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Schema
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
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
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
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
61
November, 2018
60
February, 2021
42
August, 2021
28
December, 2018
23
January, 2019
October, 2019
6
March, 2020
5
February, 2023
2
March, 2023
1
May, 2020
1
October, 2022
Available data
495
bam
453
bigWig
427
fastq
366
bed narrowPeak
347
bigBed narrowPeak
81
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
bed bed3+
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hic
1
txt
1
vcf
Organism
541
Homo sapiens
Biosample type
1655
tissue
544
cell line
488
primary cell
323
in vitro differentiated cells
7
stem cell
Organ
399
liver
60
blood
60
bodily fluid
58
artery
58
blood vessel
58
epithelium
58
heart
pancreas
58
vasculature
8
embryo
4
kidney
1
mammary gland
Project
537
AMP
5
T1D
2
community
Genome assembly (visualization)
449
hg19
388
GRCh38
Lab
503
AMP-T2D consortium
34
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
3
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
files.file_type!
bed bed3+
month_released!
October, 2019
organ_slims!
pancreas
BIOSAMPLE
ASSAY
544 results
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ChIP-seq
total RNA-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
378
14
2
1
2
1
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
H1-hESC
8
EndoC_BH1
3
2
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