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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
607
ChIP-seq
249
total RNA-seq
71
ATAC-seq
11
pCHi-C
8
Hi-C
6
MeRIP-seq
5
STARR-seq
4
Capture-C
4
GRO-seq
3
CRISPR genome editing followed by DNA sequencing
3
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
607
DNA binding
251
Transcription
74
DNA accessibility
8
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
410
transcription factor
150
histone
150
histone modification
120
control
89
recombinant protein
76
RNA binding protein
broad histone mark
74
narrow histone mark
33
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
307
November, 2017
143
May, 2021
122
February, 2021
78
August, 2021
61
November, 2018
48
August, 2017
34
October, 2019
32
December, 2017
31
February, 2018
28
December, 2018
23
January, 2019
22
February, 2023
19
March, 2020
15
November, 2019
6
November, 2020
5
January, 2018
2
March, 2023
1
August, 2018
1
May, 2020
1
October, 2022
Available data
818
bam
726
bigWig
529
fastq
482
bed narrowPeak
355
bigBed narrowPeak
248
tsv
52
bed broadPeak
52
bigBed broadPeak
40
tagAlign
24
bed bed3+
9
bedpe bed3+
7
bed bedgraph
6
bed bed3
6
hic
4
txt
3
tar
2
ibed
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
975
Homo sapiens
Biosample type
2439
tissue
906
primary cell
643
cell line
336
in vitro differentiated cells
9
stem cell
Organ
400
liver
90
epithelium
85
pancreas
77
connective tissue
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
33
embryo
19
kidney
1
adipose tissue
1
mammary gland
Project
968
AMP
9
T1D
2
community
Genome assembly (visualization)
773
hg19
676
GRCh38
4
hg18
Lab
889
AMP-T2D consortium
42
Kyle Gaulton, UCSD
33
Bing Ren, UCSD
7
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
201
inconsistent ontology term
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
audit script error
target.investigated_as!
broad histone mark
assay_title!
snATAC-seq
BIOSAMPLE
ASSAY
979 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
Hi-C
MeRIP-seq
STARR-seq
Capture-C
GRO-seq
CRISPR genome editing followed by DNA sequencing
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
369
14
1
2
2
2
1
1
EndoC_BH1
9
33
19
1
6
2
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
9
1
1
+ See 14 more…
in vitro differentiated cells
adipocyte
47
5
8
1
1
cardiomyocytes
3
59
embryonic stem cell
29
7
6
1
neural progenitor cell
14
7
10
cardiac precursors (cardiac muscle cell)
19
1
1
+ See 31 more…
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