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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
509
ChIP-seq
86
total RNA-seq
66
single cell RNA-seq
33
ATAC-seq
8
WGBS
3
DNase-seq
1
Hi-C
1
RRBS
Assay category
509
DNA binding
152
Transcription
36
DNA accessibility
9
DNA methylation
1
3D chromatin structure
Target of assay
329
transcription factor
93
control
84
histone modification
83
histone
82
recombinant protein
59
RNA binding protein
42
narrow histone mark
41
broad histone mark
23
chromatin remodeller
2
other context
2
other post-translational modification
Date released
321
November, 2017
67
December, 2017
61
September, 2018
57
August, 2017
53
November, 2018
37
February, 2023
33
July, 2018
29
April, 2018
19
September, 2020
7
August, 2020
6
February, 2021
5
January, 2019
5
September, 2017
3
August, 2018
2
October, 2018
1
December, 2018
1
June, 2018
Available data
972
bam
899
bigWig
707
fastq
573
bed narrowPeak
419
bigBed narrowPeak
325
tsv
89
tagAlign
84
bed broadPeak
84
bigBed broadPeak
80
zippedFastqFolder
29
bed bed3+
8
bed bedMethyl
8
bigBed bedMethyl
8
hic
7
bedpe bed3+
4
tar
3
cool
2
hdf5
1
bed bed3
1
csv
1
vcf
Organism
707
Homo sapiens
Biosample type
367
cell line
238
primary cell
83
tissue
19
in vitro differentiated cells
Organ
471
pancreas
465
liver
257
epithelium
101
connective tissue
60
blood
60
bodily fluid
44
adipose tissue
27
embryo
24
spleen
21
brain
6
vasculature
3
blood vessel
2
musculature of body
Project
638
AMP
69
HPAP
Genome assembly (visualization)
549
hg19
510
GRCh38
Lab
638
AMP-T2D consortium
69
Klaus Kaestner, Upenn
Audit category:
27
inconsistent control
5
inconsistent ontology term
Audit category:
34
missing controlled_by
Audit category:
32
inconsistent control read length
8
inconsistent control run_type
BIOSAMPLE
ASSAY
707 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
WGBS
DNase-seq
Hi-C
RRBS
cell line
HepG2
360
5
1
1
primary cell
pancreatic alpha cell
13
52
12
13
6
pancreatic beta cell
13
21
12
10
pancreatic ductal cell
13
4
9
4
pancreatic acinar cell
8
4
9
5
pancreatic delta cell
11
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tissue
liver
67
1
2
1
right lobe of liver
10
1
1
in vitro differentiated cells
hepatocyte
15
Hepatic endoderm
4
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