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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
416
ChIP-seq
113
total RNA-seq
29
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
416
DNA binding
115
Transcription
31
DNA accessibility
4
3D chromatin structure
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
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
285
November, 2017
96
February, 2021
54
November, 2018
41
August, 2021
26
December, 2018
23
October, 2019
20
May, 2021
16
January, 2019
10
March, 2020
6
February, 2023
6
November, 2019
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
517
bam
455
bigWig
381
fastq
339
bed narrowPeak
305
bigBed narrowPeak
119
tsv
41
bed broadPeak
41
bigBed broadPeak
9
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
590
Homo sapiens
Biosample type
2148
tissue
850
primary cell
594
cell line
in vitro differentiated cells
8
stem cell
Organ
363
liver
73
pancreas
67
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
50
blood
50
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
585
AMP
7
T1D
2
community
Genome assembly (visualization)
463
hg19
404
GRCh38
Lab
550
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:
80
inconsistent ontology term
1
inconsistent replicate
Audit category:
6
missing controlled_by
Audit category:
4
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
chromatin remodeller
histone
biosample_type!
in vitro differentiated cells
BIOSAMPLE
ASSAY
594 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-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
340
14
1
2
2
2
1
1
EndoC_BH1
3
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
49
1
H1-hESC
8
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