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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
125
total RNA-seq
35
ATAC-seq
35
ChIP-seq
18
snATAC-seq
17
pCHi-C
5
STARR-seq
3
CRISPR genome editing followed by DNA sequencing
3
Hi-C
2
HiChIP
1
whole genome sequencing assay
Assay category
125
Transcription
53
DNA accessibility
35
DNA binding
3
3D chromatin structure
1
DNA sequencing
Target of assay
137
histone
histone modification
75
broad histone mark
62
narrow histone mark
23
transcription factor
12
control
6
RNA binding protein
Date released
101
May, 2021
45
May, 2020
33
August, 2021
24
May, 2022
23
February, 2023
16
January, 2021
2
March, 2019
Available data
120
bam
117
bigWig
106
tsv
29
bed narrowPeak
24
fastq
6
txt
2
bed bed3+
2
bedpe bed3+
2
hic
1
bedpe
1
vcf
Organism
244
Homo sapiens
Biosample type
125
primary cell
56
tissue
36
cell line
27
in vitro differentiated cells
Organ
55
pancreas
28
liver
8
blood
8
bodily fluid
2
kidney
1
bone element
1
bone marrow
1
connective tissue
1
thymus
Project
152
T1D
92
AMP
Genome assembly (visualization)
138
hg19
97
GRCh38
Lab
3049
AMP-T2D consortium
324
Klaus Kaestner, Upenn
209
Kyle Gaulton, UCSD
142
Katalin Susztak, Upenn
47
KPMP
40
Karen Mohlke, UNC
35
Bing Ren, UCSD
19
Xin Sun, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
7
Struan F.A. Grant, CHOP
5
Patrick T. Ellinor, Broad
4
Anna Gloyn, Oxford
2
Mark McCarthy, Oxford
1
ITG
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
6
inconsistent ontology term
organ_slims!
ureter
target.investigated_as!
histone modification
BIOSAMPLE
ASSAY
244 results
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total RNA-seq
ATAC-seq
ChIP-seq
snATAC-seq
pCHi-C
STARR-seq
CRISPR genome editing followed by DNA sequencing
Hi-C
HiChIP
whole genome sequencing assay
primary cell
monocyte
53
1
CD8-positive, alpha-beta T cell
4
3
1
peripheral blood mononuclear cell
8
B cell
2
1
naive B cel
2
1
+ See 31 more…
tissue
islet of Langerhans
12
30
6
2
pancreas
1
4
thymus
1
cell line
HepG2
9
15
2
1
1
EndoC_BH1
3
2
HEK293T
2
Synthesized DNA
1
in vitro differentiated cells
embryonic stem cell
5
5
17
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