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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
1000
total RNA-seq
880
ChIP-seq
254
ATAC-seq
180
single cell RNA-seq
178
DNase-seq
87
RNA microarray
28
snATAC-seq
25
pCHi-C
15
WGBS
5
RRBS
4
MeRIP-seq
3
snDrop-seq
2
FAIRE-seq
2
Hi-C
Assay category
1180
Transcription
880
DNA binding
462
DNA accessibility
20
DNA methylation
2
3D chromatin structure
Target of assay
628
histone modification
627
histone
324
narrow histone mark
303
broad histone mark
187
control
67
transcription factor
28
RNA binding protein
3
other context
3
other post-translational modification
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
241
October, 2019
228
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
115
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
July, 2019
74
October, 2018
66
May, 2022
47
September, 2023
40
May, 2021
40
May, 2024
39
November, 2019
33
March, 2020
26
November, 2018
25
February, 2020
23
October, 2017
21
December, 2017
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
1682
bigWig
1029
tsv
950
bed narrowPeak
532
bigBed narrowPeak
350
fastq
238
tagAlign
213
bed broadPeak
205
bed bed3+
176
bigBed broadPeak
157
txt
64
xls
11
bed bedMethyl
11
bigBed bedMethyl
11
hic
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2654
Homo sapiens
Biosample type
2663
tissue
1053
primary cell
659
cell line
387
in vitro differentiated cells
10
stem cell
Organ
537
connective tissue
496
pancreas
478
adipose tissue
325
liver
295
kidney
290
heart
254
brain
158
bone element
125
blood vessel
125
vasculature
117
limb
73
musculature of body
72
artery
56
eye
43
nerve
25
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
2566
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1771
GRCh38
1659
hg19
Lab
2312
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
Rohit N. Kulkarni, M.D., Ph.D.
3
Bing Ren, UCSD
2
Mark McCarthy, Oxford
1
Maike Sander, UCSD
1
Stephen Parker, UMich
Audit category:
91
inconsistent ontology term
inconsistent control
9
audit script error
Audit category:
26
missing controlled_by
Audit category:
6
inconsistent control read length
1
inconsistent assembly
files.file_type!
bedpe bed3+
audit.ERROR.category!
inconsistent control
month_released!
July, 2019
BIOSAMPLE
ASSAY
2663 results
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total RNA-seq
ChIP-seq
ATAC-seq
single cell RNA-seq
DNase-seq
RNA microarray
snATAC-seq
pCHi-C
WGBS
RRBS
MeRIP-seq
snDrop-seq
FAIRE-seq
Hi-C
tissue
islet of Langerhans
292
71
68
6
1
7
4
4
1
1
adipose tissue
382
2
3
1
3
liver
165
118
20
1
2
1
3
1
kidney
49
27
75
64
13
6
1
bone element
84
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