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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
77
ChIP-seq
16
ATAC-seq
9
total RNA-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
Hi-C
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
77
DNA binding
16
DNA accessibility
11
Transcription
1
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
70
control
9
transcription factor
4
recombinant protein
3
RNA binding protein
3
nucleotide modification
1
broad histone mark
1
histone
1
histone modification
Date released
49
November, 2017
21
August, 2021
16
May, 2021
10
October, 2019
7
November, 2018
6
February, 2023
6
November, 2020
4
March, 2020
3
February, 2021
3
January, 2019
2
March, 2023
2
November, 2019
1
December, 2018
1
May, 2020
Available data
73
bam
60
fastq
14
tsv
5
bigWig
4
bed narrowPeak
4
bigBed narrowPeak
3
tagAlign
1
bed bedMethyl
1
bigBed bedMethyl
1
vcf
Organism
128
Homo sapiens
Biosample type
1022
tissue
460
primary cell
131
cell line
97
in vitro differentiated cells
7
stem cell
Organ
71
liver
34
pancreas
27
epithelium
7
kidney
6
blood
6
bodily fluid
2
artery
2
blood vessel
2
heart
2
vasculature
1
mammary gland
Project
124
AMP
5
T1D
2
community
Genome assembly (visualization)
hg19
463
GRCh38
Lab
99
AMP-T2D consortium
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
32
inconsistent ontology term
Audit category:
1
missing controlled_by
assay_title!
MPRA
files.file_type!
bed bed3
assembly!
hg19
BIOSAMPLE
ASSAY
131 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
MeRIP-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
Hi-C
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
56
9
2
1
1
1
1
EndoC_BH1
2
16
6
3
2
2
1
Panc1
7
GM12878
6
EndoC-BH1
1
1
HEK293T
2
RCC 7860 vector
1
1
smooth muscle cell of the coronary artery
2
MCF-7
1
RCC 7860 HIF1a re-expression
1
RCC 7860 HIF2a over-expression
1
RCC 7860 VHL
1
Synthesized DNA
1
fibroblast cell line
1
iPSC derived cell line
1
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