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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
109
ChIP-seq
80
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Hi-C
2
HiChIP
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
109
DNA binding
82
Transcription
10
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
72
control
32
transcription factor
8
recombinant protein
5
histone
5
histone modification
3
RNA binding protein
3
narrow histone mark
2
broad histone mark
Date released
70
February, 2021
66
November, 2017
42
August, 2021
14
October, 2019
8
January, 2019
6
March, 2020
5
February, 2023
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
519
bam
466
bigWig
427
fastq
383
bed narrowPeak
bigBed narrowPeak
85
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
1
vcf
Organism
219
Homo sapiens
Biosample type
1733
tissue
655
primary cell
374
in vitro differentiated cells
222
cell line
10
stem cell
Organ
108
liver
pancreas
78
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
18
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
215
AMP
5
T1D
2
community
Genome assembly (visualization)
128
hg19
93
GRCh38
Lab
181
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
organ_slims!
pancreas
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
222 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
85
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
GM12878
6
1
EndoC_BH1
3
2
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