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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
840
ChIP-seq
131
ATAC-seq
110
DNase-seq
single cell RNA-seq
85
RNA microarray
27
WGBS
24
pCHi-C
15
small RNA-seq
13
Hi-C
10
RRBS
3
FAIRE-seq
2
snATAC-seq
Assay category
963
Transcription
840
DNA binding
246
DNA accessibility
37
DNA methylation
13
3D chromatin structure
Target of assay
573
histone modification
572
histone
299
narrow histone mark
273
broad histone mark
179
control
88
transcription factor
22
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
Date released
536
February, 2021
284
August, 2017
238
October, 2019
193
May, 2020
120
July, 2018
115
May, 2019
95
June, 2019
82
November, 2017
76
February, 2023
74
October, 2018
73
July, 2019
57
April, 2019
48
December, 2017
40
March, 2020
40
November, 2019
38
May, 2021
26
November, 2018
25
February, 2020
22
October, 2017
7
December, 2018
7
January, 2019
6
September, 2017
2
January, 2018
1
August, 2021
1
August, 2022
1
May, 2022
1
May, 2023
Available data
1778
bam
1614
bigWig
959
tsv
753
bed narrowPeak
474
bigBed narrowPeak
345
fastq
238
tagAlign
143
bed broadPeak
137
bed bed3+
108
bigBed broadPeak
89
txt
24
bed bedMethyl
24
bigBed bedMethyl
9
bedpe bed3+
9
hic
5
bed bed3
1
tagAlign bed3+
Organism
2200
Homo sapiens
Biosample type
2208
tissue
598
cell line
386
primary cell
338
in vitro differentiated cells
8
stem cell
Organ
547
connective tissue
488
adipose tissue
436
pancreas
320
liver
265
brain
180
heart
158
bone element
127
blood vessel
127
vasculature
122
limb
kidney
81
musculature of body
71
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
2204
AMP
4
T1D
Genome assembly (visualization)
1645
GRCh38
1615
hg19
Lab
2208
AMP-T2D consortium
52
Kyle Gaulton, UCSD
40
Karen Mohlke, UNC
40
Patrick T. Ellinor, Broad
10
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:
91
inconsistent ontology term
27
inconsistent control
2
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
assay_title!
single cell RNA-seq
organ_slims!
kidney
BIOSAMPLE
ASSAY
2208 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
RNA microarray
WGBS
pCHi-C
small RNA-seq
Hi-C
RRBS
FAIRE-seq
snATAC-seq
tissue
islet of Langerhans
280
71
34
1
4
1
1
1
1
adipose tissue
382
2
3
3
1
liver
147
145
2
3
1
1
1
1
bone element
84
bone tissue
58
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