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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
466
ChIP-seq
104
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
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
Assay category
466
DNA binding
106
Transcription
3
3D chromatin structure
2
DNA accessibility
1
DNA methylation
Target of assay
350
transcription factor
89
recombinant protein
79
control
64
RNA binding protein
35
histone
35
histone modification
30
chromatin remodeller
18
broad histone mark
17
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
87
February, 2021
61
November, 2018
30
October, 2019
28
December, 2018
23
January, 2019
15
November, 2019
10
August, 2021
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
572
bam
505
bigWig
427
fastq
380
bed narrowPeak
355
bigBed narrowPeak
109
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
Organism
595
Homo sapiens
Biosample type
2508
tissue
845
primary cell
599
cell line
352
in vitro differentiated cells
10
stem cell
Organ
369
liver
73
pancreas
60
blood
60
bodily fluid
60
epithelium
58
artery
58
blood vessel
58
heart
58
vasculature
17
kidney
8
embryo
1
mammary gland
Project
588
AMP
9
T1D
2
community
Genome assembly (visualization)
502
hg19
454
GRCh38
Lab
586
AMP-T2D consortium
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
72
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
month_released!
April, 2018
lab.title!
Bing Ren, UCSD
assay_title!
ATAC-seq
BIOSAMPLE
ASSAY
599 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
cell line
HepG2
360
5
2
1
1
EndoC_BH1
15
33
6
3
1
2
2
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
Panc1
13
1
1
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