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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
total RNA-seq
92
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
6
pCHi-C
STARR-seq
Hi-C
3
CRISPR genome editing followed by DNA sequencing
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
115
Transcription
92
DNA binding
19
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
9
transcription factor
3
histone
3
histone modification
3
nucleotide modification
2
RNA binding protein
2
broad histone mark
1
narrow histone mark
1
recombinant protein
Date released
82
February, 2021
66
November, 2017
24
August, 2021
20
May, 2021
14
October, 2019
10
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
5
November, 2018
3
November, 2019
2
March, 2023
1
January, 2018
1
May, 2020
1
October, 2022
Available data
582
bam
521
bigWig
426
fastq
bed narrowPeak
355
bigBed narrowPeak
119
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
txt
1
vcf
Organism
245
Homo sapiens
Biosample type
1777
tissue
783
primary cell
258
in vitro differentiated cells
249
cell line
8
stem cell
Organ
89
liver
69
pancreas
63
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
9
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
240
AMP
7
T1D
2
community
Genome assembly (visualization)
127
hg19
105
GRCh38
Lab
222
AMP-T2D consortium
14
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
69
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
assay_title!
Hi-C
STARR-seq
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
249 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
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
14
71
2
1
1
EndoC_BH1
33
2
18
6
3
2
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
GM12878
6
1
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