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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
79
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
Hi-C
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
109
DNA binding
81
Transcription
11
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
78
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
74
November, 2017
65
February, 2021
30
August, 2021
20
October, 2019
9
January, 2019
6
March, 2020
5
February, 2023
4
November, 2018
2
December, 2018
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
183
bam
116
bigWig
89
fastq
84
tsv
38
bed narrowPeak
26
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
15
tagAlign
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
217
Homo sapiens
Biosample type
2652
tissue
674
primary cell
320
in vitro differentiated cells
220
cell line
10
stem cell
Organ
102
liver
89
pancreas
epithelium
62
artery
62
blood vessel
62
heart
62
vasculature
12
kidney
10
blood
10
bodily fluid
8
embryo
1
mammary gland
Project
213
AMP
5
T1D
2
community
Genome assembly (visualization)
125
hg19
106
GRCh38
Lab
191
AMP-T2D consortium
22
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
9
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
assay_title!
Hi-C
organ_slims!
epithelium
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
220 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
81
14
1
2
2
1
1
smooth muscle cell of the coronary artery
2
52
8
Panc1
13
1
GM12878
9
1
H1-hESC
8
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