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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
84
ChIP-seq
77
total RNA-seq
9
ATAC-seq
4
STARR-seq
4
pCHi-C
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
DNase-seq
2
HiChIP
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
84
DNA binding
79
Transcription
11
DNA accessibility
3
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
61
transcription factor
20
RNA binding protein
16
recombinant protein
13
control
10
histone
10
histone modification
5
broad histone mark
5
chromatin remodeller
5
narrow histone mark
Date released
November, 2017
70
February, 2021
46
November, 2018
41
August, 2021
17
October, 2019
6
February, 2023
5
January, 2019
4
March, 2020
2
March, 2023
1
December, 2018
1
May, 2020
1
October, 2022
Available data
146
bam
141
bigWig
80
bed narrowPeak
80
tsv
52
bigBed narrowPeak
52
fastq
8
tagAlign
3
bed bed3+
1
bed bed3
1
bed bedMethyl
1
bed broadPeak
1
bedpe bed3+
1
bigBed bedMethyl
1
bigBed broadPeak
1
hdf5
1
hic
1
txt
1
vcf
Organism
190
Homo sapiens
Biosample type
2604
tissue
1017
primary cell
279
in vitro differentiated cells
194
cell line
9
stem cell
Organ
86
liver
66
artery
66
blood vessel
66
heart
66
vasculature
blood
61
bodily fluid
16
pancreas
8
embryo
4
kidney
3
epithelium
1
mammary gland
Project
187
AMP
5
T1D
2
community
Genome assembly (visualization)
149
hg19
136
GRCh38
Lab
154
AMP-T2D consortium
33
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
inconsistent ontology term
1
inconsistent replicate
Audit category:
3
missing controlled_by
Audit category:
5
inconsistent control read length
4
inconsistent control run_type
1
inconsistent assembly
audit.ERROR.category!
inconsistent ontology term
organ_slims!
blood
month_released!
November, 2017
BIOSAMPLE
ASSAY
194 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
STARR-seq
pCHi-C
CRISPR genome editing followed by DNA sequencing
Hi-C
DNase-seq
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
63
14
1
2
2
2
1
1
smooth muscle cell of the coronary artery
6
52
8
Panc1
13
1
1
H1-hESC
8
EndoC_BH1
3
2
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
glomerular visceral epithelial cell
1
1
iPSC derived cell line
2
MCF-7
1
MIN6
1
fibroblast cell line
1
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