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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1812
ChIP-seq
1397
total RNA-seq
489
ATAC-seq
360
single cell RNA-seq
208
DNase-seq
84
snATAC-seq
75
WGBS
48
pCHi-C
29
Hi-C
19
RRBS
18
small RNA-seq
5
FAIRE-seq
5
GRO-seq
4
MeRIP-seq
4
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
RNA microarray
3
snDrop-seq
2
Capture-C
2
HiChIP
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
DNAme array
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
360
Transcription
84
DNA accessibility
29
3D chromatin structure
Target of assay
3
control
Date released
115
August, 2021
56
May, 2022
49
April, 2018
47
September, 2023
45
February, 2021
42
July, 2018
40
September, 2020
19
April, 2020
16
January, 2021
11
July, 2019
8
March, 2020
3
August, 2018
3
February, 2023
3
May, 2023
3
October, 2019
3
October, 2022
2
June, 2018
1
August, 2022
1
December, 2018
1
December, 2019
1
March, 2019
1
March, 2023
1
November, 2018
1
November, 2019
1
September, 2018
Available data
202
tsv
155
fastq
104
bigWig
99
bam
73
zippedFastqFolder
18
hic
15
bedpe bed3+
14
txt
8
csv
6
bed bed3+
5
hdf5
3
cool
1
bedpe
Organism
472
Homo sapiens
Biosample type
246
primary cell
224
tissue
3
cell line
Organ
96
heart
94
pancreas
76
epithelium
71
kidney
19
lung
11
blood vessel
11
vasculature
8
blood
8
bodily fluid
8
musculature of body
6
brain
5
connective tissue
5
liver
4
limb
2
artery
2
vein
Project
252
AMP
136
HPAP
47
KPMP
19
LungMap
18
T1D
1
ITG
Genome assembly (visualization)
122
hg19
101
GRCh38
Lab
231
AMP-T2D consortium
136
Klaus Kaestner, Upenn
47
KPMP
19
Xin Sun, UCSD
18
Katalin Susztak, Upenn
18
Kyle Gaulton, UCSD
3
Bing Ren, UCSD
1
ITG
Audit category:
40
audit script error
inconsistent ontology term
Audit category:
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
473 results
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single cell RNA-seq
snATAC-seq
Hi-C
primary cell
Langerhans cell
85
48
pancreatic alpha cell
12
1
pancreatic beta cell
12
1
pancreatic acinar cell
11
1
pancreatic delta cell
11
+ See 18 more…
tissue
kidney
64
6
1
heart left ventricle
18
1
lung
9
10
heart right ventricle
17
1
left cardiac atrium
18
+ See 17 more…
cell line
HepG2
2
Panc1
1
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