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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
120
total RNA-seq
45
ChIP-seq
32
ATAC-seq
27
snATAC-seq
6
WGBS
1
DNase-seq
1
RRBS
Assay category
248
Transcription
60
DNA accessibility
45
DNA binding
7
DNA methylation
Target of assay
29
histone
29
histone modification
17
narrow histone mark
16
control
12
broad histone mark
5
RNA binding protein
transcription factor
1
chromatin remodeller
Date released
76
February, 2023
48
July, 2018
45
February, 2021
44
August, 2017
41
September, 2018
41
September, 2020
38
April, 2018
7
August, 2020
6
November, 2017
5
September, 2017
3
August, 2018
3
June, 2018
2
October, 2018
1
November, 2018
Available data
559
bigWig
555
bam
360
fastq
270
tsv
253
bed narrowPeak
153
zippedFastqFolder
100
tagAlign
99
bigBed narrowPeak
44
bed broadPeak
44
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
360
Homo sapiens
Biosample type
360
primary cell
290
tissue
107
in vitro differentiated cells
89
cell line
4
stem cell
Organ
215
epithelium
214
pancreas
6
brain
4
vasculature
3
connective tissue
2
blood vessel
Project
191
AMP
169
HPAP
Genome assembly (visualization)
181
GRCh38
177
hg19
Lab
191
AMP-T2D consortium
169
Klaus Kaestner, Upenn
Audit category:
27
audit script error
7
inconsistent ontology term
Audit category:
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.NOT_COMPLIANT.category!
missing controlled_by
organ_slims!
bone element
target.investigated_as!
transcription factor
BIOSAMPLE
ASSAY
360 results
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single cell RNA-seq
total RNA-seq
ChIP-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
RRBS
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 acinar cell
9
4
5
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