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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
ChIP-seq
249
total RNA-seq
71
ATAC-seq
11
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
DNase-seq
2
HiChIP
2
single cell RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
253
Transcription
74
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
3
control
3
nucleotide modification
Date released
114
February, 2021
109
May, 2021
47
August, 2021
22
February, 2023
18
March, 2020
15
February, 2018
15
October, 2019
8
November, 2019
6
November, 2020
5
January, 2018
5
January, 2019
2
December, 2019
2
March, 2023
1
August, 2017
1
August, 2018
1
December, 2018
1
May, 2020
1
November, 2018
1
October, 2022
Available data
262
bam
255
bigWig
250
tsv
34
bed narrowPeak
28
fastq
9
bed bed3+
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
5
bigBed narrowPeak
4
txt
2
bed broadPeak
2
bigBed broadPeak
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
370
Homo sapiens
Biosample type
1870
tissue
809
primary cell
196
in vitro differentiated cells
178
cell line
7
stem cell
Organ
66
epithelium
64
pancreas
61
heart
60
artery
60
blood vessel
60
vasculature
30
connective tissue
23
liver
15
embryo
9
kidney
1
adipose tissue
1
blood
1
bodily fluid
1
mammary gland
Project
365
AMP
7
T1D
2
community
Genome assembly (visualization)
301
hg19
263
GRCh38
4
hg18
Lab
328
AMP-T2D consortium
16
Bing Ren, UCSD
15
Kyle Gaulton, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
175
inconsistent ontology term
2
audit script error
1
inconsistent replicate
Audit category:
1
inconsistent assembly
assay_title!
ChIP-seq
BIOSAMPLE
ASSAY
374 results
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total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
HiChIP
single cell RNA-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
in vitro differentiated cells
cardiomyocytes
59
cardiac precursors (cardiac muscle cell)
19
1
1
neural progenitor cell
7
10
adipocyte
5
8
1
1
embryonic stem cell
7
6
1
+ See 28 more…
cell line
EndoC_BH1
33
19
1
6
2
3
2
1
smooth muscle cell of the coronary artery
52
8
HepG2
14
1
2
2
2
1
1
H1-hESC
8
EndoC-BH1
1
1
+ See 13 more…
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