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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1037
total RNA-seq
793
ChIP-seq
260
ATAC-seq
178
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
WGBS
25
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
793
DNA binding
470
DNA accessibility
16
3D chromatin structure
11
DNA methylation
Target of assay
563
histone modification
562
histone
298
narrow histone mark
264
broad histone mark
158
control
74
transcription factor
12
RNA binding protein
3
other context
3
other post-translational modification
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
275
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
October, 2018
66
May, 2022
65
July, 2019
48
December, 2017
47
September, 2023
40
March, 2020
40
May, 2021
40
November, 2019
25
February, 2020
23
October, 2017
20
November, 2018
19
April, 2020
15
May, 2023
8
January, 2021
7
December, 2018
7
January, 2019
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1816
bam
1671
bigWig
1076
tsv
899
bed narrowPeak
516
bigBed narrowPeak
309
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
11
hic
10
bedpe bed3+
9
bed bedMethyl
9
bigBed bedMethyl
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2627
Homo sapiens
Biosample type
2636
tissue
1039
primary cell
661
cell line
394
in vitro differentiated cells
10
stem cell
Organ
518
connective tissue
459
adipose tissue
450
pancreas
357
liver
299
kidney
265
brain
265
heart
158
bone element
131
blood vessel
131
vasculature
121
limb
81
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
pericardium
1
skin of body
1
small intestine
1
spinal cord
1
stomach
1
urinary bladder
Project
2539
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1758
GRCh38
1710
hg19
Lab
2324
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:
91
inconsistent ontology term
27
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
5
inconsistent control read length
1
inconsistent assembly
assay_title!
WGBS
month_released!
October, 2018
BIOSAMPLE
ASSAY
2636 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
pCHi-C
Hi-C
small RNA-seq
RRBS
FAIRE-seq
MeRIP-seq
snDrop-seq
tissue
islet of Langerhans
298
71
68
1
7
4
3
1
1
4
adipose tissue
382
2
3
1
liver
167
145
20
2
1
1
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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