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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
430
ChIP-seq
109
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
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
430
DNA binding
111
Transcription
28
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
354
transcription factor
82
recombinant protein
74
control
65
RNA binding protein
histone
31
histone modification
30
chromatin remodeller
16
narrow histone mark
15
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
300
November, 2017
95
February, 2021
61
November, 2018
41
August, 2021
28
December, 2018
October, 2019
22
January, 2019
20
May, 2021
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
524
bam
471
bigWig
411
fastq
359
bed narrowPeak
333
bigBed narrowPeak
115
tsv
44
bed broadPeak
44
bigBed broadPeak
9
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
596
Homo sapiens
Biosample type
2076
tissue
838
primary cell
600
cell line
274
in vitro differentiated cells
8
stem cell
Organ
382
liver
66
artery
66
blood vessel
66
heart
66
vasculature
65
epithelium
65
pancreas
60
blood
60
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
591
AMP
7
T1D
2
community
Genome assembly (visualization)
478
hg19
417
GRCh38
Lab
556
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:
67
inconsistent ontology term
1
inconsistent control
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
audit.ERROR.category!
inconsistent replicate
month_released!
October, 2019
target.investigated_as!
histone
BIOSAMPLE
ASSAY
600 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
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
EndoC_BH1
3
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
H1-hESC
8
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