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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
211
total RNA-seq
68
ChIP-seq
43
ATAC-seq
5
DNase-seq
5
single cell RNA-seq
4
Hi-C
2
Capture-C
2
RRBS
2
small RNA-seq
1
CRISPR genome editing followed by sgRNA sequencing
1
pCHi-C
1
snATAC-seq
Assay category
218
Transcription
68
DNA binding
49
DNA accessibility
4
3D chromatin structure
2
DNA methylation
Target of assay
50
histone
50
histone modification
26
broad histone mark
24
narrow histone mark
17
control
1
RNA binding protein
1
transcription factor
Date released
118
July, 2018
57
May, 2021
55
November, 2019
26
February, 2021
20
August, 2017
18
October, 2019
16
October, 2018
14
March, 2020
6
July, 2019
5
April, 2018
4
June, 2019
2
August, 2021
2
May, 2019
1
August, 2022
February, 2020
1
February, 2023
Available data
661
bam
610
bigWig
409
tsv
fastq
194
bed narrowPeak
91
bigBed narrowPeak
29
bed bed3+
19
bed broadPeak
16
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
3
bedpe bed3+
3
hic
1
hdf5
Organism
344
Homo sapiens
Biosample type
254
tissue
86
cell line
5
primary cell
in vitro differentiated cells
Organ
538
connective tissue
445
adipose tissue
349
heart
345
pancreas
254
liver
253
brain
227
vasculature
224
blood vessel
173
epithelium
163
kidney
158
bone element
139
artery
119
limb
92
musculature of body
60
eye
42
nerve
22
vein
18
ureter
16
skeleton
8
embryo
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
blood
1
bodily fluid
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spleen
1
stomach
1
thymus
1
urinary bladder
Project
337
AMP
8
T1D
Genome assembly (visualization)
287
hg19
274
GRCh38
Lab
345
AMP-T2D consortium
83
Klaus Kaestner, Upenn
27
Kyle Gaulton, UCSD
10
Rohit N. Kulkarni, M.D., Ph.D.
4
Bing Ren, UCSD
1
Maike Sander, UCSD
1
Mark McCarthy, Oxford
Audit category:
70
inconsistent ontology term
1
audit script error
Audit category:
1
inconsistent assembly
biosample_type!
in vitro differentiated cells
files.file_type!
fastq
month_released!
February, 2020
BIOSAMPLE
ASSAY
345 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
Hi-C
Capture-C
RRBS
small RNA-seq
CRISPR genome editing followed by sgRNA sequencing
pCHi-C
snATAC-seq
tissue
islet of Langerhans
175
22
24
1
1
1
endocrine pancreas
16
body of pancreas
2
2
2
2
pancreas
1
2
1
1
1
cell line
EndoC_BH1
33
15
19
1
2
1
Panc1
13
1
1
primary cell
pancreatic acinar cell
3
pancreatic ductal cell
1
pancreatic stellate cell
1
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