I developed a web app that displays the current available Bioinformatics PhD programs in the United States. I developed this app to assist me with my graduate school search, and I hope it will help other prospective grad students as well. You can find the app at bioinfophd.com.
I compiled the list of PhD programs myself, as I couldn't find a good list online. Feel free to email me at firstname.lastname@example.org with any questions. I plan to regularly update the app to keep the information up-to-date. (Last update: September 2018)
Finally, feel free to comment below or email me if there's a PhD program you know of that's not on the app, and I'll happily add it. I tried to make the list as comprehensive as possible, but I might have missed some schools! I'll also welcome any suggestions to improve the app.
The spreadsheet which contains the list of PhD programs can also be found on GitHub.