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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
732
ChIP-seq
259
ATAC-seq
177
DNase-seq
174
single cell RNA-seq
87
RNA microarray
28
snATAC-seq
25
WGBS
24
pCHi-C
16
Hi-C
16
small RNA-seq
11
RRBS
4
FAIRE-seq
4
MeRIP-seq
3
snDrop-seq
Assay category
1227
Transcription
732
DNA binding
468
DNA accessibility
36
DNA methylation
16
3D chromatin structure
Target of assay
498
histone modification
497
histone
274
narrow histone mark
223
broad histone mark
157
control
79
transcription factor
19
RNA binding protein
2
chromatin remodeller
2
nucleotide modification
Date released
545
February, 2021
284
August, 2017
242
October, 2019
229
August, 2021
193
May, 2020
163
June, 2019
120
July, 2018
May, 2019
95
February, 2023
82
November, 2017
80
April, 2019
77
July, 2019
74
October, 2018
66
May, 2022
48
December, 2017
47
September, 2023
40
May, 2021
40
November, 2019
39
March, 2020
25
February, 2020
22
October, 2017
19
April, 2020
17
November, 2018
15
May, 2023
8
January, 2021
6
April, 2018
6
September, 2017
5
March, 2019
4
November, 2020
3
December, 2019
2
January, 2018
1
August, 2022
Available data
1768
bam
1623
bigWig
1075
tsv
837
bed narrowPeak
455
bigBed narrowPeak
353
fastq
238
tagAlign
212
bed broadPeak
204
bed bed3+
175
bigBed broadPeak
157
txt
64
xls
23
bed bedMethyl
23
bigBed bedMethyl
11
hic
10
bedpe bed3+
6
csv
5
bed bed3
1
bedpe
1
tagAlign bed3+
Organism
2588
Homo sapiens
Biosample type
2597
tissue
1083
primary cell
662
cell line
394
in vitro differentiated cells
10
stem cell
Organ
547
connective tissue
503
pancreas
488
adipose tissue
361
liver
299
kidney
252
heart
237
brain
158
bone element
115
limb
83
blood vessel
83
vasculature
75
musculature of body
68
artery
56
eye
43
nerve
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
2500
AMP
47
KPMP
31
T1D
19
LungMap
Genome assembly (visualization)
1711
GRCh38
1648
hg19
Lab
2285
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:
6
inconsistent control read length
1
inconsistent assembly
month_released!
May, 2019
organ_slims!
spleen
BIOSAMPLE
ASSAY
2597 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
single cell RNA-seq
RNA microarray
snATAC-seq
WGBS
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
3
1
liver
167
145
20
2
1
3
1
1
1
1
kidney
49
27
75
13
64
6
1
1
1
bone element
84
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