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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
465
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
465
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
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
308
November, 2017
87
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
27
October, 2019
22
January, 2019
11
November, 2019
8
March, 2020
6
February, 2023
6
November, 2020
4
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
555
bam
500
bigWig
419
fastq
376
bed narrowPeak
345
bigBed narrowPeak
118
tsv
53
bed broadPeak
53
bigBed broadPeak
15
tagAlign
3
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
610
Homo sapiens
Biosample type
2168
tissue
773
primary cell
614
cell line
297
in vitro differentiated cells
9
stem cell
Organ
391
liver
64
pancreas
59
blood
59
bodily fluid
58
artery
58
blood vessel
58
heart
58
vasculature
54
epithelium
19
kidney
8
embryo
1
mammary gland
Project
605
AMP
7
T1D
2
community
Genome assembly (visualization)
498
hg19
438
GRCh38
Lab
569
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
67
inconsistent ontology term
1
inconsistent control
Audit category:
12
missing controlled_by
Audit category:
21
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
614 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
369
14
2
2
2
1
1
GM12878
59
smooth muscle cell of the coronary artery
6
52
EndoC_BH1
9
33
6
1
3
2
2
1
Panc1
10
1
1
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