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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
192
total RNA-seq
187
ATAC-seq
187
single cell RNA-seq
142
ChIP-seq
47
WGBS
31
DNase-seq
29
snATAC-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
FAIRE-seq
1
pCHi-C
Assay category
381
Transcription
248
DNA accessibility
142
DNA binding
57
DNA methylation
6
3D chromatin structure
Target of assay
105
histone
105
histone modification
56
narrow histone mark
49
broad histone mark
30
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
147
May, 2020
134
May, 2022
May, 2021
88
February, 2023
73
September, 2018
59
September, 2020
55
June, 2019
48
July, 2018
47
August, 2017
43
April, 2018
33
October, 2019
31
July, 2019
21
February, 2021
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
3
August, 2018
3
June, 2018
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
460
bam
442
bigWig
382
fastq
218
tsv
168
bed narrowPeak
153
zippedFastqFolder
109
bigBed narrowPeak
49
bed broadPeak
49
bigBed broadPeak
35
bed bed3+
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
2
hic
1
bed bed3
1
bedpe bed3+
1
tar
Organism
835
Homo sapiens
Biosample type
2483
tissue
835
primary cell
593
cell line
226
in vitro differentiated cells
10
stem cell
Organ
398
epithelium
343
pancreas
38
connective tissue
36
kidney
36
vasculature
30
blood vessel
21
brain
21
vein
14
musculature of body
13
heart
10
liver
8
blood
8
bodily fluid
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
487
AMP
294
HPAP
53
T1D
1
ITG
Genome assembly (visualization)
425
hg19
373
GRCh38
Lab
487
AMP-T2D consortium
294
Klaus Kaestner, Upenn
53
Kyle Gaulton, UCSD
1
ITG
Audit category:
53
inconsistent ontology term
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
audit script error
files.file_type!
tagAlign
month_released!
December, 2018
May, 2021
BIOSAMPLE
ASSAY
835 results
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total RNA-seq
ATAC-seq
single cell RNA-seq
ChIP-seq
WGBS
DNase-seq
snATAC-seq
RRBS
Hi-C
small RNA-seq
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
52
35
12
13
31
Langerhans cell
85
21
pancreatic beta cell
21
23
12
13
16
exocrine cell
39
pancreatic acinar cell
4
9
12
8
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