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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
206
ChIP-seq
148
total RNA-seq
93
single cell RNA-seq
78
ATAC-seq
9
Hi-C
8
RRBS
2
small RNA-seq
1
DNase-seq
1
FAIRE-seq
1
pCHi-C
Assay category
243
Transcription
206
DNA binding
80
DNA accessibility
9
3D chromatin structure
8
DNA methylation
Target of assay
197
histone
197
histone modification
102
broad histone mark
95
narrow histone mark
10
control
2
RNA binding protein
2
transcription factor
Date released
184
May, 2021
82
May, 2020
72
September, 2018
43
April, 2018
42
July, 2018
33
August, 2017
29
July, 2019
20
October, 2019
5
December, 2019
5
June, 2019
5
November, 2020
5
September, 2017
3
August, 2018
3
August, 2021
3
February, 2021
3
November, 2017
3
October, 2022
2
June, 2018
2
May, 2019
2
October, 2018
1
March, 2020
Available data
558
bigWig
534
bam
263
bed narrowPeak
241
tsv
219
fastq
99
tagAlign
79
bigBed narrowPeak
39
bed broadPeak
bigBed broadPeak
27
bed bed3+
8
bed bedMethyl
8
bigBed bedMethyl
5
hic
4
bedpe bed3+
4
hdf5
3
cool
1
bed bed3
1
tar
Organism
547
Homo sapiens
Biosample type
1592
tissue
547
primary cell
411
cell line
188
in vitro differentiated cells
3
stem cell
Organ
204
epithelium
180
pancreas
20
vasculature
19
connective tissue
18
blood vessel
16
kidney
13
vein
10
brain
10
liver
4
heart
4
musculature of body
3
eye
2
adipose tissue
2
artery
1
pericardium
Project
368
AMP
176
T1D
3
HPAP
Genome assembly (visualization)
547
hg19
458
GRCh38
Lab
333
AMP-T2D consortium
211
Kyle Gaulton, UCSD
3
Klaus Kaestner, Upenn
Audit category:
inconsistent ontology term
4
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
files.file_type!
bigBed broadPeak
BIOSAMPLE
ASSAY
547 results
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ChIP-seq
total RNA-seq
single cell RNA-seq
ATAC-seq
Hi-C
RRBS
small RNA-seq
DNase-seq
FAIRE-seq
pCHi-C
primary cell
monocyte
84
53
15
CD8-positive, alpha-beta T cell
33
4
2
pancreatic beta cell
7
10
12
7
1
pancreatic alpha cell
7
10
12
6
1
pancreatic ductal cell
13
4
10
4
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