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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
109
ChIP-seq
28
ATAC-seq
6
MeRIP-seq
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
109
DNA binding
29
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
83
control
61
RNA binding protein
26
chromatin remodeller
24
histone
24
histone modification
13
narrow histone mark
11
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
60
November, 2017
18
October, 2019
17
May, 2021
16
August, 2021
14
November, 2019
13
February, 2021
6
February, 2023
6
November, 2020
4
January, 2019
4
November, 2018
3
December, 2018
2
March, 2020
2
March, 2023
1
January, 2018
1
October, 2022
Available data
233
bam
166
bigWig
tsv
90
fastq
52
bed narrowPeak
27
bigBed narrowPeak
15
bed broadPeak
bigBed broadPeak
15
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
163
Homo sapiens
Biosample type
1431
tissue
764
primary cell
213
in vitro differentiated cells
167
cell line
6
stem cell
Organ
75
liver
56
pancreas
43
epithelium
10
artery
10
blood
10
blood vessel
10
bodily fluid
10
heart
10
vasculature
6
kidney
Project
158
AMP
7
T1D
2
community
Genome assembly (visualization)
58
hg19
38
GRCh38
Lab
140
AMP-T2D consortium
14
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
45
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
bigBed broadPeak
tsv
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
167 results
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Clear Filters
ChIP-seq
ATAC-seq
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
67
1
2
2
1
1
1
EndoC_BH1
14
18
6
1
3
2
2
1
Panc1
13
1
GM12878
9
1
smooth muscle cell of the coronary artery
2
8
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