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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
254
ChIP-seq
243
total RNA-seq
188
ATAC-seq
180
single cell RNA-seq
56
snATAC-seq
28
DNase-seq
16
pCHi-C
10
Hi-C
2
small RNA-seq
1
FAIRE-seq
Assay category
425
Transcription
273
DNA accessibility
254
DNA binding
DNA methylation
10
3D chromatin structure
Target of assay
220
histone
220
histone modification
114
broad histone mark
106
narrow histone mark
30
control
7
RNA binding protein
7
transcription factor
1
chromatin remodeller
Date released
204
May, 2021
139
May, 2020
93
May, 2022
82
February, 2023
73
September, 2018
59
September, 2020
58
August, 2017
43
April, 2018
42
February, 2021
42
July, 2018
32
October, 2019
30
June, 2019
22
July, 2019
9
November, 2017
8
January, 2021
7
August, 2020
6
November, 2020
5
December, 2019
5
September, 2017
4
August, 2021
3
August, 2018
3
October, 2022
2
June, 2018
2
May, 2019
2
October, 2018
1
March, 2020
1
March, 2023
1
November, 2018
Available data
575
bigWig
564
bam
395
fastq
270
bed narrowPeak
247
tsv
112
zippedFastqFolder
100
tagAlign
86
bigBed narrowPeak
46
bed broadPeak
46
bigBed broadPeak
34
bed bed3+
6
hic
4
bedpe bed3+
4
hdf5
3
cool
2
csv
1
bed bed3
1
tar
Organism
978
Homo sapiens
Biosample type
2608
tissue
978
primary cell
569
cell line
279
in vitro differentiated cells
9
stem cell
Organ
344
epithelium
294
pancreas
35
vasculature
31
blood vessel
26
connective tissue
26
kidney
22
vein
20
brain
12
liver
8
blood
8
bodily fluid
7
heart
5
musculature of body
4
eye
2
adipose tissue
2
artery
1
bone element
1
bone marrow
1
pericardium
Project
501
AMP
277
HPAP
199
T1D
1
ITG
Genome assembly (visualization)
578
hg19
500
GRCh38
Lab
466
AMP-T2D consortium
277
Klaus Kaestner, Upenn
234
Kyle Gaulton, UCSD
1
ITG
Audit category:
inconsistent ontology term
31
audit script error
Audit category:
44
missing controlled_by
Audit category:
5
inconsistent control read length
2
inconsistent assembly
1
inconsistent control run_type
audit.ERROR.category!
inconsistent ontology term
assay_slims!
DNA methylation
BIOSAMPLE
ASSAY
978 results
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Clear Filters
ChIP-seq
total RNA-seq
ATAC-seq
single cell RNA-seq
snATAC-seq
DNase-seq
pCHi-C
Hi-C
small RNA-seq
FAIRE-seq
primary cell
monocyte
85
54
15
1
Langerhans cell
85
48
pancreatic alpha cell
13
52
35
12
1
pancreatic beta cell
13
21
23
12
1
CD8-positive, alpha-beta T cell
33
4
2
1
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