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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
404
ChIP-seq
113
total RNA-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
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
404
DNA binding
115
Transcription
DNA accessibility
4
3D chromatin structure
DNA methylation
1
DNA sequencing
Target of assay
361
transcription factor
89
recombinant protein
control
65
RNA binding protein
38
histone
38
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
259
November, 2017
84
February, 2021
57
November, 2018
40
August, 2021
28
December, 2018
20
January, 2019
19
October, 2019
13
November, 2019
9
March, 2020
6
February, 2023
5
May, 2021
3
November, 2020
2
March, 2023
1
May, 2020
1
October, 2022
Available data
503
bigWig
493
bam
392
bed narrowPeak
364
fastq
353
bigBed narrowPeak
118
tsv
58
bed broadPeak
58
bigBed broadPeak
16
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
hdf5
1
txt
1
vcf
Organism
543
Homo sapiens
Biosample type
2082
tissue
707
primary cell
547
cell line
314
in vitro differentiated cells
9
stem cell
Organ
339
liver
61
pancreas
56
artery
56
blood vessel
56
heart
56
vasculature
54
blood
54
bodily fluid
54
epithelium
15
kidney
8
embryo
1
mammary gland
Project
536
AMP
9
T1D
2
community
Genome assembly (visualization)
502
hg19
451
GRCh38
Lab
507
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
65
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_slims!
DNA accessibility
DNA methylation
target.investigated_as!
control
BIOSAMPLE
ASSAY
547 results
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Clear Filters
ChIP-seq
total RNA-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
318
14
2
2
2
1
EndoC_BH1
13
33
1
3
3
2
2
1
smooth muscle cell of the coronary artery
4
52
GM12878
54
H1-hESC
8
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