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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
152
ChIP-seq
56
ATAC-seq
18
total RNA-seq
11
pCHi-C
7
Hi-C
5
STARR-seq
4
Capture-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
152
DNA binding
56
DNA accessibility
22
Transcription
7
3D chromatin structure
1
DNA sequencing
Target of assay
104
control
35
histone
35
histone modification
20
broad histone mark
16
transcription factor
15
narrow histone mark
7
RNA binding protein
nucleotide modification
Date released
59
May, 2021
47
November, 2017
42
August, 2021
20
August, 2017
19
February, 2023
17
February, 2021
14
October, 2019
10
March, 2020
9
December, 2017
9
November, 2019
8
February, 2018
November, 2018
3
January, 2019
3
November, 2020
2
December, 2019
2
March, 2023
1
August, 2018
1
December, 2018
1
May, 2020
1
October, 2022
Available data
812
bam
bigWig
507
fastq
480
bed narrowPeak
316
bigBed narrowPeak
250
tsv
60
bed broadPeak
60
bigBed broadPeak
60
tagAlign
28
bed bed3+
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
4
txt
3
tar
2
ibed
1
hdf5
1
vcf
Organism
264
Homo sapiens
Biosample type
1000
tissue
474
primary cell
135
in vitro differentiated cells
133
cell line
7
stem cell
Organ
69
liver
40
connective tissue
34
pancreas
30
epithelium
10
artery
10
blood vessel
10
heart
10
vasculature
8
embryo
7
kidney
3
blood
3
bodily fluid
1
adipose tissue
1
mammary gland
Project
261
AMP
5
T1D
2
community
Genome assembly (visualization)
56
hg19
32
GRCh38
Lab
194
AMP-T2D consortium
47
Kyle Gaulton, UCSD
20
Bing Ren, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Struan F.A. Grant, CHOP
Audit category:
53
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
1
missing controlled_by
files.file_type!
bigWig
month_released!
November, 2018
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
268 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
Hi-C
STARR-seq
Capture-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
embryonic stem cell
38
5
1
adipocyte
20
5
1
1
neural progenitor cell
8
10
cardiomyocytes (cardiac muscle cell)
1
2
2
2
pancreatic endoderm
6
+ See 16 more…
cell line
HepG2
51
1
9
2
2
2
1
EndoC_BH1
2
17
1
2
3
3
2
1
smooth muscle cell of the coronary artery
2
8
Panc1
7
GM12878
3
+ See 11 more…
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