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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
139
ATAC-seq
87
total RNA-seq
67
single cell RNA-seq
37
ChIP-seq
26
snATAC-seq
4
MeRIP-seq
3
Hi-C
2
Capture-C
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
pCHi-C
Assay category
165
DNA accessibility
156
Transcription
37
DNA binding
3
3D chromatin structure
Target of assay
20
histone
20
histone modification
12
transcription factor
10
broad histone mark
10
narrow histone mark
7
control
5
RNA binding protein
2
nucleotide modification
Date released
134
August, 2021
64
May, 2022
49
May, 2021
47
September, 2023
21
February, 2023
19
April, 2020
14
May, 2023
8
January, 2021
5
March, 2019
4
November, 2020
2
March, 2023
1
October, 2017
Available data
106
bed narrowPeak
66
txt
64
xls
31
bigWig
26
fastq
25
bam
3
bed bedgraph
2
bed bed3+
2
bed broadPeak
2
hic
1
bedpe
1
bedpe bed3+
1
tsv
Organism
365
Homo sapiens
Biosample type
primary cell
312
tissue
54
in vitro differentiated cells
cell line
2
stem cell
Organ
189
kidney
63
pancreas
40
liver
19
lung
4
connective tissue
1
thymus
Project
273
AMP
47
KPMP
27
T1D
19
LungMap
2
community
Genome assembly (visualization)
78
GRCh38
55
hg19
Lab
AMP-T2D consortium
142
Katalin Susztak, Upenn
99
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
19
Xin Sun, UCSD
7
Struan F.A. Grant, CHOP
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
1
inconsistent ontology term
biosample_type!
cell line
primary cell
lab.title!
AMP-T2D consortium
BIOSAMPLE
ASSAY
368 results
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ATAC-seq
total RNA-seq
single cell RNA-seq
ChIP-seq
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
CRISPR RNA-seq
CRISPRi RNA-seq
pCHi-C
tissue
kidney
75
49
58
6
1
islet of Langerhans
34
12
6
4
2
liver
20
20
lung
9
10
pancreas
1
4
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in vitro differentiated cells
embryonic stem cell
6
5
37
adipocyte
1
1
osteoblast
1
1
Progenitor cell of Hypothalamus (neural progenitor cell)
1
neuron cell of Hypothalamus (neuron)
1
stem cell
SB Ad3.1
1
1
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