User: akutasame

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akutasame40
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United Kingdom
Last seen:
8 months, 3 weeks ago
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5 years ago
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m********@gmail.com

Posts by akutasame

<prev • 19 results • page 1 of 2 • next >
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Comment: A: predicting survival months of patients in tcga data
... The censoring rate is too high (85%) and number of patients around 700. So I won't get too many to train data. Another thing is if tcga data are incomplete, I think predicting overall survival months (continuous) should incorporate censoring. I should not treat it as complete data otherwise all anal ...
written 9 months ago by akutasame40
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predicting survival months of patients in tcga data
... Using Cox model, we can estimate survival probabilities but I want to predict survival months of the patient using machine learning. Most of the TCGA datasets have overall survival months of patients. Do I still need to use censoring for predicting survival months ? Thank you ...
tcga predict os_months machine learning survival written 9 months ago by akutasame40
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Comment: A: proportional hazard assumption was not satisfied for a covariate
... I fit a full model, so I include all covariates. Let say covariate x is a categorical variable and it is not significant but there are some other significant covariates. Then I wanted to check PH assumption for this full model with cox.zph() function in R. Only covariate x seems to violate PH assum ...
written 9 months ago by akutasame40
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proportional hazard assumption was not satisfied for a covariate
... Hello, I am doing multivariate Cox model for my data. I wonder what if proportional hazard assumption was not met for a covariate in the model, and stratifying that covariate did not solve the problem. Does it make sense to remove that covariate ? If I remove, then assumpton was satisfied. Can I re ...
hazard ratios cox.zph() survival cox model written 9 months ago by akutasame40
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Comment: A: survival analysis of tcga clinical data
... That was helpful, Thank you ...
written 9 months ago by akutasame40
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survival analysis of tcga clinical data
... Hi all, I want to do survival analysis of clinical data but I am not sure about censoring TCGA clinical data? I have ''daysto_lastfollowup", "daysto_death", "vital status" and "overall_survival_months". What I did is **Method 1:** daysToEvent <- rep(NA, nrow(tcgaClinical)) daysToEvent ...
tcga survival clinical written 9 months ago by akutasame40
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Comment: A: RMA background correction normalization only
... Nope, I am doing probe level Anova, I did RMA background correction and quantile normalization only, I did not do summarization. But I just found that RMA background correction is taking log2 base raw intensities. http://www.plexdb.org/modules/documentation/RMAexplained.pdf Thank you for your comme ...
written 4.8 years ago by akutasame40
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Comment: A: RMA background correction normalization only
... I really need an answer, please make a comment if you have an idea. ...
written 4.8 years ago by akutasame40
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RMA background correction normalization only
... Hi,  Does the RMA method for background correction and normalization (not summarization) give log2 transformed intensities? or which step gives log transformed values? Thank you  in advance, Good luck in your studies ...
myposts written 4.8 years ago by akutasame40 • updated 18 months ago by Kevin Blighe65k
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Comment: A: which genes are up-down regulated from Anova?
... Okay, I got p values and also I used bonferroni method. Then, what should I do ? ...
written 4.9 years ago by akutasame40

Latest awards to akutasame

Popular Question 9 months ago, created a question with more than 1,000 views. For which genes are up-down regulated from Anova?
Popular Question 4.8 years ago, created a question with more than 1,000 views. For RMA background correction normalization only

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