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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
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
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
115
Transcription
113
DNA binding
29
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
33
transcription factor
histone
18
histone modification
9
broad histone mark
9
narrow histone mark
8
recombinant protein
4
RNA binding protein
3
nucleotide modification
Date released
96
February, 2021
64
November, 2017
41
August, 2021
21
October, 2019
20
May, 2021
10
March, 2020
8
January, 2019
6
February, 2023
6
November, 2019
6
November, 2020
5
November, 2018
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
547
bam
485
bigWig
411
fastq
369
bed narrowPeak
bigBed narrowPeak
119
tsv
45
bed broadPeak
45
bigBed broadPeak
9
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
285
Homo sapiens
Biosample type
1896
tissue
789
primary cell
289
cell line
277
in vitro differentiated cells
8
stem cell
Organ
103
liver
72
pancreas
66
artery
66
blood vessel
66
epithelium
66
heart
66
vasculature
18
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
280
AMP
7
T1D
2
community
Genome assembly (visualization)
162
hg19
129
GRCh38
Lab
245
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
80
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
1
inconsistent assembly
target.investigated_as!
histone
files.file_type!
bigBed narrowPeak
BIOSAMPLE
ASSAY
289 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
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
80
14
1
2
2
2
1
1
EndoC_BH1
3
33
19
6
1
3
2
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
GM12878
6
1
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