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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
123
ChIP-seq
113
total RNA-seq
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
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
123
DNA binding
115
Transcription
4
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
82
February, 2021
74
November, 2017
33
August, 2021
23
October, 2019
14
November, 2019
9
January, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
4
November, 2018
3
December, 2018
2
March, 2023
May, 2020
1
October, 2022
Available data
223
bam
163
bigWig
117
tsv
90
fastq
42
bed narrowPeak
27
bigBed narrowPeak
15
bed broadPeak
15
bigBed broadPeak
15
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
267
Homo sapiens
Biosample type
2171
tissue
829
primary cell
303
in vitro differentiated cells
271
cell line
10
stem cell
Organ
102
liver
72
pancreas
59
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
12
kidney
9
blood
9
bodily fluid
8
embryo
1
mammary gland
Project
260
AMP
9
T1D
2
community
Genome assembly (visualization)
165
hg19
145
GRCh38
Lab
235
AMP-T2D consortium
23
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
65
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
11
inconsistent control read length
1
inconsistent assembly
assay_title!
ATAC-seq
month_released!
May, 2020
October, 2018
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
271 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
STARR-seq
pCHi-C
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
81
14
2
1
2
1
1
EndoC_BH1
14
33
6
1
3
2
2
1
smooth muscle cell of the coronary artery
2
52
Panc1
13
1
1
GM12878
9
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