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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
109
total RNA-seq
82
ChIP-seq
19
ATAC-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
Capture-C
2
HiChIP
1
CRISPR genome editing followed by sgRNA sequencing
1
MPRA
WGBS
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
111
Transcription
82
DNA binding
19
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
74
control
9
transcription factor
3
nucleotide modification
2
RNA binding protein
2
histone
2
histone modification
1
broad histone mark
1
narrow histone mark
1
recombinant protein
Date released
82
February, 2021
66
November, 2017
30
August, 2021
20
May, 2021
October, 2019
10
March, 2020
8
January, 2019
6
February, 2023
6
November, 2020
4
November, 2018
4
November, 2019
2
March, 2023
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
552
bam
501
bigWig
426
fastq
bed narrowPeak
347
bigBed narrowPeak
115
tsv
58
bed broadPeak
58
bigBed broadPeak
20
tagAlign
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
bed bed3+
1
txt
1
vcf
Organism
238
Homo sapiens
Biosample type
1675
tissue
733
primary cell
256
in vitro differentiated cells
242
cell line
8
stem cell
Organ
92
liver
63
epithelium
63
pancreas
54
artery
54
blood vessel
54
heart
54
vasculature
8
embryo
7
blood
7
bodily fluid
4
kidney
1
mammary gland
Project
233
AMP
7
T1D
2
community
Genome assembly (visualization)
125
hg19
100
GRCh38
Lab
209
AMP-T2D consortium
20
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
5
Kyle Gaulton, UCSD
2
Anna Gloyn, Oxford
Audit category:
65
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
assay_title!
WGBS
files.file_type!
bed narrowPeak
month_released!
October, 2019
BIOSAMPLE
ASSAY
242 results
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total RNA-seq
ChIP-seq
ATAC-seq
MeRIP-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
14
71
2
2
2
1
EndoC_BH1
33
2
18
6
3
1
2
2
1
smooth muscle cell of the coronary artery
52
2
H1-hESC
8
GM12878
6
1
EndoC-BH1
1
1
HEK293T
2
early embryonic cell
2
MCF-7
1
MIN6
1
RCC 7860 VHL
1
RCC 7860 vector
1
Synthesized DNA
1
fibroblast cell line
1
iPSC derived cell line
1
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