These are the Billboard magazine Hot Dance Airplay number one hits of 2006.
Note that Billboard publishes charts with an issue date approximately 7–10 days in advance.
| bgcolor=#FFFF99 align=center | Number-one rhythmic song of the year |
| Issue date | Song | Artist(s) | Remixer(s) | Source |
|---|---|---|---|---|
| January 7 | "Don't Forget About Us" | Mariah Carey | Ralphi Rosario
| [1] |
| January 14 | ||||
| January 21 | ||||
| January 28 | "Everytime We Touch" | Cascada | ||
| February 4 | ||||
| February 11 | ||||
| February 18 | "Sorry" | Madonna | Pet Shop Boys | |
| February 25 | ||||
| March 4 | ||||
| March 11 | ||||
| March 18 | ||||
| March 25 | ||||
| April 1 | ||||
| April 8 | "Be Without You" | Mary J. Blige | Moto Blanco | |
| April 15 | ||||
| April 22 | ||||
| April 29 | bgcolor=#FFFF99 rowspan="8" | "SOS" | Rihanna | Jason Nevins, Chris Cox |
| May 6 | ||||
| May 13 | ||||
| May 20 | ||||
| May 27 | ||||
| June 3 | ||||
| June 10 | ||||
| June 17 | ||||
| June 24 | "Get Together" | Madonna | Jacques Lu Cont | |
| July 1 | "What's Left of Me" | Nick Lachey | Passengerz | |
| July 8 | ||||
| July 15 | "Get Together" | Madonna | ||
| July 22 | ||||
| July 29 | ||||
| August 5 | "Unfaithful" | Rihanna | Tony Moran | |
| August 12 | ||||
| August 19 | ||||
| August 26 | "Ain't No Other Man" | Christina Aguilera | Ospina & Sullivan; Junior Vasquez; Shapeshifters | |
| September 2 | ||||
| September 9 | ||||
| September 16 | ||||
| September 23 | ||||
| September 30 | "SexyBack" | Justin Timberlake | Armand Van Helden, Richard Vission | |
| October 7 | ||||
| October 14 | ||||
| October 21 | "What a Feeling" | Peter Luts & Dominico | ||
| October 28 | ||||
| November 4 | ||||
| November 11 | "Jump" | Madonna | Axwell | |
| November 18 | ||||
| November 25 | ||||
| December 2 | ||||
| December 9 | ||||
| December 16 | "My Love" | Justin Timberlake featuring T.I. | Paul Oakenfold | |
| December 23 | ||||
| December 30 | ||||