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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
71
ChIP-seq
18
ATAC-seq
9
total RNA-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
MPRA
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
71
DNA binding
18
DNA accessibility
11
Transcription
3
3D chromatin structure
1
DNA sequencing
Target of assay
68
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
47
November, 2017
22
August, 2021
16
May, 2021
10
October, 2019
6
February, 2023
6
November, 2020
4
March, 2020
4
November, 2018
4
November, 2019
3
February, 2021
3
January, 2019
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
514
bam
bigWig
427
fastq
390
bed narrowPeak
353
bigBed narrowPeak
67
tsv
58
bed broadPeak
58
bigBed broadPeak
14
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
126
Homo sapiens
Biosample type
958
tissue
473
primary cell
135
in vitro differentiated cells
130
cell line
7
stem cell
Organ
69
liver
36
pancreas
29
epithelium
artery
10
blood vessel
10
heart
10
vasculature
7
kidney
6
blood
6
bodily fluid
1
mammary gland
Project
123
AMP
5
T1D
2
community
Genome assembly (visualization)
5
hg19
2
GRCh38
Lab
97
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:
34
inconsistent ontology term
1
inconsistent replicate
Audit category:
1
missing controlled_by
organ_slims!
artery
assay_title!
DNase-seq
files.file_type!
bigWig
BIOSAMPLE
ASSAY
130 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-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
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
52
1
9
2
2
2
1
EndoC_BH1
2
17
6
3
1
2
2
1
Panc1
7
GM12878
6
EndoC-BH1
1
1
HEK293T
2
RCC 7860 vector
1
1
MCF-7
1
MIN6
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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