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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
446
ChIP-seq
76
total RNA-seq
10
ATAC-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
2
Hi-C
2
HiChIP
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
446
DNA binding
78
Transcription
10
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
353
transcription factor
82
recombinant protein
69
control
64
RNA binding protein
30
chromatin remodeller
19
histone
19
histone modification
10
narrow histone mark
9
broad histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
70
February, 2021
61
November, 2018
40
August, 2021
28
December, 2018
23
January, 2019
5
February, 2023
4
March, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
504
bam
454
bigWig
427
fastq
375
bed narrowPeak
347
bigBed narrowPeak
79
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
548
Homo sapiens
Biosample type
1882
tissue
664
primary cell
551
cell line
391
in vitro differentiated cells
10
stem cell
Organ
401
liver
pancreas
79
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
kidney
8
embryo
1
mammary gland
Project
544
AMP
5
T1D
2
community
Genome assembly (visualization)
460
hg19
397
GRCh38
Lab
512
AMP-T2D consortium
32
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:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
month_released!
June, 2019
organ_slims!
kidney
pancreas
BIOSAMPLE
ASSAY
551 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Hi-C
HiChIP
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
GM12878
60
1
H1-hESC
8
EndoC_BH1
3
2
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