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Approaches for storing and analysing large amounts of time-based data

I've been asked to develop a "telemetry" application that records data generated by a hardware device, which I read every 100ms. There are approx 250 data points (32-bit values), but only a subset ...
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What's a good approach for updating millions of rows independently?

I have a MongoDB database with millions of users in collection. An aggregation function returns millions of results with the following format: Array ( [_id] => Array ( [user] => MongoId ...