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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
153
ChIP-seq
ATAC-seq
102
single cell RNA-seq
57
total RNA-seq
31
DNase-seq
10
RRBS
6
Hi-C
2
small RNA-seq
1
DNAme array
1
FAIRE-seq
1
pCHi-C
Assay category
161
Transcription
153
DNA binding
32
DNA accessibility
11
DNA methylation
6
3D chromatin structure
Target of assay
120
histone
120
histone modification
62
narrow histone mark
58
broad histone mark
29
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
59
September, 2018
56
August, 2017
55
June, 2019
48
July, 2018
43
April, 2018
32
October, 2019
31
July, 2019
November, 2017
7
May, 2021
5
December, 2019
5
May, 2019
5
November, 2020
4
August, 2021
3
August, 2018
3
June, 2018
2
February, 2021
2
May, 2020
2
October, 2018
1
March, 2020
1
November, 2018
Available data
336
bam
311
bigWig
209
fastq
156
tsv
136
bed narrowPeak
81
bigBed narrowPeak
43
bed broadPeak
43
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
2
hic
1
bedpe bed3+
1
tar
Organism
364
Homo sapiens
Biosample type
2211
tissue
364
primary cell
308
in vitro differentiated cells
271
cell line
8
stem cell
Organ
225
epithelium
172
pancreas
36
connective tissue
36
kidney
31
vasculature
28
blood vessel
22
vein
14
musculature of body
13
heart
13
liver
12
brain
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
364
AMP
Genome assembly (visualization)
317
hg19
300
GRCh38
Lab
364
AMP-T2D consortium
275
Klaus Kaestner, Upenn
239
Kyle Gaulton, UCSD
1
ITG
Audit category:
37
inconsistent ontology term
1
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
ATAC-seq
month_released!
November, 2017
organ_slims!
esophagus
BIOSAMPLE
ASSAY
364 results
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ChIP-seq
single cell RNA-seq
total RNA-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
FAIRE-seq
pCHi-C
primary cell
pancreatic alpha cell
13
12
10
pancreatic beta cell
13
12
10
pancreatic ductal cell
13
10
4
pancreatic acinar cell
8
12
4
pancreatic endocrine cell
23
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