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Schema
Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
938
total RNA-seq
794
ChIP-seq
173
DNase-seq
102
single cell RNA-seq
93
ATAC-seq
25
WGBS
23
pCHi-C
16
small RNA-seq
12
Hi-C
11
RRBS
4
FAIRE-seq
3
RNA microarray
3
snDrop-seq
1
snATAC-seq
Assay category
1056
Transcription
794
DNA binding
271
DNA accessibility
36
DNA methylation
12
3D chromatin structure
Target of assay
539
histone modification
538
histone
291
narrow histone mark
247
broad histone mark
169
control
86
transcription factor
20
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
456
February, 2021
284
August, 2017
216
October, 2019
193
May, 2020
160
June, 2019
120
July, 2018
93
August, 2021
82
November, 2017
80
April, 2019
74
October, 2018
70
July, 2019
65
May, 2019
48
December, 2017
40
November, 2019
38
February, 2023
38
May, 2021
37
March, 2020
26
November, 2018
22
February, 2020
22
October, 2017
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
3
December, 2019
2
January, 2018
1
August, 2022
1
May, 2022
1
May, 2023
Available data
1795
bam
1641
bigWig
1061
tsv
742
bed narrowPeak
499
bigBed narrowPeak
351
fastq
238
tagAlign
206
bed broadPeak
200
bed bed3+
171
bigBed broadPeak
txt
24
bed bedMethyl
24
bigBed bedMethyl
8
bedpe bed3+
8
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2190
Homo sapiens
Biosample type
2198
tissue
548
cell line
487
primary cell
340
in vitro differentiated cells
8
stem cell
Organ
547
connective tissue
488
adipose tissue
442
pancreas
321
liver
273
heart
265
brain
133
blood vessel
vasculature
122
limb
105
kidney
81
musculature of body
73
artery
70
bone element
56
eye
43
nerve
25
spleen
18
ureter
15
epithelium
12
skeleton
5
gonad
5
ovary
2
intestine
2
pituitary gland
1
adrenal gland
1
esophagus
1
large intestine
1
lung
1
lymph node
1
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
thymus
1
urinary bladder
Project
2194
AMP
4
T1D
Genome assembly (visualization)
1641
hg19
1636
GRCh38
Lab
2198
AMP-T2D consortium
85
Katalin Susztak, Upenn
47
KPMP
46
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
19
Xin Sun, UCSD
4
Bing Ren, UCSD
4
Rohit N. Kulkarni, M.D., Ph.D.
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
27
inconsistent control
7
inconsistent ontology term
3
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
txt
organ_slims!
vasculature
BIOSAMPLE
ASSAY
2198 results
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total RNA-seq
ChIP-seq
DNase-seq
single cell RNA-seq
ATAC-seq
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
RNA microarray
snDrop-seq
snATAC-seq
tissue
islet of Langerhans
280
71
1
6
34
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
1
3
1
1
1
1
heart left ventricle
3
35
3
18
2
4
1
1
1
bone tissue
58
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