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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
87
ChIP-seq
77
total RNA-seq
4
STARR-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
1
ATAC-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
1
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
87
DNA binding
79
Transcription
3
3D chromatin structure
1
DNA accessibility
1
DNA methylation
1
DNA sequencing
Target of assay
75
control
9
transcription factor
3
histone
3
histone modification
2
RNA binding protein
2
broad histone mark
1
narrow histone mark
1
recombinant protein
Date released
66
November, 2017
56
February, 2021
27
August, 2021
9
October, 2019
8
January, 2019
6
February, 2023
5
November, 2018
4
March, 2020
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
520
bam
464
bigWig
427
fastq
bed narrowPeak
355
bigBed narrowPeak
80
tsv
59
bed broadPeak
59
bigBed broadPeak
20
tagAlign
3
bed bed3+
3
tar
1
bed bed3
1
bed bedMethyl
1
bedpe bed3+
1
bigBed bedMethyl
1
hdf5
1
hic
1
txt
1
vcf
Organism
183
Homo sapiens
Biosample type
1701
tissue
764
primary cell
187
cell line
160
in vitro differentiated cells
7
stem cell
Organ
93
liver
54
artery
54
blood vessel
54
heart
54
vasculature
9
pancreas
8
embryo
7
blood
7
bodily fluid
3
kidney
2
epithelium
1
mammary gland
Project
180
AMP
5
T1D
2
community
Genome assembly (visualization)
91
hg19
70
GRCh38
Lab
161
AMP-T2D consortium
19
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
organ_slims!
gonad
files.file_type!
bed narrowPeak
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
187 results
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Clear Filters
ChIP-seq
total RNA-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
ATAC-seq
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
71
14
2
2
2
1
1
smooth muscle cell of the coronary artery
2
52
H1-hESC
8
Panc1
7
1
GM12878
6
1
EndoC_BH1
3
2
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
MCF-7
1
MIN6
1
fibroblast cell line
1
glomerular visceral epithelial cell
1
iPSC derived cell line
1
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