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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
92
ChIP-seq
19
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
92
DNA binding
19
DNA accessibility
11
Transcription
3
3D chromatin structure
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
66
November, 2017
22
August, 2021
16
May, 2021
10
October, 2019
6
February, 2023
6
March, 2020
6
November, 2020
4
February, 2021
4
November, 2018
3
January, 2019
3
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
119
bam
106
fastq
68
bigWig
bed narrowPeak
32
bigBed narrowPeak
15
tsv
14
bed broadPeak
14
bigBed broadPeak
6
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3+
1
txt
1
vcf
Organism
148
Homo sapiens
Biosample type
817
tissue
518
primary cell
152
cell line
125
in vitro differentiated cells
7
stem cell
Organ
87
liver
37
pancreas
30
epithelium
7
blood
7
bodily fluid
7
kidney
2
artery
2
blood vessel
2
heart
2
vasculature
1
mammary gland
Project
145
AMP
5
T1D
2
community
Genome assembly (visualization)
130
hg19
GRCh38
Lab
119
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:
35
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
assembly!
GRCh38
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
152 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
71
9
2
2
2
1
EndoC_BH1
2
18
6
3
1
2
2
1
GM12878
6
1
Panc1
7
EndoC-BH1
1
1
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