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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
128
single cell RNA-seq
122
total RNA-seq
97
ChIP-seq
32
ATAC-seq
28
DNase-seq
27
snATAC-seq
6
WGBS
4
Hi-C
1
RRBS
1
pCHi-C
Assay category
250
Transcription
97
DNA binding
87
DNA accessibility
7
DNA methylation
4
3D chromatin structure
Target of assay
76
histone
76
histone modification
42
narrow histone mark
34
broad histone mark
16
control
5
RNA binding protein
5
transcription factor
1
chromatin remodeller
Date released
76
February, 2023
73
September, 2018
58
August, 2017
48
July, 2018
46
February, 2021
41
September, 2020
38
April, 2018
24
June, 2019
9
November, 2017
7
August, 2020
5
September, 2017
4
July, 2019
3
August, 2018
3
August, 2021
3
June, 2018
2
May, 2021
2
October, 2018
2
October, 2019
1
November, 2018
1
November, 2020
Available data
613
bigWig
609
bam
409
fastq
295
bed narrowPeak
270
tsv
153
zippedFastqFolder
109
bigBed narrowPeak
100
tagAlign
49
bed broadPeak
49
bigBed broadPeak
37
bed bed3+
10
bed bedMethyl
10
bigBed bedMethyl
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
446
Homo sapiens
Biosample type
545
tissue
446
primary cell
430
cell line
147
in vitro differentiated cells
4
stem cell
Organ
259
epithelium
258
pancreas
17
brain
14
vasculature
11
connective tissue
10
kidney
9
blood vessel
6
liver
3
heart
2
vein
1
eye
1
musculature of body
Project
277
AMP
169
HPAP
Genome assembly (visualization)
259
GRCh38
256
hg19
Lab
275
AMP-T2D consortium
169
Klaus Kaestner, Upenn
2
Kyle Gaulton, UCSD
Audit category:
27
audit script error
10
inconsistent ontology term
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
BIOSAMPLE
ASSAY
446 results
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single cell RNA-seq
total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
snATAC-seq
WGBS
Hi-C
RRBS
pCHi-C
primary cell
pancreatic alpha cell
12
52
13
13
6
Langerhans cell
34
27
pancreatic beta cell
12
21
13
10
exocrine cell
39
pancreatic ductal cell
9
4
13
4
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