In GBM Model - I have near to 150 columns used to train and create a model - I have a case where for some records I won't be getting all the columns. In that case will the model work - I don't want to set the values to 0 in that case.?
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Your question title and description are talking about 2 different things and title is not clear about what you are asking. My following answer is based on your question in description field:
If you use H2O to build your GBM model H2O replaces missing numerical, categorical & unseen values to NA. Please look at the following documentation regarding "handling missing values in GBM" which will help you understand more about your case:

AvkashChauhan
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Sorry that was a typing mistake. I was asking Can I use only some of the columns from the entire set of columns that I used to train data using GBM Model - The reason is we are creating a look alike model in which some of the datasets that we have doesn't have all the columns used to create the model. – DINESHKUMAR MURUGAN Mar 13 '17 at 01:16
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Yes, you can create a new frame based on selecting only interesting columns (let's say you pick top 10 the most important input features) or you can specify option `ignore_columns` option (depends on API you are using) – Michal Mar 13 '17 at 17:14