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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
214
ChIP-seq
135
total RNA-seq
128
single cell RNA-seq
32
ATAC-seq
27
snATAC-seq
6
WGBS
GRO-seq
2
DNase-seq
1
RRBS
1
pCHi-C
Assay category
263
Transcription
214
DNA binding
61
DNA accessibility
7
DNA methylation
Target of assay
138
histone
138
histone modification
73
narrow histone mark
64
broad histone mark
38
control
38
transcription factor
11
RNA binding protein
4
chromatin remodeller
Date released
112
August, 2017
76
February, 2023
73
September, 2018
48
July, 2018
45
February, 2021
43
December, 2017
41
September, 2020
39
February, 2018
38
April, 2018
9
November, 2017
7
August, 2020
5
September, 2017
4
August, 2018
3
June, 2018
2
October, 2018
1
November, 2018
Available data
900
bam
868
bigWig
546
fastq
427
bed narrowPeak
401
tsv
153
zippedFastqFolder
140
tagAlign
126
bigBed narrowPeak
62
bed bed3+
50
bed broadPeak
50
bigBed broadPeak
11
bedpe bed3+
10
bed bedMethyl
10
bigBed bedMethyl
10
hic
7
bed bedgraph
bed bed3
4
hdf5
3
cool
3
txt
2
csv
2
ibed
1
tar
Organism
546
Homo sapiens
Biosample type
427
cell line
409
primary cell
377
tissue
137
in vitro differentiated cells
3
stem cell
Organ
258
pancreas
257
epithelium
58
connective tissue
26
embryo
15
liver
9
brain
6
vasculature
3
blood vessel
1
adipose tissue
Project
377
AMP
169
HPAP
Genome assembly (visualization)
347
GRCh38
344
hg19
Lab
377
AMP-T2D consortium
169
Klaus Kaestner, Upenn
Audit category:
27
audit script error
11
inconsistent ontology term
Audit category:
50
missing controlled_by
Audit category:
22
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
GRO-seq
files.file_type!
bed bed3
BIOSAMPLE
ASSAY
546 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
snATAC-seq
WGBS
DNase-seq
RRBS
pCHi-C
primary cell
pancreatic alpha cell
13
52
12
13
6
Langerhans cell
34
27
pancreatic beta cell
13
21
12
10
exocrine cell
39
pancreatic ductal cell
13
4
9
4
+ See 18 more…
in vitro differentiated cells
adipocyte
53
1
pancreatic endoderm
18
4
hepatocyte
15
definitive endodermal cell
8
2
primitive gut cell
8
2
+ See 7 more…
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