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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
399
ChIP-seq
112
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
DNase-seq
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
399
DNA binding
114
Transcription
29
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
316
transcription factor
89
recombinant protein
81
control
60
RNA binding protein
26
chromatin remodeller
histone
14
histone modification
9
narrow histone mark
5
broad histone mark
3
nucleotide modification
1
other context
1
other post-translational modification
Date released
256
November, 2017
96
February, 2021
61
November, 2018
41
August, 2021
28
December, 2018
22
January, 2019
22
October, 2019
20
May, 2021
10
March, 2020
6
February, 2023
November, 2019
6
November, 2020
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
542
bam
483
bigWig
411
fastq
367
bed narrowPeak
335
bigBed narrowPeak
118
tsv
45
bed broadPeak
bigBed broadPeak
9
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
569
Homo sapiens
Biosample type
1933
tissue
818
primary cell
573
cell line
276
in vitro differentiated cells
8
stem cell
Organ
339
liver
66
artery
66
blood vessel
66
heart
66
pancreas
66
vasculature
61
epithelium
60
blood
60
bodily fluid
19
kidney
8
embryo
1
mammary gland
Project
564
AMP
7
T1D
2
community
Genome assembly (visualization)
444
hg19
396
GRCh38
Lab
529
AMP-T2D consortium
31
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
74
inconsistent ontology term
1
inconsistent control
1
inconsistent replicate
Audit category:
12
missing controlled_by
Audit category:
13
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
files.file_type!
bigBed broadPeak
month_released!
August, 2022
November, 2019
target.investigated_as!
histone
BIOSAMPLE
ASSAY
573 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
DNase-seq
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
316
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
EndoC_BH1
32
18
6
3
2
2
1
GM12878
59
1
H1-hESC
8
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