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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
113
total RNA-seq
86
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
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
115
Transcription
86
DNA binding
19
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
83
control
5
transcription factor
3
nucleotide modification
2
RNA binding protein
1
broad histone mark
1
histone
1
histone modification
1
recombinant protein
Date released
81
February, 2021
60
November, 2017
30
August, 2021
20
May, 2021
14
October, 2019
10
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
5
November, 2018
4
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
582
bam
522
bigWig
427
fastq
bed narrowPeak
355
bigBed narrowPeak
119
tsv
59
bed broadPeak
bigBed broadPeak
20
tagAlign
bed bed3+
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
246
Homo sapiens
Biosample type
1776
tissue
784
primary cell
251
in vitro differentiated cells
250
cell line
7
stem cell
Organ
86
liver
70
pancreas
64
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
11
kidney
8
embryo
7
blood
7
bodily fluid
1
mammary gland
Project
241
AMP
7
T1D
2
community
Genome assembly (visualization)
122
hg19
105
GRCh38
Lab
217
AMP-T2D consortium
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
71
inconsistent ontology term
Audit category:
1
missing controlled_by
files.file_type!
bed bed3+
bed narrowPeak
bigBed broadPeak
BIOSAMPLE
ASSAY
250 results
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Clear Filters
total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
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
14
65
2
1
2
1
1
EndoC_BH1
33
2
18
6
3
1
2
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
GM12878
6
1
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