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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
346
ChIP-seq
113
total RNA-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
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
346
DNA binding
115
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
317
transcription factor
89
recombinant protein
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
201
November, 2017
93
February, 2021
58
November, 2018
40
August, 2021
28
December, 2018
21
May, 2021
20
January, 2019
20
October, 2019
14
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
509
bigWig
506
bam
404
bed narrowPeak
365
fastq
355
bigBed narrowPeak
119
tsv
bed broadPeak
59
bigBed broadPeak
16
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
516
Homo sapiens
Biosample type
tissue
1000
primary cell
520
cell line
356
in vitro differentiated cells
9
stem cell
Organ
283
liver
80
pancreas
74
epithelium
64
artery
64
blood vessel
64
heart
64
vasculature
55
blood
55
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
509
AMP
9
T1D
2
community
Genome assembly (visualization)
458
hg19
419
GRCh38
Lab
480
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
84
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
biosample_type!
tissue
files.file_type!
bed broadPeak
organ_slims!
brain
target.investigated_as!
control
BIOSAMPLE
ASSAY
520 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
260
14
1
2
2
2
1
1
EndoC_BH1
13
33
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
54
1
H1-hESC
8
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