User: jlshi.nudt

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jlshi.nudt220
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Posts by jlshi.nudt

<prev • 33 results • page 1 of 4 • next >
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Comment: C: coxph for survival analysis, how to get the estimated OS?
... Oh, anyone knows that? thank you. ...
written 6.2 years ago by jlshi.nudt220
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coxph for survival analysis, how to get the estimated OS?
... Hi, I am using R package "survival" do some survival analysis. I have got the cox model based on the coxph function. e.g. mode1<-coxph(res~a+b+c+d+e,data) But how I get the estimated survival for 3 year or 5 year?  Thank you. ...
coxph estimated survival written 6.2 years ago by jlshi.nudt220 • updated 6.1 years ago by Biostar ♦♦ 20
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Comment: C: why expression value must be log2 transformed before further analysis, such diff
... I just saw this transformation on many papers resolved with RPKM and microarray expression data. It seems to be a usual convention. Btw, I guess that low expression levels are not believable, so I always to filter with some threshold value. ...
written 6.6 years ago by jlshi.nudt220
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why expression value must be log2 transformed before further analysis, such differential analysis?
... Hi, just as the title. When using microarray, the intensity should be log transformed, that is partly because the intensity values are relative numbers. But in RNA-Seq, why must RPKM be log transformed?   I also notice that the differential analysis results are largely different with/without log ...
log expression written 6.6 years ago by jlshi.nudt220 • updated 6.6 years ago by mikhail.shugay3.4k
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Comment: C: How To Plot A 'Longer' Heatmap Using R?
... That partly solves my problems, thank you. ...
written 6.7 years ago by jlshi.nudt220
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How To Plot A 'Longer' Heatmap Using R?
... Hi, I try to plot a heatmap for 200*40 matrix. But the heatmap function output a figure without clear row label, and the outline of the figure likes square. I try to plot a longer figure perhaps to solve this problem, but I don't know how to do this work. Anyone can tell me? Thank you. ...
R heatmap written 6.7 years ago by jlshi.nudt220 • updated 19 months ago by srgk26ster20
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Where To Find A Database About Fusion Protein Ant Its Interaction Partner?
... There are many database about the protein interactions, such as HPRD, String, but none of which includes interaction about fusion proteins. Is there a database about fusion protein ant its interaction? Thank you. ...
fusion protein written 6.7 years ago by jlshi.nudt220 • updated 2.7 years ago by Biostar ♦♦ 20
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Comment: C: How To Get The Topology Of A Kegg Pathway?
... Thank you. I'll try these suggestions. ...
written 6.9 years ago by jlshi.nudt220
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How To Get The Topology Of A Kegg Pathway?
... Hi, all, is there a R package for get the topology of KEGG pathway? I get the gene list from GSEA gene sets, but how can I get the pathway topology, such as the node degree and egde attibution? Thank you. ...
pathway R written 6.9 years ago by jlshi.nudt220 • updated 6.9 years ago by aheinzel110
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Database For Protein Expression?
... Is there a database which presents the protein expression in different conditions(such as cancer, normal et.al.)? Based on such a database, one can compare the protein expression with the transcriptional expression level. ...
database protein written 7.3 years ago by jlshi.nudt220 • updated 7.3 years ago by Spitshine640

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Great Question 6.1 years ago, created a question with more than 5,000 views. For Database For Protein Expression?
Great Question 6.1 years ago, created a question with more than 5,000 views. For How To Plot A 'Longer' Heatmap Using R?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For coxph for survival analysis, how to get the estimated OS?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For How To Import The Local Eset.R File To R?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Where To Find Mirna Related Microarray Data For Leukemia Patients?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Is There A R Package For The Annotation Of Help Assay?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Where To Find A Database About Fusion Protein Ant Its Interaction Partner?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Where To Find The Sequence Data About Leukemia?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For How To Get The Topology Of A Kegg Pathway?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For How To Get The Gene List And Corresponding Postion On Each Chromosome?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Why Do Genes Have Different Orientation?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For How To Find Samples(Or Datasets) With Overall Survival Time In Geo Or Arrayexpress?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For Database For Protein Expression?
Popular Question 6.1 years ago, created a question with more than 1,000 views. For How To Plot A 'Longer' Heatmap Using R?
Appreciated 6.7 years ago, created a post with more than 5 votes. For Why Do Genes Have Different Orientation?
Student 6.7 years ago, asked a question with at least 3 up-votes. For Why Do Genes Have Different Orientation?

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