I guess it's really a matter of what features you're looking for, price, and you you can trust. Obscure brands that no one uses are usually risky. Brands that everyone loves, sometimes don't always fit your needs or, to quote Mac, "Don't always fit your lifestyle." -sorry- I'll take a shower now.
Anyway...We use ASUS and MSI at work, with one or two Soyo's. At home I have all Giga-byte boards. Giga-byte may not have the years of reputation that ASUS does, but they do have a lot of features.