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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
948
total RNA-seq
801
ChIP-seq
142
DNase-seq
123
ATAC-seq
107
single cell RNA-seq
87
RNA microarray
26
WGBS
24
pCHi-C
16
small RNA-seq
11
RRBS
9
Hi-C
4
FAIRE-seq
3
snDrop-seq
2
snATAC-seq
Assay category
1071
Transcription
801
DNA binding
271
DNA accessibility
37
DNA methylation
9
3D chromatin structure
Target of assay
544
histone modification
543
histone
294
narrow histone mark
249
broad histone mark
168
control
89
transcription factor
23
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
539
February, 2021
284
August, 2017
193
May, 2020
173
October, 2019
131
June, 2019
120
July, 2018
108
May, 2019
99
August, 2021
82
November, 2017
80
April, 2019
77
February, 2023
74
October, 2018
72
July, 2019
48
December, 2017
40
March, 2020
40
November, 2019
38
May, 2021
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
2
May, 2022
1
August, 2022
1
May, 2023
Available data
1768
bam
1620
bigWig
1068
tsv
750
bed narrowPeak
477
bigBed narrowPeak
351
fastq
238
tagAlign
175
bed broadPeak
169
bed bed3+
140
bigBed broadPeak
94
txt
24
bed bedMethyl
24
bigBed bedMethyl
9
bedpe bed3+
9
hic
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2295
Homo sapiens
Biosample type
2303
tissue
615
cell line
524
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
158
bone element
133
blood vessel
133
vasculature
limb
110
kidney
82
musculature of body
73
artery
56
eye
43
nerve
25
spleen
18
ureter
16
skeleton
15
epithelium
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
2299
AMP
4
T1D
Genome assembly (visualization)
1645
GRCh38
1616
hg19
Lab
2303
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
40
Karen Mohlke, UNC
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:
90
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
organ_slims!
limb
BIOSAMPLE
ASSAY
2303 results
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total RNA-seq
ChIP-seq
DNase-seq
ATAC-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
small RNA-seq
RRBS
Hi-C
FAIRE-seq
snDrop-seq
snATAC-seq
tissue
islet of Langerhans
286
70
1
34
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
1
3
1
1
1
1
bone element
84
heart left ventricle
3
35
3
2
18
4
1
1
1
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