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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
total RNA-seq
49
ChIP-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
HiChIP
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
49
DNA binding
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
31
RNA binding protein
27
control
23
histone
23
histone modification
23
recombinant protein
15
chromatin remodeller
12
narrow histone mark
11
broad histone mark
3
nucleotide modification
Date released
91
February, 2021
November, 2017
33
August, 2021
23
October, 2019
21
May, 2021
15
November, 2019
11
March, 2020
9
January, 2019
6
February, 2023
6
November, 2020
4
November, 2018
3
December, 2018
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
159
bam
135
bigWig
119
tsv
36
bed narrowPeak
16
fastq
11
bigBed narrowPeak
3
bed bed3+
3
tagAlign
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
223
Homo sapiens
Biosample type
2566
tissue
1072
primary cell
345
in vitro differentiated cells
227
cell line
10
stem cell
Organ
91
pancreas
78
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
30
liver
12
kidney
10
blood
10
bodily fluid
8
embryo
1
mammary gland
Project
216
AMP
9
T1D
2
community
Genome assembly (visualization)
147
hg19
139
GRCh38
Lab
191
AMP-T2D consortium
23
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
84
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
inconsistent assembly
month_released!
November, 2017
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
227 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
14
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
52
2
8
HepG2
14
7
1
2
2
2
1
1
Panc1
13
1
1
GM12878
9
1
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