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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
61
total RNA-seq
19
ATAC-seq
12
ChIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
3
MeRIP-seq
2
Capture-C
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
63
Transcription
19
DNA accessibility
12
DNA binding
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
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
27
February, 2021
26
August, 2021
20
May, 2021
10
March, 2020
10
November, 2017
6
February, 2023
6
October, 2019
5
January, 2019
3
November, 2020
2
March, 2023
2
November, 2018
2
November, 2019
1
December, 2018
1
January, 2018
1
May, 2020
1
October, 2022
Available data
453
bigWig
442
bam
bed narrowPeak
365
fastq
355
bigBed narrowPeak
67
tsv
59
bed broadPeak
59
bigBed broadPeak
12
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
119
Homo sapiens
Biosample type
1479
tissue
753
primary cell
224
in vitro differentiated cells
123
cell line
7
stem cell
Organ
60
pancreas
59
epithelium
artery
52
blood vessel
heart
52
vasculature
33
liver
8
embryo
8
kidney
1
blood
1
bodily fluid
1
mammary gland
Project
114
AMP
7
T1D
2
community
Genome assembly (visualization)
65
hg19
54
GRCh38
Lab
97
AMP-T2D consortium
16
Bing Ren, UCSD
5
Kyle Gaulton, UCSD
3
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
Audit category:
63
inconsistent ontology term
Audit category:
1
missing controlled_by
Audit category:
2
inconsistent control read length
1
inconsistent assembly
files.file_type!
bed narrowPeak
organ_slims!
artery
heart
target.investigated_as!
control
BIOSAMPLE
ASSAY
123 results
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total RNA-seq
ATAC-seq
ChIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
MeRIP-seq
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
EndoC_BH1
33
18
1
3
3
2
2
1
HepG2
14
11
2
2
2
1
1
H1-hESC
8
EndoC-BH1
1
1
HEK293T
2
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