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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
393
ChIP-seq
76
total RNA-seq
10
ATAC-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
3
STARR-seq
2
HiChIP
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
393
DNA binding
78
Transcription
11
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
353
transcription factor
82
recombinant protein
75
control
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
other context
2
other post-translational modification
Date released
279
November, 2017
70
February, 2021
40
November, 2018
39
August, 2021
26
December, 2018
17
January, 2019
15
October, 2019
5
February, 2023
4
March, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
453
bam
398
bigWig
362
fastq
318
bed narrowPeak
291
bigBed narrowPeak
79
tsv
54
bed broadPeak
54
bigBed broadPeak
20
tagAlign
3
bed bed3+
2
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
497
Homo sapiens
Biosample type
2434
tissue
677
primary cell
500
cell line
361
in vitro differentiated cells
10
stem cell
Organ
345
liver
91
pancreas
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
51
blood
51
bodily fluid
kidney
8
embryo
1
mammary gland
Project
493
AMP
5
T1D
2
community
Genome assembly (visualization)
405
hg19
346
GRCh38
Lab
462
AMP-T2D consortium
31
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
1
inconsistent control
1
inconsistent ontology term
1
inconsistent replicate
Audit category:
11
missing controlled_by
Audit category:
20
inconsistent control read length
5
inconsistent control run_type
1
inconsistent assembly
organ_slims!
epithelium
kidney
target.investigated_as!
RNA binding protein
other context
BIOSAMPLE
ASSAY
500 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
STARR-seq
HiChIP
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
322
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
50
1
Panc1
13
1
1
H1-hESC
8
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