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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
43
ChIP-seq
28
ATAC-seq
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
WGBS
1
pCHi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
43
DNA binding
30
DNA accessibility
4
3D chromatin structure
2
Transcription
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
18
November, 2017
17
May, 2021
12
August, 2021
12
November, 2019
10
February, 2021
10
October, 2019
6
February, 2023
3
December, 2018
3
November, 2020
2
March, 2020
2
March, 2023
1
January, 2018
1
January, 2019
1
November, 2018
1
October, 2022
Available data
157
bam
153
bigWig
tsv
52
bed narrowPeak
28
fastq
27
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
11
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
95
Homo sapiens
Biosample type
1420
tissue
776
primary cell
177
in vitro differentiated cells
99
cell line
5
stem cell
Organ
46
pancreas
38
epithelium
29
liver
8
artery
8
blood vessel
8
heart
8
vasculature
4
blood
4
bodily fluid
3
kidney
Project
90
AMP
7
T1D
2
community
Genome assembly (visualization)
60
hg19
51
GRCh38
Lab
79
AMP-T2D consortium
10
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
37
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
1
inconsistent assembly
files.file_type!
tsv
target.investigated_as!
transcription factor
control
BIOSAMPLE
ASSAY
99 results
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Clear Filters
ChIP-seq
ATAC-seq
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
WGBS
pCHi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
12
18
1
3
3
2
2
1
HepG2
21
1
2
2
1
1
1
Panc1
7
1
1
smooth muscle cell of the coronary artery
8
GM12878
3
1
EndoC-BH1
1
1
HEK293T
2
MIN6
1
Synthesized DNA
1
glomerular visceral epithelial cell
1
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