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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
9
total RNA-seq
7
ChIP-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
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
DNA accessibility
11
Transcription
7
DNA binding
4
3D chromatin structure
1
DNA sequencing
Target of assay
transcription factor
7
control
3
histone
3
histone modification
3
nucleotide modification
2
narrow histone mark
1
RNA binding protein
1
broad histone mark
Date released
25
August, 2021
6
February, 2023
6
November, 2020
4
March, 2020
2
March, 2023
1
December, 2018
1
February, 2021
1
May, 2020
1
November, 2019
1
October, 2019
1
October, 2022
Available data
bam
161
bigWig
118
tsv
90
fastq
40
bed narrowPeak
25
bigBed narrowPeak
15
tagAlign
14
bed broadPeak
14
bigBed broadPeak
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
45
Homo sapiens
Biosample type
640
tissue
305
primary cell
66
in vitro differentiated cells
49
cell line
7
stem cell
Organ
23
liver
11
pancreas
10
epithelium
4
kidney
1
mammary gland
Project
42
AMP
5
T1D
2
community
Genome assembly (visualization)
7
hg19
1
GRCh38
Lab
23
Bing Ren, UCSD
13
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
12
inconsistent ontology term
Audit category:
1
inconsistent assembly
target.investigated_as!
transcription factor
files.file_type!
bam
assay_slims!
DNA accessibility
BIOSAMPLE
ASSAY
49 results
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Clear Filters
total RNA-seq
ChIP-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
9
7
2
2
2
1
EndoC_BH1
6
1
3
2
2
1
EndoC-BH1
1
1
HEK293T
2
MCF-7
1
MIN6
1
Panc1
1
RCC 7860 VHL
1
RCC 7860 vector
1
Synthesized DNA
1
fibroblast cell line
1
See all biosamples
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