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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
446
ChIP-seq
113
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
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
446
DNA binding
115
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
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
300
November, 2017
87
February, 2021
61
November, 2018
41
August, 2021
28
December, 2018
23
October, 2019
22
January, 2019
8
March, 2020
6
February, 2023
6
November, 2020
5
November, 2019
4
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
537
bam
482
bigWig
411
fastq
359
bed narrowPeak
335
bigBed narrowPeak
118
tsv
45
bed broadPeak
45
bigBed broadPeak
9
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
591
Homo sapiens
Biosample type
1885
tissue
651
primary cell
595
cell line
240
in vitro differentiated cells
8
stem cell
Organ
382
liver
59
blood
59
bodily fluid
58
artery
58
blood vessel
58
heart
58
vasculature
54
pancreas
48
epithelium
19
kidney
8
embryo
1
mammary gland
Project
586
AMP
7
T1D
2
community
Genome assembly (visualization)
480
hg19
422
GRCh38
Lab
551
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
61
inconsistent ontology term
1
inconsistent control
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
target.investigated_as!
histone
BIOSAMPLE
ASSAY
595 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
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
360
14
2
2
2
1
1
GM12878
59
smooth muscle cell of the coronary artery
6
52
EndoC_BH1
3
33
6
1
3
2
2
1
H1-hESC
8
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