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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
178
ChIP-seq
151
ATAC-seq
100
single cell RNA-seq
59
total RNA-seq
29
DNase-seq
10
RRBS
4
Hi-C
2
small RNA-seq
1
DNAme array
1
pCHi-C
Assay category
180
DNA accessibility
178
DNA binding
161
Transcription
11
DNA methylation
4
3D chromatin structure
Target of assay
138
histone
138
histone modification
69
broad histone mark
69
narrow histone mark
33
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
72
September, 2018
59
August, 2017
55
June, 2019
55
May, 2021
48
July, 2018
43
April, 2018
31
July, 2019
13
October, 2019
12
February, 2023
9
November, 2017
6
November, 2020
5
December, 2019
5
May, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
February, 2021
3
June, 2018
2
October, 2018
Available data
409
bam
408
bigWig
240
fastq
198
bed narrowPeak
168
tsv
96
bigBed narrowPeak
45
bed broadPeak
45
bigBed broadPeak
35
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
csv
1
bed bed3
Organism
535
Homo sapiens
Biosample type
2674
tissue
651
cell line
535
primary cell
394
in vitro differentiated cells
8
stem cell
Organ
254
epithelium
194
pancreas
38
connective tissue
37
vasculature
36
kidney
31
blood vessel
vein
21
brain
14
liver
14
musculature of body
13
heart
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
535
AMP
324
HPAP
204
T1D
1
ITG
Genome assembly (visualization)
428
hg19
333
GRCh38
Lab
500
AMP-T2D consortium
35
Kyle Gaulton, UCSD
Audit category:
49
inconsistent ontology term
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
assay_title!
CRISPR genome editing followed by DNA sequencing
files.file_type!
csv
organ_slims!
vein
BIOSAMPLE
ASSAY
535 results
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ChIP-seq
ATAC-seq
single cell RNA-seq
total RNA-seq
DNase-seq
RRBS
Hi-C
small RNA-seq
DNAme array
pCHi-C
primary cell
pancreatic beta cell
13
7
12
10
pancreatic alpha cell
13
6
12
10
CD8-positive, alpha-beta T cell
33
2
2
pancreatic ductal cell
13
4
10
4
pancreatic acinar cell
8
5
12
4
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