There are a few parts they got wrong in the film, but it doesn't really take away from the experience.
-For one thing, the inside of an alveolus does not look like a big, pink, jungle like room. From what I've seen of medical artwork, it should have resembled the inside of a balloon. I also don't think the wind of breathing would sound exactly like what we heard in the movie. It sounded like a very high-pitched, stock sound of hurricane wind someone got out of a sound library. The problem is, we have no real-world reference to go by, so there's nothing to compare it to.
- For another, they didn't really show the differential pressure problems of cutting into the outer walls of the alveolar sac like the characters had in the book.
- When Cora was knocked away by the sound waves in the inner ear, she didn't actually get tangled in the ear fibers in the book. Instead, she went splat upside down into one of them, and Grant had to pull her out.
- They made the antibodies look much bigger on a microscopic level than they actually are. Antibodies are so tiny, that even on a microscopic level they are considered almost invisible. In fact, in the movie, they made them resemble platelets more so than what they actually were. Asimov was more accurate in his book in describing them as "like fruit flies," tiny little particles that latched onto outside invaders and strangled them to death. They were accurate, however, in the antibodies' behavior.
- Some microbiologist did point out that scaling was a problem throughout the story, but frankly, it would be very difficult to do it right, even on paper, never mind a film. They suggested that trying to swim along the optic nerve at a microscopic level would be like trying to swim thousands of miles across the ocean, and the main characters didn't have time to do that because they were growing back to normal size again.
There is more, but I think we've covered the major areas.
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