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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
366
ChIP-seq
113
total RNA-seq
29
ATAC-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
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
366
DNA binding
115
Transcription
31
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
control
65
RNA binding protein
38
histone
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
244
November, 2017
93
February, 2021
58
November, 2018
37
August, 2021
28
December, 2018
20
May, 2021
19
January, 2019
14
October, 2019
10
March, 2020
6
February, 2023
4
November, 2019
3
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
472
bigWig
471
bam
369
bed narrowPeak
349
fastq
335
bigBed narrowPeak
119
tsv
45
bed broadPeak
45
bigBed broadPeak
5
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
537
Homo sapiens
Biosample type
1957
tissue
816
primary cell
541
cell line
245
in vitro differentiated cells
7
stem cell
Organ
323
liver
64
artery
64
blood vessel
64
heart
64
vasculature
62
epithelium
62
pancreas
54
blood
54
bodily fluid
16
kidney
8
embryo
1
mammary gland
Project
532
AMP
7
T1D
2
community
Genome assembly (visualization)
480
hg19
432
GRCh38
Lab
504
AMP-T2D consortium
27
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
72
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
15
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
target.investigated_as!
histone modification
control
BIOSAMPLE
ASSAY
541 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
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
300
14
1
2
2
2
1
1
EndoC_BH1
1
33
19
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
8
GM12878
53
1
H1-hESC
8
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