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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
151
ATAC-seq
145
ChIP-seq
102
single cell RNA-seq
57
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
161
Transcription
145
DNA binding
11
DNA methylation
4
3D chromatin structure
Target of assay
108
histone
108
histone modification
59
narrow histone mark
49
broad histone mark
30
control
10
RNA binding protein
10
transcription factor
1
chromatin remodeller
Date released
102
May, 2020
73
September, 2018
59
August, 2017
55
June, 2019
48
July, 2018
43
April, 2018
31
July, 2019
20
May, 2021
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
1
November, 2018
Available data
409
bam
373
bigWig
240
fastq
168
bed narrowPeak
168
tsv
96
bigBed narrowPeak
45
bed broadPeak
45
bigBed broadPeak
33
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
1
bed bed3
Organism
502
Homo sapiens
Biosample type
2425
tissue
615
cell line
502
primary cell
340
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
502
AMP
Genome assembly (visualization)
393
hg19
333
GRCh38
Lab
502
AMP-T2D consortium
324
Klaus Kaestner, Upenn
238
Kyle Gaulton, UCSD
1
ITG
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
organ_slims!
bone marrow
vein
BIOSAMPLE
ASSAY
502 results
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ATAC-seq
ChIP-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
7
13
12
10
pancreatic alpha cell
6
13
12
10
pancreatic ductal cell
4
13
10
4
pancreatic acinar cell
5
8
12
4
naive thymus-derived CD4-positive, alpha-beta T cell
22
2
1
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