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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
439
ChIP-seq
79
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
439
DNA binding
81
Transcription
10
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
78
control
64
RNA binding protein
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
300
November, 2017
70
February, 2021
54
November, 2018
42
August, 2021
27
October, 2019
26
December, 2018
17
January, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
500
bam
441
bigWig
397
fastq
358
bed narrowPeak
323
bigBed narrowPeak
84
tsv
54
bed broadPeak
54
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
549
Homo sapiens
Biosample type
2581
tissue
668
primary cell
552
cell line
367
in vitro differentiated cells
10
stem cell
Organ
381
liver
91
pancreas
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
51
blood
51
bodily fluid
18
kidney
8
embryo
1
mammary gland
Project
545
AMP
5
T1D
2
community
Genome assembly (visualization)
447
hg19
386
GRCh38
Lab
511
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
15
inconsistent control read length
1
inconsistent assembly
assay_title!
DNase-seq
organ_slims!
epithelium
skin of body
target.investigated_as!
chromatin remodeller
BIOSAMPLE
ASSAY
552 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
358
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
13
1
H1-hESC
8
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