Two goals in the final 15 minutes handed the Red Bulls a road win over expansion side Atlanta United.
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The Whitecaps used a 2-0 home win to down the Red Bulls and move on to the CCL semis.
The Vancouver Whitecaps enter the second leg of their CCL match against the Red Bulls at home after earning a crucial 1-1 draw in leg one.
Recently-appointed New York Red Bulls sporting director Denis Hamlett spoke to media on a conference call on Wednesday, and touched on a number of topics.
Brad Evans is set for a spell on the sidelines while the New York Red Bulls completed their front office shakeup by announcing a new Sporting Director.
Bradley Wright-Phillips scored a second-half equalizer to offset a first-half header by Kekuta Manneh to send the all-MLS quarterfinal back to Vancouver tied at 1-1.
The New York Red Bulls fell well short of an MLS Cup but, even after trading their captain, the team feels ready to push for more in 2017.