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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
393
ChIP-seq
109
total RNA-seq
28
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-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
393
DNA binding
111
Transcription
28
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
295
transcription factor
82
recombinant protein
68
control
52
RNA binding protein
30
histone
30
histone modification
15
broad histone mark
15
narrow histone mark
12
chromatin remodeller
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
311
November, 2017
96
February, 2021
44
August, 2021
42
November, 2018
October, 2019
21
May, 2021
16
November, 2019
11
March, 2020
6
February, 2023
6
November, 2020
5
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
485
bam
439
bigWig
359
fastq
327
bed narrowPeak
285
bigBed narrowPeak
115
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
559
Homo sapiens
Biosample type
2526
tissue
1015
primary cell
563
cell line
384
in vitro differentiated cells
10
stem cell
Organ
393
liver
77
epithelium
77
pancreas
66
artery
66
blood vessel
66
heart
66
vasculature
61
blood
bodily fluid
8
embryo
4
kidney
1
mammary gland
Project
552
AMP
9
T1D
2
community
Genome assembly (visualization)
447
hg19
384
GRCh38
Lab
516
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:
79
inconsistent ontology term
1
inconsistent replicate
Audit category:
7
missing controlled_by
Audit category:
26
inconsistent control read length
inconsistent control run_type
audit.ERROR.category!
audit script error
audit.WARNING.category!
inconsistent control run_type
month_released!
October, 2019
organ_slims!
bodily fluid
BIOSAMPLE
ASSAY
563 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
370
14
1
2
2
2
1
1
EndoC_BH1
15
33
19
6
3
1
2
2
1
smooth muscle cell of the coronary artery
6
52
8
H1-hESC
8
EndoC-BH1
1
1
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