Outraged supporters flooded the field of the sold-out 60,000 capacity stadium in the capital, after Ghana upset the home team by forcing a 1-1 draw to win the African play-off on away goals and dash Nigeria's hopes of appearing in the World Cup later this year.
Defeat was a massive blow for favourites Nigeria, who were chasing a seventh appearance in eight attempts since debuting at the 1994 World Cup.
Africa Cup of Nations: Four-time champions Ghana were eliminated from the Africa Cup of Nations after crashing 3-2 to minnows Comoros in Group C on Tuesday in Garoua.
AFCON: The Black Stars were furious that Gabon scored after opting not to return the ball when Ghana put it out of play as midfielder Daniel-Kofi Kyereh went down injured
Nigeria put itself on a collision course with FIFA in July.
Twitterati heaped praise on the Indian team as they made the nation proud by displaying a gritty performance in the tournament.
"Our team was finished physically by first 45 minutes. There was no energy left in them to match that pace in the second half," said Luis Norton de Matos.
India vs Ghana, U-17 Football World Cup Highlights: Luis Norton de Matos and his boys were knocked out the tournament as they lost 0-4 to a formidable Ghana side in their third and final match of the FIFA U-17 World Cup.
de Matos and his boys would be aiming to show that the performance against Colombia was no fluke and they were worthy competitors in this global showpiece
How to watch India vs Ghana FIFA World Cup U-17 match. Read all about live coverage and match action from Jawaharlal Nehru Stadium, New Delhi on October 12, 2017.
Citing religious violence at home, close to 200 Ghanaians have applied to stay permanently in Brazil.
No reason was given for the order but Ghana President John Mahama sacked his sports minister after the team finished bottom of Group G in the World Cup. It failed to win any games, players went on strike over unpaid fees and two players were indefinitely suspended for insubordination.
Portugal did not fare much better than Ghana, because it, too, was knocked out. Even with the United States losing to Germany, 1-0, in Recife, the U.S. advanced, on goal differential.
Germany defeated Unites Stated 1-0 to top Group G. The Americans though hardly mourned their loss as Portugal's 2-1 win against Ghana - although in vain for the European giants - helped Jurgen Klinnsman's side advance to final 16 of FIFA World Cup.
Just a day after seeming to resolve a possible player mutiny over World Cup bonus payments, the Ghana Football Association released two separate statements saying two of the country's stars, Sulley Muntari and Kevin-Prince Boateng
While most teams are either on their way home or preparing for the knockout stage, there's still everything to play for in the finely balanced Group G, where all four teams, Germany, United States, Portugal and Ghana, still have a chance to go through.
The Ghanaian players' discontent over the lack of payment had been simmering for days, and exploded Tuesday when they refused to train - even threatening to boycott their FIFA World Cup match against Portugal on Thursday - until they were paid more than $3 million in appearance fees, to be divided among the 23 players.
Portugal, who are rock bottom of Group G with a solitary point, are unlikely to have it all their own way when they take on Ghana in Brasilia after the Black Stars gave Germany a fright before Miroslav Klose equalised to rescue a 2-2 draw.