The Great Intelligence Institute
Dr. Simeon studies and collects samples for the Great Intelligence in 2012 Christmas special "The Snowmen".
Source: The Doctor Who Locations Guide
Great British Library
The Doctor takes Clara and Rigsy to the map room in the library to find old maps in episode 9x10 "Face the Raven".
St. Luke's University
The Doctor calls Bill in to his office and arranges to tutor her in episode 10x01 "The Pilot". The TARDIS arrives back in the Doctor's office just as Nardole is entering with tea in episode 10x03 "Thin Ice".
Appears in 2 additional episodes.
Source: Doctor Who — Tumblr