It is the third time that Spurs have been beaten by Chelsea this month after they knocked Conte's side out of the Carabao Cup over two legs.
"We were working extremely hard for it and it was a tough match. The effort was outstanding and it was a deserved win. It is so hard to create chances against them but we were relentless and kept on believing," Chelsea coach Thomas Tuchel said after the match.
"Keep on going, there was no need for changes, some details of when to take the risk and when not. Encouragement to keep on going."
It looked like Spurs had taken the lead in the first half when Harry Kane had the ball in the net from eight yards out. However, referee Paul Tierney had already blown his whistle for a push on Silva and the goal didn't stand.
"It is very difficult to comment and I don't want to comment on the referee's decision. But to disallow this goal in England, was incredible for me," Conte said post-match.
Chelsea came out in the second half with a renewed vigour and quickly got their first goal just two minutes into the restart. Callum Hudson-Odoi found Ziyech in space and he curled the ball into the top corner with his left foot.
"The game agaisnt Brighton [when he did not celebrate a goal] we didn't play well so there was frustration. But today we played well, they had some counterattacks but it wasn't dangerous at all," Ziyech said after the game.
"How good was the goal? I think it was 10 out of 10. I thought maybe I hit it a lttle bit hard and in the end I saw it go in."
The loss puts a dampener on Spurs' Champions League ambitions after fellow top four contenders Arsenal drew 0-0 with Burnley earlier in the day. A win would have sent them above their north London rivals with a game in hand.