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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
16
ATAC-seq
9
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
ChIP-seq
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
16
DNA accessibility
11
Transcription
5
DNA binding
3
3D chromatin structure
1
DNA sequencing
Target of assay
7
control
3
nucleotide modification
1
transcription factor
Date released
22
August, 2021
16
May, 2021
6
February, 2023
6
November, 2020
4
March, 2020
2
March, 2023
1
December, 2018
1
February, 2021
1
May, 2020
1
November, 2017
1
November, 2019
1
October, 2022
Available data
bam
bigWig
411
fastq
369
bed narrowPeak
335
bigBed narrowPeak
119
tsv
45
bed broadPeak
45
bigBed broadPeak
9
tagAlign
3
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
58
Homo sapiens
Biosample type
677
tissue
426
primary cell
62
cell line
54
in vitro differentiated cells
6
stem cell
Organ
26
epithelium
26
pancreas
21
liver
4
kidney
1
mammary gland
Project
55
AMP
5
T1D
2
community
Genome assembly (visualization)
3
hg19
Lab
29
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:
28
inconsistent ontology term
files.file_type!
bam
bigWig
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
62 results
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Clear Filters
ATAC-seq
total RNA-seq
MeRIP-seq
pCHi-C
ChIP-seq
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
EndoC_BH1
16
6
3
1
2
2
1
HepG2
9
2
5
2
2
1
EndoC-BH1
1
1
HEK293T
2
MCF-7
1
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