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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
200
ATAC-seq
187
single cell RNA-seq
147
total RNA-seq
139
ChIP-seq
47
WGBS
25
DNase-seq
21
snATAC-seq
9
RRBS
3
Hi-C
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
336
Transcription
246
DNA accessibility
139
DNA binding
57
DNA methylation
3
3D chromatin structure
Target of assay
106
histone
106
histone modification
57
narrow histone mark
49
broad histone mark
28
control
8
RNA binding protein
8
transcription factor
1
chromatin remodeller
Date released
134
May, 2022
102
May, 2020
88
February, 2023
73
September, 2018
59
August, 2017
59
September, 2020
51
June, 2019
48
July, 2018
43
April, 2018
26
July, 2019
21
February, 2021
20
May, 2021
13
October, 2019
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
June, 2018
3
November, 2017
2
October, 2018
1
March, 2023
1
November, 2018
Available data
397
bam
376
fastq
369
bigWig
172
tsv
160
bed narrowPeak
153
zippedFastqFolder
88
bigBed narrowPeak
37
bed broadPeak
37
bigBed broadPeak
27
bed bed3+
16
tagAlign
9
bed bedMethyl
9
bigBed bedMethyl
2
csv
2
hdf5
1
bed bed3
1
hic
Organism
782
Homo sapiens
Biosample type
2543
tissue
782
primary cell
591
cell line
345
in vitro differentiated cells
10
stem cell
Organ
402
epithelium
343
pancreas
38
connective tissue
36
kidney
vasculature
30
blood vessel
21
brain
21
vein
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
487
AMP
294
HPAP
1
ITG
Genome assembly (visualization)
379
hg19
334
GRCh38
Lab
487
AMP-T2D consortium
294
Klaus Kaestner, Upenn
Kyle Gaulton, UCSD
1
ITG
Audit category:
48
inconsistent ontology term
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
lab.title!
Kyle Gaulton, UCSD
organ_slims!
vasculature
audit.ERROR.category!
audit script error
BIOSAMPLE
ASSAY
782 results
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ATAC-seq
single cell RNA-seq
total RNA-seq
ChIP-seq
WGBS
DNase-seq
snATAC-seq
RRBS
Hi-C
small RNA-seq
DNAme array
pCHi-C
primary cell
pancreatic alpha cell
35
12
52
13
31
Langerhans cell
85
21
pancreatic beta cell
23
12
21
13
16
exocrine cell
39
pancreatic acinar cell
9
12
4
8
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