User: modarzi

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modarzi110
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Posts by modarzi

<prev • 148 results • page 1 of 15 • next >
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Comment: C: Problem for Running "multivariate Cox proportional hazards model"
... Ok, You mean that I should consider "LogRank", "HR", "HRlower" , and "HRupper" for ranking my genes. but how can I take into account them at the same time for ranking task? Best Regards, ...
written 13 days ago by modarzi110
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Comment: C: Problem for Running "multivariate Cox proportional hazards model"
... yes. After univariate Cox analysis, for each gene I have below information: "Beta" , "StandardError" , "Z" , "P" , "LRT" , "Wald" , "LogRank" , "HR", "HRlower" , "HRupper" which items except P-Value can help me for the rank of genes? ...
written 13 days ago by modarzi110
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Comment: C: Problem for Running "multivariate Cox proportional hazards model"
... Ok. Dr. Blighe, In my problem, can I say that genes with lower P-values are more important than genes with higher values?   ...
written 13 days ago by modarzi110
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Comment: C: Problem for Running "multivariate Cox proportional hazards model"
... Ok, If I selected genes with p-value smaller than 0.03, Then 70 genes decrease to 40 genes. and my multivariable cox has no problem with 40 genes. but is this threshold acceptable for the scientific reviewers? could you pls guide me? Best Regards, ...
written 13 days ago by modarzi110
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Comment: C: Problem for Running "multivariate Cox proportional hazards model"
... Thanks, Dr. Blighe. For 180 genes firstly I have done a univariate cox model. Now, I have 70 genes with a p-value<0.05. Now for final selection, I ran multivariate cox proportional hazards model which I got below error: Error in fitter(X, Y, strats, offset, init, control, weights = weights, ...
written 13 days ago by modarzi110
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Problem for Running "multivariate Cox proportional hazards model"
... Dear All, For survival analysis, firstly I ran univariate Cox model between my 71 cases and 180 genes.based on that, 70 genes had p-value less than 0.05. Now I would like to fit a multivariate Cox proportional hazards model among 70 significant genes based on below function for Overal Survival with ...
cox regression survival analysis multivariate cox written 14 days ago by modarzi110 • updated 14 days ago by Kevin Blighe56k
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Comment: C: Survival analysis with gene expression
... Dear Dr. Blighe, I have 2 more questions: 1- I need to show K-M plots for 7 genes in one picture. How can I do it? 2- I need to resize of Font of labels(Survival probability, time,..) in the K-M plot. I appreciate it if you guide me that how can I do them via my code. ...
written 10 weeks ago by modarzi110
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Comment: C: Survival analysis with gene expression
... No, because `coxSARCdata` has a few columns and `survplotSARCturquoisedata` is a subset of `coxSARCdata`. you mean for that reason they don't have similar P-value. Ok, Dear Dr. Blighe, how can I interpret this unsimilarity of 2 log-rank P-value resulted from the Cox regression and K-M plot? Can I in ...
written 10 weeks ago by modarzi110
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Comment: C: Survival analysis with gene expression
... Dear Dr. Blighe Thanks for your comment. but as I wrote in the last line of `summary(fit_SARC_turquoise)` result you can find Score (log rank) test in which the p-value equals 0.04 by 1 df. but this log rank p-value is different from p-value in K-M plot in this link: https://www.dropbox.com/s/8rn89i ...
written 10 weeks ago by modarzi110
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Comment: C: Survival analysis with gene expression
... For cox regression I use below code: fit_SARC_turquoise <- coxph(Surv(coxSARCdata$OS.days, coxSARCdata$OS.status)~MEturquoise, data=coxSARCdata) summary(fit_SARC_turquoise) And by runnig that code I got below result: n= 71, number of events= 26 co ...
written 10 weeks ago by modarzi110

Latest awards to modarzi

Popular Question 8 weeks ago, created a question with more than 1,000 views. For Evaluation of HISAT2 Alignment Result
Popular Question 10 weeks ago, created a question with more than 1,000 views. For data pre-processing for WGCNA Algorithm
Popular Question 3 months ago, created a question with more than 1,000 views. For problem for constructing Topological Overlap Matrix (TOM) in WGCNA Algorithm
Student 5 months ago, asked a question with at least 3 up-votes. For Problem for getting P-Value in Module-Trait Relationship in WGCNA
Popular Question 5 months ago, created a question with more than 1,000 views. For problem for constructing Topological Overlap Matrix (TOM) in WGCNA Algorithm
Popular Question 7 months ago, created a question with more than 1,000 views. For Error for reading .gtf file in R
Popular Question 7 months ago, created a question with more than 1,000 views. For Evaluation of HISAT2 Alignment Result
Popular Question 7 months ago, created a question with more than 1,000 views. For Evaluation of HISAT2 Alignment Result
Popular Question 8 months ago, created a question with more than 1,000 views. For Evaluation of HISAT2 Alignment Result
Student 9 months ago, asked a question with at least 3 up-votes. For Problem for getting P-Value in Module-Trait Relationship in WGCNA
Popular Question 9 months ago, created a question with more than 1,000 views. For how to calculate or extract Circular RNA expression via RNA-seq data
Centurion 9 months ago, created 100 posts.
Popular Question 10 months ago, created a question with more than 1,000 views. For Evaluation of HISAT2 Alignment Result
Popular Question 13 months ago, created a question with more than 1,000 views. For how to calculate or extract Circular RNA expression via RNA-seq data
Popular Question 13 months ago, created a question with more than 1,000 views. For Evaluation of HISAT2 Alignment Result
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