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Yes, you can in the metadata.
That was the short answer. Now the more useful one. The default metadata fields don't have a specific field for series. Therefore you need to create a non-default one. The problem arise that when you use a non-default one, how will your reading application know what this field is and what it does?
If it is just for storage, use the metadata tags from Calibre. In that way you have at least the information in Calibre. At least on my reader that information (series name, not number) is also available, but I don't know how Calibre does that. I believe it add the collection name/series in the keywords metadata field.
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