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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
469
ChIP-seq
79
total RNA-seq
10
ATAC-seq
6
pCHi-C
5
STARR-seq
2
Hi-C
1
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
469
DNA binding
81
Transcription
11
DNA accessibility
2
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
360
transcription factor
89
recombinant protein
78
control
64
RNA binding protein
30
chromatin remodeller
26
histone
26
histone modification
13
broad histone mark
13
narrow histone mark
2
other context
2
other post-translational modification
Date released
315
November, 2017
70
February, 2021
61
November, 2018
42
August, 2021
28
December, 2018
27
October, 2019
23
January, 2019
6
March, 2020
February, 2023
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
531
bam
471
bigWig
427
fastq
389
bed narrowPeak
354
bigBed narrowPeak
84
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
574
Homo sapiens
Biosample type
2680
tissue
629
primary cell
577
cell line
354
in vitro differentiated cells
10
stem cell
Organ
401
liver
90
pancreas
epithelium
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
61
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
575
AMP
2
community
Genome assembly (visualization)
477
hg19
414
GRCh38
Lab
541
AMP-T2D consortium
34
Bing Ren, UCSD
2
Anna Gloyn, Oxford
Audit category:
16
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
inconsistent assembly
audit.WARNING.category!
inconsistent assembly
organ_slims!
epithelium
month_released!
February, 2023
BIOSAMPLE
ASSAY
577 results
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ChIP-seq
total RNA-seq
ATAC-seq
pCHi-C
STARR-seq
Hi-C
DNase-seq
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
Panc1
13
1
H1-hESC
8
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