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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
107
ChIP-seq
61
total RNA-seq
21
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
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
107
DNA binding
63
Transcription
22
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
81
control
61
RNA binding protein
26
chromatin remodeller
24
histone
24
histone modification
13
narrow histone mark
11
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
60
November, 2017
33
August, 2021
29
February, 2021
22
October, 2019
21
May, 2021
15
November, 2019
11
March, 2020
9
January, 2019
6
February, 2023
6
November, 2020
4
November, 2018
3
December, 2018
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
171
bam
114
bigWig
90
fastq
67
tsv
44
bed narrowPeak
27
bigBed narrowPeak
15
bed broadPeak
bigBed broadPeak
13
tagAlign
3
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
220
Homo sapiens
Biosample type
2382
tissue
1011
primary cell
344
in vitro differentiated cells
224
cell line
10
stem cell
Organ
90
liver
90
pancreas
78
epithelium
62
artery
blood vessel
62
heart
62
vasculature
12
kidney
10
blood
10
bodily fluid
8
embryo
1
mammary gland
Project
213
AMP
9
T1D
2
community
Genome assembly (visualization)
103
hg19
82
GRCh38
Lab
188
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:
84
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
Audit category:
1
inconsistent assembly
files.file_type!
bigBed broadPeak
target.investigated_as!
transcription factor
organ_slims!
blood vessel
BIOSAMPLE
ASSAY
224 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
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
67
14
1
2
2
2
1
1
EndoC_BH1
14
33
19
6
1
3
2
2
1
Panc1
13
1
GM12878
9
1
H1-hESC
8
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