But they fell into negative territory as investors remained worried about the US-China trade war and Britain's exit from the European Union.
"People continued to buy on dips because many stocks are still undervalued," said Naoki Fujiwara at Shinkin Asset Management.
"But continued concerns about the US-China trade dispute capped the buying sentiment," Fujiwara told at AFP.
Investor fears of a no-deal Brexit have also increased as Britain's government moved to suspend parliament.
The dollar was trading at 105.91 yen in Asian afternoon trade against 106.14 yen in New York on Wednesday.
Shares in Suzuki Motor jumped 1.54 percent to 4,148 yen after auto giant Toyota said it would take a nearly five-percent stake in the small-car specialist.
Toyota shares were up 0.01 percent at 6,890 yen.
Energy shares rose with oil explorer Inpex rising 0.21 percent to 899.9 with Japan Petroleum Exploration up 0.11 percent at 2,543 yen.