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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
87
ATAC-seq
67
total RNA-seq
20
ChIP-seq
11
snATAC-seq
10
MeRIP-seq
9
Hi-C
2
Capture-C
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
Assay category
98
DNA accessibility
67
Transcription
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
56
February, 2023
39
May, 2022
20
August, 2017
19
September, 2020
17
May, 2021
10
November, 2020
8
January, 2021
8
March, 2020
7
August, 2020
4
August, 2021
4
July, 2018
4
March, 2019
4
October, 2019
3
October, 2022
2
November, 2019
1
August, 2022
1
February, 2020
1
October, 2017
Available data
bam
619
bigWig
461
fastq
411
tsv
214
bed narrowPeak
91
bigBed narrowPeak
39
zippedFastqFolder
29
bed bed3+
21
bed broadPeak
19
tagAlign
7
bedpe bed3+
7
bigBed broadPeak
7
hic
6
txt
3
cool
1
bedpe
1
hdf5
Organism
207
Homo sapiens
Biosample type
105
primary cell
74
tissue
29
cell line
Organ
208
pancreas
206
kidney
154
epithelium
138
heart
104
liver
93
bone element
86
connective tissue
53
eye
50
blood vessel
50
vasculature
45
adipose tissue
41
brain
39
artery
34
musculature of body
20
lung
9
blood
9
bodily fluid
8
limb
8
skeleton
5
gonad
5
ovary
2
intestine
2
thymus
2
vein
1
adrenal gland
1
bone marrow
1
embryo
1
esophagus
1
large intestine
1
lymph node
1
mammary gland
1
nerve
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
urinary bladder
Project
105
HPAP
75
AMP
28
T1D
Genome assembly (visualization)
21
hg19
14
GRCh38
Lab
105
Klaus Kaestner, Upenn
59
AMP-T2D consortium
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
1
Stephen Parker, UMich
Audit category:
27
inconsistent ontology term
4
audit script error
Audit category:
1
inconsistent assembly
files.file_type!
bam
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
208 results
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ATAC-seq
total RNA-seq
ChIP-seq
snATAC-seq
MeRIP-seq
Hi-C
Capture-C
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
primary cell
pancreatic alpha cell
29
42
1
pancreatic beta cell
16
11
1
pancreatic acinar cell
4
1
tissue
islet of Langerhans
20
12
20
7
4
3
pancreas
1
4
1
1
body of pancreas
1
cell line
EndoC_BH1
18
6
1
2
1
Panc1
1
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