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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
106
total RNA-seq
85
single cell RNA-seq
56
snATAC-seq
49
ATAC-seq
47
WGBS
41
ChIP-seq
15
pCHi-C
6
MeRIP-seq
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
1
CRISPR RNA-seq
1
CRISPRi RNA-seq
1
Hi-C
1
shRNA RNA-seq
1
siRNA RNA-seq
1
whole genome sequencing assay
Assay category
195
Transcription
105
DNA accessibility
47
DNA methylation
41
DNA binding
1
3D chromatin structure
1
DNA sequencing
Target of assay
20
histone
20
histone modification
12
control
12
transcription factor
10
broad histone mark
10
narrow histone mark
5
RNA binding protein
3
nucleotide modification
Date released
134
May, 2022
81
February, 2023
59
September, 2020
57
May, 2021
45
February, 2021
19
August, 2021
8
January, 2021
7
August, 2020
6
November, 2020
5
March, 2023
Available data
169
fastq
153
zippedFastqFolder
15
tsv
10
bigWig
1
hic
1
vcf
Organism
417
Homo sapiens
Biosample type
345
primary cell
tissue
42
in vitro differentiated cells
32
cell line
2
stem cell
Organ
155
epithelium
155
pancreas
16
liver
8
blood
8
bodily fluid
2
kidney
bone element
1
bone marrow
1
connective tissue
Project
321
HPAP
67
AMP
28
T1D
4
community
1
ITG
Genome assembly (visualization)
hg19
191
GRCh38
Lab
321
Klaus Kaestner, Upenn
AMP-T2D consortium
70
Kyle Gaulton, UCSD
19
Bing Ren, UCSD
6
Rohit N. Kulkarni, M.D., Ph.D.
4
Anna Gloyn, Oxford
1
ITG
Audit category:
27
audit script error
8
inconsistent ontology term
assembly!
hg19
biosample_type!
tissue
lab.title!
AMP-T2D consortium
Karen Mohlke, UNC
organ_slims!
bone element
BIOSAMPLE
ASSAY
421 results
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total RNA-seq
single cell RNA-seq
snATAC-seq
ATAC-seq
WGBS
ChIP-seq
pCHi-C
MeRIP-seq
STARR-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
CRISPR RNA-seq
CRISPRi RNA-seq
Hi-C
shRNA RNA-seq
siRNA RNA-seq
whole genome sequencing assay
primary cell
Langerhans cell
85
48
pancreatic alpha cell
42
29
31
pancreatic beta cell
11
16
16
exocrine cell
39
peripheral blood mononuclear cell
8
+ See 16 more…
in vitro differentiated cells
embryonic stem cell
5
37
cell line
HepG2
9
4
2
1
EndoC_BH1
6
3
2
EndoC-BH1
1
1
HEK293T
2
Synthesized DNA
1
stem cell
SB Ad3.1
1
1
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