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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
41
ChIP-seq
32
ATAC-seq
27
snATAC-seq
6
WGBS
1
DNase-seq
1
RRBS
Assay category
248
Transcription
60
DNA accessibility
41
DNA binding
7
DNA methylation
Target of assay
26
histone
26
histone modification
14
narrow histone mark
13
control
12
broad histone mark
2
RNA binding protein
2
transcription factor
1
chromatin remodeller
Date released
76
February, 2023
48
July, 2018
46
August, 2017
45
February, 2021
41
September, 2018
41
September, 2020
38
April, 2018
November, 2017
7
August, 2020
5
September, 2017
3
August, 2018
3
June, 2018
2
October, 2018
1
November, 2018
Available data
549
bigWig
544
bam
356
fastq
265
tsv
251
bed narrowPeak
153
zippedFastqFolder
101
bigBed narrowPeak
96
tagAlign
41
bed broadPeak
41
bigBed broadPeak
31
bed bed3+
9
bed bedMethyl
9
bigBed bedMethyl
6
hic
4
bedpe bed3+
3
cool
3
hdf5
2
csv
1
bed bed3
1
tar
Organism
356
Homo sapiens
Biosample type
356
primary cell
268
tissue
120
in vitro differentiated cells
60
cell line
4
stem cell
Organ
214
pancreas
211
epithelium
3
connective tissue
Project
187
AMP
169
HPAP
Genome assembly (visualization)
179
GRCh38
173
hg19
Lab
187
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
month_released!
November, 2017
organ_slims!
liver
BIOSAMPLE
ASSAY
356 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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