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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
443
ChIP-seq
92
total RNA-seq
29
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
Assay category
443
DNA binding
94
Transcription
29
DNA accessibility
2
3D chromatin structure
1
DNA methylation
Target of assay
343
transcription factor
82
recombinant protein
70
control
64
RNA binding protein
30
chromatin remodeller
28
histone
28
histone modification
14
broad histone mark
14
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
96
February, 2021
61
November, 2018
August, 2021
October, 2019
28
December, 2018
23
January, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
545
bam
480
bigWig
427
fastq
375
bed narrowPeak
347
bigBed narrowPeak
98
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
Organism
584
Homo sapiens
Biosample type
2232
tissue
1048
primary cell
588
cell line
342
in vitro differentiated cells
10
stem cell
Organ
370
liver
75
epithelium
75
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
2
kidney
1
mammary gland
Project
577
AMP
9
T1D
2
community
Genome assembly (visualization)
487
hg19
436
GRCh38
Lab
575
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
76
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
files.file_type!
ibed
month_released!
August, 2021
October, 2018
October, 2019
BIOSAMPLE
ASSAY
588 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
360
5
1
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
EndoC-BH1
1
1
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