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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
997
total RNA-seq
801
ChIP-seq
198
ATAC-seq
142
DNase-seq
118
single cell RNA-seq
87
RNA microarray
26
WGBS
24
pCHi-C
16
small RNA-seq
11
RRBS
10
Hi-C
8
snATAC-seq
4
FAIRE-seq
3
snDrop-seq
Assay category
1131
Transcription
801
DNA binding
352
DNA accessibility
37
DNA methylation
10
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
227
August, 2021
193
May, 2020
173
October, 2019
131
June, 2019
120
July, 2018
108
May, 2019
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
15
May, 2023
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
3
December, 2019
2
January, 2018
2
May, 2022
1
August, 2022
Available data
1768
bam
1620
bigWig
1068
tsv
814
bed narrowPeak
477
bigBed narrowPeak
351
fastq
238
tagAlign
175
bed broadPeak
169
bed bed3+
151
txt
140
bigBed broadPeak
64
xls
24
bed bedMethyl
24
bigBed bedMethyl
10
hic
9
bedpe bed3+
6
csv
5
bed bed3
1
tagAlign bed3+
Organism
2437
Homo sapiens
Biosample type
2445
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
252
kidney
158
bone element
133
blood vessel
133
vasculature
limb
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
2441
AMP
4
T1D
Genome assembly (visualization)
1720
GRCh38
1617
hg19
Lab
2303
AMP-T2D consortium
142
Katalin Susztak, Upenn
52
Kyle Gaulton, UCSD
47
KPMP
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:
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
2445 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
WGBS
pCHi-C
small RNA-seq
RRBS
Hi-C
snATAC-seq
FAIRE-seq
snDrop-seq
tissue
islet of Langerhans
286
70
34
1
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
1
3
1
1
1
1
kidney
49
27
75
13
17
1
1
6
1
bone element
84
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