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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
58
ChIP-seq
19
ATAC-seq
9
total RNA-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
3
MeRIP-seq
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
58
DNA binding
19
DNA accessibility
11
Transcription
3
3D chromatin structure
1
DNA sequencing
Target of assay
control
52
transcription factor
7
RNA binding protein
6
histone
6
histone modification
3
broad histone mark
3
narrow histone mark
3
nucleotide modification
2
chromatin remodeller
1
recombinant protein
Date released
42
November, 2017
32
August, 2021
16
May, 2021
6
February, 2023
6
March, 2020
3
November, 2020
2
March, 2023
1
December, 2018
1
February, 2021
1
January, 2018
1
May, 2020
1
November, 2018
1
November, 2019
1
October, 2019
1
October, 2022
Available data
55
bigWig
46
bed narrowPeak
44
fastq
43
bam
32
bigBed narrowPeak
15
tsv
14
bed broadPeak
14
bigBed broadPeak
3
tar
2
bedpe bed3+
2
hic
2
tagAlign
1
bed bed3+
1
txt
1
vcf
Organism
111
Homo sapiens
Biosample type
734
tissue
520
primary cell
115
cell line
97
in vitro differentiated cells
7
stem cell
Organ
73
liver
26
pancreas
25
epithelium
4
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
108
AMP
5
T1D
2
community
Genome assembly (visualization)
517
hg19
GRCh38
Lab
75
AMP-T2D consortium
30
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
27
inconsistent ontology term
Audit category:
8
missing controlled_by
Audit category:
4
inconsistent control read length
2
inconsistent control run_type
assembly!
GRCh38
target.investigated_as!
control
BIOSAMPLE
ASSAY
115 results
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Clear Filters
ChIP-seq
ATAC-seq
total RNA-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
MeRIP-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
57
9
2
2
2
1
EndoC_BH1
18
3
1
3
2
2
1
EndoC-BH1
1
1
HEK293T
2
GM12878
1
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