Manhattan plot for metabolomics data

[Delphina Gomes]

Hello everyone.

I really hope to get some help with my query regarding the generation of manhattan plots. I will try to be as specific as possible.

I am looking in a total of 400 women (200 normal-weight versus 200 obese) the association of metabolites (total metabolites: 206, blood collected at delivery) and the BMI z-scores of their children at 4 years of age. There are two questions here:

1. which metabolites are associated with mothers condition of obesity.
2. which metabolites are associated with higher BMI z-scores in children, after controlling for maternal obesity.

I want to make a manhattan plot for metabolomics data. I found SJ14-3 st0295_1 package to create Manhattan plot for genomic data since it needs snp and bp, I cannot use it.

My dataset is with 400 rows (number of women: 400) with 209 columns (1 column participant ID, 206 metabolities, 1 column for maternal normal-weight/obesity and 1 column child bmi zscore). All variables are continuous, apart from maternal normal-weight/obesity which is categorical.

Can someone please suggest how I can make a Manhattan plot? I am also open to any other suggestions to answer the questions I mentioned above. I am also fine if anyone has suggestions in statistical software R.

Thank you so much in advance.

[Marcos Almeida]

Hello Delphina,

Please present data and command as recommended in the FAQ.

Since this is not your first post, you must have read the FAQ and know the reasons.

With regards to Manhattan plot, I wonder whether you already took a look at an article entitled "Generating Manhattan Plots in Stata", published by the Stata Journal in 2013.

Hopefully that helps.

[Delphina Gomes]

Dear Marcos,

I'm sorry for not having posting as per the requirements. I am posting after 2 years. I have read the paper you mentioned but it deals with genomics data. I am talking for metabolomics data here.

Thank you