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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
987
total RNA-seq
839
ChIP-seq
185
ATAC-seq
110
DNase-seq
110
single cell RNA-seq
85
RNA microarray
25
pCHi-C
22
snATAC-seq
15
Hi-C
15
small RNA-seq
4
MeRIP-seq
3
FAIRE-seq
Assay category
1112
Transcription
839
DNA binding
320
DNA accessibility
DNA methylation
15
3D chromatin structure
Target of assay
572
histone modification
571
histone
299
narrow histone mark
272
broad histone mark
181
control
88
transcription factor
22
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
537
February, 2021
269
August, 2017
238
October, 2019
193
May, 2020
120
July, 2018
115
May, 2019
101
August, 2021
95
February, 2023
95
June, 2019
82
November, 2017
74
October, 2018
66
May, 2022
57
April, 2019
56
July, 2019
48
December, 2017
40
March, 2020
40
May, 2021
40
November, 2019
25
February, 2020
23
October, 2017
20
November, 2018
19
April, 2020
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
2
January, 2018
1
August, 2022
1
May, 2023
Available data
1791
bam
1624
bigWig
1064
tsv
790
bed narrowPeak
473
bigBed narrowPeak
363
fastq
237
tagAlign
144
bed broadPeak
137
bed bed3+
108
bigBed broadPeak
95
txt
10
bedpe bed3+
10
hic
5
bed bed3
1
bedpe
1
csv
1
tagAlign bed3+
Organism
2392
Homo sapiens
Biosample type
2400
tissue
995
primary cell
641
cell line
394
in vitro differentiated cells
10
stem cell
Organ
541
connective tissue
498
pancreas
482
adipose tissue
356
liver
kidney
264
brain
264
heart
158
bone element
131
blood vessel
131
vasculature
121
limb
77
musculature of body
73
artery
56
eye
43
nerve
23
spleen
20
lung
18
ureter
16
skeleton
15
epithelium
5
gonad
5
ovary
2
intestine
2
pituitary gland
2
thymus
1
adrenal gland
1
esophagus
1
large intestine
1
lymph node
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2350
AMP
31
T1D
19
LungMap
Genome assembly (visualization)
1654
hg19
1637
GRCh38
Lab
2277
AMP-T2D consortium
52
Kyle Gaulton, UCSD
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:
91
inconsistent ontology term
27
inconsistent control
2
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
inconsistent assembly
assay_slims!
DNA methylation
organ_slims!
kidney
audit.WARNING.category!
inconsistent assembly
BIOSAMPLE
ASSAY
2400 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
pCHi-C
snATAC-seq
Hi-C
small RNA-seq
MeRIP-seq
FAIRE-seq
tissue
islet of Langerhans
298
71
68
1
4
7
3
4
1
adipose tissue
382
2
3
1
liver
167
145
20
2
1
1
1
1
bone element
84
heart left ventricle
3
35
2
3
18
1
1
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