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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
89
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
5
STARR-seq
5
pCHi-C
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
WGBS
1
whole genome sequencing assay
Assay category
89
DNA binding
Transcription
19
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
80
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
16
May, 2021
13
August, 2021
11
October, 2019
6
February, 2023
6
March, 2020
6
November, 2020
5
November, 2018
February, 2021
3
January, 2019
3
November, 2019
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
461
bam
422
fastq
413
bigWig
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
12
tagAlign
6
tsv
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
137
Homo sapiens
Biosample type
479
tissue
323
primary cell
139
cell line
120
in vitro differentiated cells
6
stem cell
Organ
78
liver
38
pancreas
30
epithelium
7
blood
7
bodily fluid
7
kidney
1
mammary gland
Project
134
AMP
5
T1D
Genome assembly (visualization)
25
hg19
2
GRCh38
Lab
117
AMP-T2D consortium
11
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
35
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
assay_slims!
Transcription
month_released!
February, 2021
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
139 results
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ChIP-seq
ATAC-seq
MeRIP-seq
STARR-seq
pCHi-C
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
whole genome sequencing assay
cell line
HepG2
71
2
1
2
1
1
EndoC_BH1
2
18
6
1
3
2
2
1
Panc1
7
1
GM12878
6
1
HEK293T
2
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