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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
85
ATAC-seq
65
total RNA-seq
41
WGBS
20
ChIP-seq
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
2
Capture-C
2
RRBS
1
CRISPR genome editing followed by sgRNA sequencing
Assay category
96
DNA accessibility
65
Transcription
43
DNA methylation
20
DNA binding
9
3D chromatin structure
Target of assay
14
histone
14
histone modification
11
control
8
broad histone mark
6
narrow histone mark
5
nucleotide modification
Date released
80
May, 2022
56
February, 2023
20
August, 2017
19
September, 2020
17
May, 2021
10
November, 2020
8
January, 2021
7
August, 2020
5
March, 2020
4
July, 2018
4
March, 2019
4
October, 2019
3
August, 2021
3
October, 2022
2
July, 2019
2
November, 2019
1
August, 2022
1
October, 2017
Available data
bam
623
bigWig
471
fastq
tsv
214
bed narrowPeak
91
bigBed narrowPeak
80
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
cool
1
bedpe
1
hdf5
Organism
245
Homo sapiens
Biosample type
146
primary cell
72
tissue
28
cell line
Organ
246
pancreas
198
kidney
197
epithelium
98
liver
93
bone element
87
connective tissue
49
eye
46
adipose tissue
44
heart
41
vasculature
40
blood vessel
36
musculature of body
35
artery
29
brain
19
lung
9
blood
9
bodily fluid
8
skeleton
5
limb
4
gonad
4
ovary
2
vein
1
bone marrow
1
embryo
1
lymph node
1
pericardium
1
pituitary gland
1
skin of body
1
thymus
Project
146
HPAP
72
AMP
28
T1D
Genome assembly (visualization)
21
hg19
14
GRCh38
Lab
146
Klaus Kaestner, Upenn
57
AMP-T2D consortium
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
26
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
tsv
BIOSAMPLE
ASSAY
246 results
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Clear Filters
ATAC-seq
total RNA-seq
WGBS
ChIP-seq
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
RRBS
CRISPR genome editing followed by sgRNA sequencing
primary cell
pancreatic alpha cell
29
42
25
1
pancreatic beta cell
16
11
16
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
19
11
20
7
4
3
1
pancreas
1
4
1
1
cell line
EndoC_BH1
17
6
1
2
1
Panc1
1
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