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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
413
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
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
413
DNA binding
115
Transcription
30
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
317
transcription factor
89
recombinant protein
83
control
61
RNA binding protein
26
chromatin remodeller
24
histone
24
histone modification
narrow histone mark
11
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
256
November, 2017
96
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
26
October, 2019
22
January, 2019
20
May, 2021
12
November, 2019
10
March, 2020
6
November, 2020
4
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
565
bam
503
bigWig
419
fastq
386
bed narrowPeak
345
bigBed narrowPeak
119
tsv
53
bed broadPeak
bigBed broadPeak
15
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
584
Homo sapiens
Biosample type
2277
tissue
932
primary cell
588
cell line
338
in vitro differentiated cells
9
stem cell
Organ
340
liver
82
pancreas
73
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
60
blood
60
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
581
AMP
5
T1D
2
community
Genome assembly (visualization)
458
hg19
408
GRCh38
Lab
545
AMP-T2D consortium
32
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
3
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
86
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
HiChIP
files.file_type!
bigBed broadPeak
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
588 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
CRISPR genome editing followed by sgRNA sequencing
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
317
14
1
2
2
2
1
1
EndoC_BH1
9
33
19
6
1
3
2
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
59
1
Panc1
10
1
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