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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
111
total RNA-seq
34
ATAC-seq
20
ChIP-seq
18
snATAC-seq
16
pCHi-C
4
MeRIP-seq
3
CRISPR genome editing followed by DNA sequencing
2
HiChIP
Assay category
111
Transcription
52
DNA accessibility
20
DNA binding
Target of assay
134
histone
histone modification
74
broad histone mark
60
narrow histone mark
12
transcription factor
10
control
5
RNA binding protein
2
nucleotide modification
Date released
100
May, 2021
41
May, 2020
24
May, 2022
23
February, 2023
16
January, 2021
4
November, 2020
Available data
116
bam
102
bigWig
92
tsv
24
fastq
18
bed narrowPeak
6
txt
2
bed bed3+
Organism
208
Homo sapiens
Biosample type
120
primary cell
56
tissue
27
in vitro differentiated cells
5
cell line
Organ
55
pancreas
8
blood
8
bodily fluid
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
147
T1D
61
AMP
Genome assembly (visualization)
120
hg19
92
GRCh38
Lab
2760
AMP-T2D consortium
324
Klaus Kaestner, Upenn
204
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
34
Bing Ren, UCSD
19
Xin Sun, UCSD
6
Struan F.A. Grant, CHOP
5
Patrick T. Ellinor, Broad
4
Anna Gloyn, Oxford
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
inconsistent ontology term
target.investigated_as!
histone modification
audit.ERROR.category!
inconsistent ontology term
BIOSAMPLE
ASSAY
208 results
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total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
pCHi-C
MeRIP-seq
CRISPR genome editing followed by DNA sequencing
HiChIP
primary cell
monocyte
53
1
CD8-positive, alpha-beta T cell
4
3
1
peripheral blood mononuclear cell
8
B cell
2
1
naive thymus-derived CD8-positive, alpha-beta T cell
2
1
+ See 29 more…
tissue
islet of Langerhans
11
29
6
4
pancreas
1
4
thymus
1
in vitro differentiated cells
embryonic stem cell
5
5
17
cell line
EndoC_BH1
3
2
See all biosamples
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