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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
123
ChIP-seq
113
total RNA-seq
6
MeRIP-seq
6
pCHi-C
5
STARR-seq
4
Hi-C
3
CRISPR genome editing followed by DNA sequencing
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
123
DNA binding
115
Transcription
DNA accessibility
4
3D chromatin structure
1
DNA methylation
1
DNA sequencing
Target of assay
transcription factor
89
recombinant protein
83
control
65
RNA binding protein
38
histone
38
histone modification
30
chromatin remodeller
19
broad histone mark
19
narrow histone mark
3
nucleotide modification
2
other context
2
other post-translational modification
Date released
82
February, 2021
74
November, 2017
33
August, 2021
21
October, 2019
14
November, 2019
9
January, 2019
9
March, 2020
6
February, 2023
6
November, 2020
5
May, 2021
4
November, 2018
3
December, 2018
2
March, 2023
1
May, 2020
1
October, 2022
Available data
221
bam
161
bigWig
118
tsv
90
fastq
40
bed narrowPeak
25
bigBed narrowPeak
15
tagAlign
14
bed broadPeak
14
bigBed broadPeak
2
bed bed3+
2
bedpe bed3+
2
hic
1
bed bedMethyl
1
bigBed bedMethyl
1
hdf5
1
txt
1
vcf
Organism
266
Homo sapiens
Biosample type
2212
tissue
790
primary cell
302
in vitro differentiated cells
270
cell line
10
stem cell
Organ
103
liver
71
pancreas
58
epithelium
54
artery
54
blood vessel
54
heart
54
vasculature
11
kidney
9
blood
9
bodily fluid
8
embryo
1
mammary gland
Project
259
AMP
9
T1D
2
community
Genome assembly (visualization)
163
hg19
143
GRCh38
Lab
234
AMP-T2D consortium
23
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:
11
inconsistent control read length
1
inconsistent assembly
organ_slims!
pituitary gland
target.investigated_as!
transcription factor
assay_slims!
DNA accessibility
BIOSAMPLE
ASSAY
270 results
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ChIP-seq
total RNA-seq
MeRIP-seq
pCHi-C
STARR-seq
Hi-C
CRISPR genome editing followed by DNA sequencing
Capture-C
HiChIP
CRISPR genome editing followed by sgRNA sequencing
MPRA
WGBS
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
cell line
HepG2
81
14
2
2
2
1
1
EndoC_BH1
14
33
6
1
3
2
2
1
smooth muscle cell of the coronary artery
2
52
Panc1
13
1
GM12878
9
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