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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
483
ChIP-seq
109
total RNA-seq
27
ATAC-seq
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
DNase-seq
1
WGBS
1
pCHi-C
1
whole genome sequencing assay
Assay category
483
DNA binding
109
Transcription
28
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
95
February, 2021
61
November, 2018
44
August, 2021
28
December, 2018
28
October, 2019
23
January, 2019
21
May, 2021
16
November, 2019
March, 2020
6
November, 2020
5
February, 2023
1
January, 2018
1
May, 2020
Available data
577
bam
515
bigWig
427
fastq
403
bed narrowPeak
355
bigBed narrowPeak
110
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
vcf
Organism
644
Homo sapiens
Biosample type
2343
tissue
863
primary cell
644
cell line
359
in vitro differentiated cells
1
stem cell
Organ
400
liver
84
pancreas
73
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
17
kidney
8
embryo
Project
638
AMP
6
T1D
Genome assembly (visualization)
520
hg19
457
GRCh38
Lab
599
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
85
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
assay_title!
single cell RNA-seq
files.file_type!
bed bed3+
month_released!
March, 2020
BIOSAMPLE
ASSAY
644 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
DNase-seq
WGBS
pCHi-C
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
1
1
1
EndoC_BH1
14
31
17
6
3
1
2
2
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
Panc1
13
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