontology term
9
audit script error
assembly!
GRCh38
files.file_type!
fastq
BIOSAMPLE
ASSAY
821 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
RNA microarray
ATAC-seq
snATAC-seq
pCHi-C
Hi-C
WGBS
RRBS
MeRIP-seq
snDrop-seq
FAIRE-seq
DNase-seq
tissue
kidney
7
64
49
6
1
1
1
islet of Langerhans
41
26
27
7
4
3
1
4
liver
54
1
20
20
1
1
2
bone element
84
subcutaneous abdominal adipose tissue
36
3
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