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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
448
ChIP-seq
108
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
Hi-C
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
448
DNA binding
110
Transcription
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
353
transcription factor
82
recombinant protein
72
control
64
RNA binding protein
30
chromatin remodeller
21
histone
21
histone modification
12
narrow histone mark
9
broad histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
315
November, 2017
87
February, 2021
61
November, 2018
44
August, 2021
28
December, 2018
October, 2019
23
January, 2019
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
529
bam
487
bigWig
427
fastq
368
bed narrowPeak
347
bigBed narrowPeak
113
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
584
Homo sapiens
Biosample type
2065
tissue
773
primary cell
588
cell line
347
in vitro differentiated cells
10
stem cell
Organ
400
liver
60
blood
60
bodily fluid
58
artery
58
blood vessel
58
heart
58
vasculature
43
epithelium
43
pancreas
8
embryo
4
kidney
1
mammary gland
Project
577
AMP
9
T1D
2
community
Genome assembly (visualization)
484
hg19
422
GRCh38
Lab
541
AMP-T2D consortium
34
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
45
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
assay_slims!
DNA accessibility
month_released!
November, 2019
October, 2019
BIOSAMPLE
ASSAY
588 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
2
2
1
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
EndoC_BH1
2
32
6
3
2
2
1
H1-hESC
8
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
iPSC derived cell line
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
RCC 7860 vector
1
Synthesized DNA
1
fibroblast cell line
1
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