I like Doctor Who. I think it's a fun sci-fi show with a good sense of humor and a big heart. What started as an educational TV show transformed into something far bigger than anyone could have ever expected. I'm also fascinated by this My Little Pony: Friendship is Magic Internet culture. I've only seen one episode--the now-redubbed Derpy Hooves episode--and can't get over how a simple little children's show about tolerance (and magical ponies/unicorns/pegasi) has become an all consuming meme.
Naturally, the good Doctor would eventually encounter the ponies. There had to be a crossover. I mean, I saw it at NYCC. In the venn diagram of sci-fi/fantasy fans, Doctor Who and My Little Pony: Friendship is Magic had to meet. Both have such a large online presence that the mashup is inevitable.
This is not to say Dr. Whooves and Assistant is the first meeting of Doctor Who and MLP:FIM. It's not even the first time someone has called him Doctor Whooves.
What this short video does is provide a slick crossover story. The Doctor crash lands on Equalia, completely unaware that he has taken on the form of a pony. He runs into a confused little pony (Derpy Hooves) who gets him to realize what he has become and why the TARDIS has taken him to Equalia.
Dr. Whooves and Assistant is supposed to be the start of a collaboration series on Newgrounds. Whether more episodes are made is another issue entirely. The only short so far is cute, funny, and well-executed. I'll be looking forward to more in the future.