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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
19
ChIP-seq
9
total RNA-seq
6
MeRIP-seq
4
Hi-C
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
STARR-seq
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
19
DNA accessibility
19
DNA binding
11
Transcription
4
3D chromatin structure
1
DNA sequencing
Target of assay
12
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
34
August, 2021
16
May, 2021
6
February, 2023
6
November, 2020
4
March, 2020
2
March, 2023
1
December, 2018
1
February, 2021
1
January, 2018
1
May, 2020
1
November, 2017
1
November, 2019
1
October, 2019
1
October, 2022
Available data
bam
510
bigWig
427
fastq
396
bed narrowPeak
354
bigBed narrowPeak
113
tsv
59
bed broadPeak
59
bigBed broadPeak
20
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
72
Homo sapiens
Biosample type
629
tissue
474
primary cell
103
in vitro differentiated cells
76
cell line
7
stem cell
Organ
35
liver
29
pancreas
28
epithelium
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
69
AMP
5
T1D
2
community
Genome assembly (visualization)
21
hg19
1
GRCh38
Lab
32
Bing Ren, UCSD
31
AMP-T2D consortium
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
28
inconsistent ontology term
Audit category:
1
inconsistent assembly
files.file_type!
bam
organ_slims!
kidney
BIOSAMPLE
ASSAY
76 results
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Clear Filters
ATAC-seq
ChIP-seq
total RNA-seq
MeRIP-seq
Hi-C
pCHi-C
CRISPR genome editing followed by DNA sequencing
STARR-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
19
9
2
2
2
1
EndoC_BH1
18
6
1
3
2
2
1
EndoC-BH1
1
1
GM12878
1
MCF-7
1
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