Veera Manikandan R

11 Questions 17 Answers 0 Followers

Questions related from Veera Manikandan R

Does visualising your continuous data using bar graph makes any sense?

Bar graphs don't inform adequately. They just represent the mean and the standard error. We need to know even more from the graphs. In fact, the bar graphs starts from 0 at the bottom, which...

26 April 2015 7,741 9 View

Can someone orient me to the coordinates numbering between positive and negative strand?

I have a very basic question. In genomic analysis we deal with coordinates. But I am little confused with the understanding about coordinates numbering system between positive and negative strand....

19 December 2014 2,109 1 View

What is the maximum length of upstream promoter sequence of genes in homosapiens?

Suppose if I want to screen variants that are present upstream in promoter region of a set of genes, till what extent I can search for variants upstream of each gene. Can the threshold be a common...

09 December 2014 1,888 6 View

How can I identify the genome build of my GWAS data?

I have GWAS data from Ilumina platform (The HumanOmni2.5-8 (Omni2.5) BeadChip). The data is in Plink format. When i tried imputation with IMPUTE2 i got a concordance rate of around 50 percent,...

16 August 2014 5,086 2 View

How to calclulate sample size for studying epistasis between two SNPs ?

Can anyone suggest a method to calculate a sample size to study an effect of epistasis between two polymorphisms over a clinical phenotype (ex: drug response). Suggestion of any reference will be...

03 June 2014 1,865 2 View

How to deal with data with double the number of cases than controls?

Lets say I am analyzing a genetic polymorphism data where I have genotyped 120 cases and 50 controls. I guess it is not statistically right to compare a larger number of cases to fewer controls as...

01 June 2014 6,012 7 View

Is it valid if I validate my logistic regression model in the same population from which it was derived?

Validating logistic regression models. I derived a logistic regression model for predicting clinical response to a drug. I have two groups: responders and non-responders, classified according to a...

29 May 2014 1,587 6 View

Sample size and power calculation in genetic association studies?

We are aware that most of the genetic association studies are under-powered just because of the fact the sample size is inadequate. The major reason for the power to be small is because, in most...

03 May 2014 9,934 6 View

How to adjust allelic odds ratio for covariates?

In genetic analysis, the allelic odds ratio is calculated from a 2X2 table where the counts of the cells are derived from genotype counts. Just wondering in that case how to adjust for the effects...

08 November 2013 3,543 1 View

How to calculate the concentration of agarose gel based on the size of the DNA?

Is there a standard formula to calculate the percentage of agarose gel to be cast ?

03 January 2013 7,498 11 View

Can anyone suggest alternatives for ethidium bromide in terms of a non-toxic DNA staining dye?

Many alternatives are available commercially, including non-tox, fast-blast, EZ-vision, Redsafe-DNA, etc. but I am not sure which is best. Does anyone have any experience with this? Any suggestions?

02 January 2013 6,878 87 View