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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
total RNA-seq
19
ATAC-seq
12
ChIP-seq
6
pCHi-C
5
STARR-seq
3
MeRIP-seq
2
Capture-C
2
Hi-C
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
115
Transcription
19
DNA accessibility
12
DNA binding
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
control
9
transcription factor
3
histone
3
histone modification
3
nucleotide modification
2
RNA binding protein
2
broad histone mark
1
narrow histone mark
1
recombinant protein
Date released
79
February, 2021
25
August, 2021
20
May, 2021
10
March, 2020
10
November, 2017
6
October, 2019
5
January, 2019
3
November, 2020
2
March, 2023
2
November, 2018
1
December, 2018
1
February, 2023
1
January, 2018
1
May, 2020
1
November, 2019
1
October, 2022
Available data
509
bigWig
506
bam
bed narrowPeak
365
fastq
355
bigBed narrowPeak
119
tsv
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
164
Homo sapiens
Biosample type
1561
tissue
630
primary cell
179
in vitro differentiated cells
168
cell line
7
stem cell
Organ
59
pancreas
58
epithelium
52
artery
52
blood vessel
52
heart
52
vasculature
32
liver
8
embryo
8
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
164
AMP
2
T1D
2
community
Genome assembly (visualization)
115
hg19
106
GRCh38
Lab
148
AMP-T2D consortium
15
Bing Ren, UCSD
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
62
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed narrowPeak
hic
lab.title!
Kyle Gaulton, UCSD
target.investigated_as!
control
BIOSAMPLE
ASSAY
168 results
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Clear Filters
total RNA-seq
ATAC-seq
ChIP-seq
pCHi-C
STARR-seq
MeRIP-seq
Capture-C
Hi-C
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
18
3
2
1
smooth muscle cell of the coronary artery
52
HepG2
14
11
2
2
1
1
1
H1-hESC
8
EndoC-BH1
1
1
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