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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
6
MeRIP-seq
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
WGBS
Assay category
Transcription
92
DNA binding
19
DNA accessibility
4
3D chromatin structure
1
DNA methylation
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
16
May, 2021
12
August, 2021
11
October, 2019
6
February, 2023
6
November, 2020
5
November, 2018
3
February, 2021
3
January, 2019
3
November, 2019
2
March, 2020
1
December, 2018
1
January, 2018
1
October, 2022
Available data
478
bam
422
fastq
418
bigWig
bed narrowPeak
355
bigBed narrowPeak
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
tar
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
tsv
1
txt
Organism
134
Homo sapiens
Biosample type
541
tissue
340
primary cell
136
cell line
119
in vitro differentiated cells
2
stem cell
Organ
76
liver
38
pancreas
30
epithelium
7
blood
7
bodily fluid
5
kidney
2
artery
2
blood vessel
2
heart
2
vasculature
Project
131
AMP
5
T1D
Genome assembly (visualization)
25
hg19
2
GRCh38
Lab
115
AMP-T2D consortium
10
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
Audit category:
33
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
assay_slims!
DNA sequencing
Transcription
assay_title!
pCHi-C
files.file_type!
bed narrowPeak
BIOSAMPLE
ASSAY
136 results
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ChIP-seq
ATAC-seq
MeRIP-seq
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
cell line
HepG2
71
2
2
1
EndoC_BH1
2
18
6
1
3
2
2
1
Panc1
7
1
GM12878
6
1
HEK293T
2
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