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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
662
ChIP-seq
243
total RNA-seq
62
ATAC-seq
pCHi-C
6
MeRIP-seq
5
GRO-seq
5
Hi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
2
single cell RNA-seq
1
CRISPR RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
CRISPRi RNA-seq
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
662
DNA binding
249
Transcription
63
DNA accessibility
5
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
403
transcription factor
145
histone
145
histone modification
112
control
82
recombinant protein
76
RNA binding protein
72
broad histone mark
72
narrow histone mark
33
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
153
May, 2021
121
February, 2021
82
August, 2021
68
August, 2017
61
November, 2018
46
December, 2017
39
February, 2018
October, 2019
28
December, 2018
23
January, 2019
21
November, 2019
19
February, 2023
11
March, 2020
6
January, 2018
6
November, 2020
4
March, 2023
2
December, 2019
1
October, 2022
Available data
843
bam
755
bigWig
571
fastq
517
bed narrowPeak
362
bigBed narrowPeak
237
tsv
60
tagAlign
59
bed broadPeak
59
bigBed broadPeak
26
bed bed3+
6
bed bed3
4
bed bedgraph
4
bedpe bed3+
4
hic
3
tar
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
1000
Homo sapiens
Biosample type
tissue
primary cell
626
cell line
374
in vitro differentiated cells
6
stem cell
Organ
414
liver
101
epithelium
90
connective tissue
80
pancreas
67
heart
66
artery
66
blood vessel
66
vasculature
61
blood
61
bodily fluid
37
embryo
2
kidney
Project
993
AMP
9
T1D
4
community
Genome assembly (visualization)
792
hg19
708
GRCh38
5
hg18
Lab
910
AMP-T2D consortium
52
Kyle Gaulton, UCSD
34
Bing Ren, UCSD
Struan F.A. Grant, CHOP
6
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
Audit category:
182
inconsistent ontology term
2
audit script error
1
inconsistent control
1
inconsistent replicate
Audit category:
19
missing controlled_by
Audit category:
45
inconsistent control read length
8
inconsistent control run_type
assay_title!
pCHi-C
biosample_type!
primary cell
tissue
lab.title!
Struan F.A. Grant, CHOP
month_released!
October, 2019
BIOSAMPLE
ASSAY
1006 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
GRO-seq
Hi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
single cell RNA-seq
CRISPR RNA-seq
CRISPR genome editing followed by sgRNA sequencing
CRISPRi RNA-seq
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
EndoC_BH1
15
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
+ See 6 more…
in vitro differentiated cells
adipocyte
67
5
5
1
cardiomyocytes
3
59
embryonic stem cell
40
7
5
neural progenitor cell
21
7
10
pancreatic endoderm
18
4
1
+ See 27 more…
stem cell
hESC
3
1
SB Ad3.1
1
1
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