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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
276
total RNA-seq
151
ChIP-seq
51
ATAC-seq
14
single cell RNA-seq
8
DNase-seq
5
Hi-C
4
MeRIP-seq
4
WGBS
2
FAIRE-seq
2
RRBS
2
small RNA-seq
1
pCHi-C
1
snATAC-seq
Assay category
292
Transcription
151
DNA binding
62
DNA accessibility
6
DNA methylation
5
3D chromatin structure
Target of assay
101
histone
101
histone modification
56
broad histone mark
45
narrow histone mark
35
control
17
transcription factor
8
RNA binding protein
2
nucleotide modification
Date released
159
August, 2017
126
July, 2018
51
October, 2018
39
November, 2019
37
May, 2021
24
May, 2022
18
October, 2019
11
September, 2018
8
April, 2018
7
November, 2018
6
July, 2019
6
September, 2017
5
March, 2019
5
March, 2020
5
October, 2017
4
June, 2019
4
November, 2020
2
August, 2021
2
May, 2019
1
August, 2022
1
February, 2020
Available data
472
bam
410
bigWig
283
tsv
243
fastq
139
bed narrowPeak
69
bigBed narrowPeak
29
bed bed3+
21
bed broadPeak
16
tagAlign
7
bigBed broadPeak
6
bed bedMethyl
6
bigBed bedMethyl
6
txt
3
bedpe bed3+
3
hic
1
bedpe
1
hdf5
Organism
514
Homo sapiens
Biosample type
475
tissue
31
primary cell
15
cell line
Organ
791
liver
760
pancreas
683
connective tissue
491
adipose tissue
393
heart
epithelium
307
kidney
286
brain
vasculature
230
blood vessel
158
bone element
141
artery
122
limb
96
musculature of body
61
blood
61
bodily fluid
61
eye
43
nerve
25
spleen
24
embryo
22
vein
18
ureter
16
skeleton
5
gonad
5
ovary
2
intestine
2
pericardium
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
mammary gland
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
521
AMP
30
T1D
Genome assembly (visualization)
450
hg19
423
GRCh38
Lab
484
AMP-T2D consortium
25
Kyle Gaulton, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
4
inconsistent ontology term
1
audit script error
Audit category:
33
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
month_released!
February, 2018
organ_slims!
epithelium
vasculature
BIOSAMPLE
ASSAY
521 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
Hi-C
MeRIP-seq
WGBS
FAIRE-seq
RRBS
small RNA-seq
pCHi-C
snATAC-seq
tissue
islet of Langerhans
271
48
47
6
1
3
4
1
1
1
body of pancreas
3
35
4
4
2
2
pancreas
2
16
2
1
2
1
1
1
endocrine pancreas
16
primary cell
pancreatic endocrine cell
23
pancreatic stellate cell
4
co-expressing pancreatic endocrine cell
2
unclassified pancreatic endocrine cell
2
cell line
Panc1
13
1
1
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