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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
480
ChIP-seq
109
total RNA-seq
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
DNase-seq
2
Hi-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
480
DNA binding
111
Transcription
2
3D chromatin structure
2
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
358
transcription factor
89
recombinant protein
83
control
64
RNA binding protein
37
histone
37
histone modification
30
chromatin remodeller
19
broad histone mark
18
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
312
November, 2017
87
February, 2021
61
November, 2018
43
August, 2021
30
October, 2019
28
December, 2018
23
January, 2019
14
November, 2019
9
March, 2020
6
February, 2023
6
November, 2020
May, 2021
2
March, 2023
1
May, 2020
1
October, 2022
Available data
567
bam
514
bigWig
427
fastq
393
bed narrowPeak
355
bigBed narrowPeak
114
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
tar
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
619
Homo sapiens
Biosample type
2467
tissue
690
primary cell
623
cell line
218
in vitro differentiated cells
10
stem cell
Organ
396
liver
67
pancreas
60
blood
60
bodily fluid
58
artery
58
blood vessel
58
heart
58
vasculature
54
epithelium
19
kidney
8
embryo
1
mammary gland
Project
613
AMP
8
T1D
2
community
Genome assembly (visualization)
507
hg19
449
GRCh38
Lab
577
AMP-T2D consortium
33
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
67
inconsistent ontology term
1
inconsistent control
Audit category:
13
missing controlled_by
Audit category:
26
inconsistent control read length
8
inconsistent control run_type
1
inconsistent assembly
assay_title!
ATAC-seq
files.file_type!
bedpe bed3+
tar
month_released!
May, 2021
BIOSAMPLE
ASSAY
623 results
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Clear Filters
ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Capture-C
DNase-seq
Hi-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
375
14
2
2
1
1
1
GM12878
60
smooth muscle cell of the coronary artery
6
52
EndoC_BH1
14
29
6
3
2
2
1
Panc1
13
1
1
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