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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
93
total RNA-seq
44
ChIP-seq
22
ATAC-seq
11
single cell RNA-seq
10
MeRIP-seq
6
snATAC-seq
STARR-seq
3
Hi-C
2
Capture-C
1
whole genome sequencing assay
Assay category
104
Transcription
44
DNA binding
28
DNA accessibility
3
3D chromatin structure
1
DNA sequencing
Target of assay
20
histone
20
histone modification
17
control
12
transcription factor
10
broad histone mark
10
narrow histone mark
5
RNA binding protein
5
nucleotide modification
Date released
83
August, 2021
53
May, 2021
26
May, 2022
14
May, 2023
10
November, 2020
4
March, 2019
1
February, 2023
1
October, 2017
Available data
bed narrowPeak
120
bigWig
66
txt
64
xls
26
fastq
25
bam
10
tsv
4
bed bed3+
3
bed bedgraph
3
hic
2
bed broadPeak
2
bedpe bed3+
bedpe
1
vcf
Organism
192
Homo sapiens
Biosample type
116
tissue
50
in vitro differentiated cells
21
cell line
5
primary cell
Organ
78
kidney
35
liver
24
pancreas
6
epithelium
2
connective tissue
Project
324
HPAP
192
AMP
152
T1D
47
KPMP
19
LungMap
4
community
1
ITG
Genome assembly (visualization)
18
hg19
14
GRCh38
Lab
AMP-T2D consortium
78
Katalin Susztak, Upenn
59
Kyle Gaulton, UCSD
20
Karen Mohlke, UNC
18
Bing Ren, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Struan F.A. Grant, CHOP
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
6
inconsistent ontology term
assay_title!
STARR-seq
files.file_type!
bed narrowPeak
bedpe
lab.title!
AMP-T2D consortium
BIOSAMPLE
ASSAY
192 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
MeRIP-seq
snATAC-seq
Hi-C
Capture-C
whole genome sequencing assay
tissue
kidney
49
11
11
6
1
liver
20
islet of Langerhans
7
5
4
1
pancreas
1
in vitro differentiated cells
embryonic stem cell
5
37
5
Progenitor cell of Hypothalamus (neural progenitor cell)
1
adipocyte
1
osteoblast
1
cell line
HepG2
9
4
1
1
EndoC_BH1
6
primary cell
CD8-positive, alpha-beta T cell
2
3
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