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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
109
ChIP-seq
29
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
Capture-C
2
DNase-seq
2
HiChIP
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
115
Transcription
109
DNA binding
31
DNA accessibility
4
3D chromatin structure
1
DNA sequencing
Target of assay
63
transcription factor
24
control
23
histone
23
histone modification
12
narrow histone mark
11
broad histone mark
10
RNA binding protein
8
chromatin remodeller
7
recombinant protein
nucleotide modification
Date released
November, 2017
96
February, 2021
November, 2018
44
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
207
bam
197
bigWig
119
tsv
99
bed narrowPeak
51
fastq
50
bigBed narrowPeak
8
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed broadPeak
1
bigBed broadPeak
1
hdf5
1
txt
1
vcf
Organism
279
Homo sapiens
Biosample type
2667
tissue
1078
primary cell
394
in vitro differentiated cells
283
cell line
10
stem cell
Organ
89
pancreas
76
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
46
blood
46
bodily fluid
40
liver
19
kidney
8
embryo
1
mammary gland
Project
272
AMP
9
T1D
2
community
Genome assembly (visualization)
210
hg19
190
GRCh38
Lab
239
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
89
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
1
inconsistent assembly
month_released!
November, 2017
November, 2018
target.investigated_as!
nucleotide modification
BIOSAMPLE
ASSAY
283 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
15
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
52
6
8
GM12878
45
1
HepG2
14
18
1
2
2
2
1
Panc1
13
1
1
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