We've never stayed in the Yanaka/Ueno/Asakusa area so I can't really make any specific recommendations - however, I'm sure others may be able to do so. If it was me, I'd be looking for somewhere as close to the train station(s) as possible. That way, you're not having to go far to get to the hotel (whether you just want to go to bed or want to go out to paint the town red....) and, assuming you can leave your bags at the hotel after you check out in the morning, when you go back to get them you're right by the station. It obviously depends on what you're looking for but see if the APA Hotel Keisei Ueno Ekimae suits - it is supposedly a 1 minute walk from Keisei-Ueno Station. Don't confuse it with the similarly-named APA Hotel Ueno Ekimae. There are no doubt any number of hotels in the vicinity so, depending on where you want to be, there are others that might suit you better .... but for me, coming/going to Narita in 24 hours, proximity and easy access to the station would be key (assuming the price is right). If you want to be at Nippori Station, there's the APA Hotel TKP Nippori Ekimae.