Perl seems to understand scientific notation when converting strings to numbers. I think your problem is stripping the minus signs. That means you turn, for example, 3.4e-2 (.034) into 3.4e2 (340). If you just leave the minus sign in place, I think you'll get correct results.
Also, consider using a CSV module from CPAN for this; it can take care of most of the parsing for you.
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