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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
19
ATAC-seq
12
ChIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
whole genome sequencing assay
Assay category
Transcription
19
DNA accessibility
12
DNA binding
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
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
16
May, 2021
10
November, 2017
9
August, 2021
6
February, 2023
6
March, 2020
3
November, 2020
2
November, 2018
2
October, 2019
1
December, 2018
1
February, 2021
1
January, 2018
1
May, 2020
1
November, 2019
1
October, 2022
Available data
405
bigWig
bed narrowPeak
402
bam
360
fastq
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
16
tagAlign
6
tsv
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
379
tissue
325
primary cell
87
in vitro differentiated cells
60
cell line
5
stem cell
Organ
27
pancreas
25
epithelium
19
liver
4
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
55
AMP
5
T1D
Genome assembly (visualization)
13
hg19
2
GRCh38
Lab
45
AMP-T2D consortium
7
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
Audit category:
27
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
target.investigated_as!
control
files.file_type!
bed narrowPeak
assay_slims!
Transcription
BIOSAMPLE
ASSAY
60 results
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Clear Filters
ATAC-seq
ChIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
EndoC_BH1
18
1
3
3
2
2
1
HepG2
11
2
2
2
1
1
HEK293T
2
Panc1
1
1
GM12878
1
MCF-7
1
MIN6
1
RCC 7860 VHL
1
RCC 7860 vector
1
Synthesized DNA
1
fibroblast cell line
1
See all biosamples
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