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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
136
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
136
DNA binding
11
DNA methylation
4
3D chromatin structure
Target of assay
105
histone
105
histone modification
56
narrow histone mark
49
broad histone mark
27
control
7
RNA binding protein
7
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
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
400
bam
364
bigWig
231
fastq
168
tsv
162
bed narrowPeak
90
bigBed narrowPeak
39
bed broadPeak
39
bigBed broadPeak
33
bed bed3+
16
tagAlign
10
bed bedMethyl
10
bigBed bedMethyl
4
hdf5
2
csv
1
bed bed3
Organism
493
Homo sapiens
Biosample type
2343
tissue
493
primary cell
340
in vitro differentiated cells
300
cell line
8
stem cell
Organ
248
epithelium
194
pancreas
38
connective tissue
36
kidney
31
vasculature
28
blood vessel
vein
14
liver
14
musculature of body
13
heart
12
brain
5
eye
2
adipose tissue
2
artery
1
pericardium
Project
493
AMP
Genome assembly (visualization)
384
hg19
327
GRCh38
Lab
493
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
month_released!
November, 2017
organ_slims!
bone marrow
vein
BIOSAMPLE
ASSAY
493 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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