User: niutster
niutster • 80
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Posts by niutster
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2
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1
answer
359
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1
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... Hi
I have found differential methylated regions(DMRs) between two samples, I am interested to confirm methylated genes with the change in their expression , in my experiment the expression of genes are not available, then i have downloaded data with this type of disease from GEO and found differe ...
written 11 months ago by
niutster • 80
• updated
6 months ago by
Pin.Bioinf • 210
0
votes
1
answer
454
views
1
answer
... Hi all,
I have downloaded from GEO one soft file and extracted some specified GSMs . The GSMs soft files were categorized based on probes names but when i mapped probes to genes symbol, i have understand some probes mapped to one gene symbol. How can i merge these probes and have unique gene symbo ...
0
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1
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981
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1
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... I use desktop version on windows. ...
written 12 months ago by
niutster • 80
0
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1
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1.6k
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1
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... Thanks, Could you explain more about filtering based on low variance ? How can do it? ...
written 12 months ago by
niutster • 80
0
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1
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1.6k
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1
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... Data normalization and pre- processing was performed , I just want to filter data to reduce the volume of data. ...
written 12 months ago by
niutster • 80
0
votes
0
answers
337
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0
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... Hi,
I have a list of differential links resulted of differential co-expression network, How can i filter links based on differential value? Which range is meaningful ? ...
written 12 months ago by
niutster • 80
7
votes
1
answer
1.6k
views
6 follow
1
answer
... Hi,
I am interested to filter data for constructing co-expression network , Which parameter can i use to filter genes? As i know in WGCNA tutorial, it suggests not to use differential expressed genes(DEG) to filter genes.
...
written 12 months ago by
niutster • 80
• updated
12 months ago by
Kevin Blighe ♦ 35k
1
vote
1
answer
981
views
1
answer
... Hi,
I am a little new with cytoscape, I used exportNetworkToCytoscape command in WGCNA to export the network, the commands output cotaining nodes and edges files but in cytoscape ,only one file can be imported. do anybody know how can i import both files into cytoscape? ...
written 12 months ago by
niutster • 80
• updated
12 months ago by
Kevin Blighe ♦ 35k
0
votes
0
answers
444
views
0
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... Hi,
As we know in 450k data analysis, probes with p-value> 0.01 must be removed but in minfi package it suggests to remove probes with p-value>0.01 in more than 50% of samples, in Champ package it automatically removes probes with p-value>0.01 and in some other analysis remove probes with ...
written 14 months ago by
niutster • 80
0
votes
0
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410
views
0
answers
... I have used minfi package for preprocessing and seqlm to find differentially methylated regions. ...
written 14 months ago by
niutster • 80
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For Error in installation R package
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21 months ago,
created a question with more than 1,000 views.
For Error in installation R package
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