| 2016 | CEC | Landscape synergy in evolutionary multitasking. | Abhishek Gupta, Yew-Soon Ong, Bingshui Da, Liang Feng, Stephanus Daniel Handoko |
| 2015 | AAAI | Algorithm Selection via Ranking. | Richard Jayadi Oentaryo, Stephanus Daniel Handoko, Hoong Chuin Lau |
| 2015 | CEC | Solving multi-vehicle profitable tour problem via knowledge adoption in evolutionary bi-level programming. | Stephanus Daniel Handoko, Hoong Chuin Lau, Abhishek Gupta, Yew-Soon Ong, Chen Kim Heng, Puay Siew Tan |
| 2014 | GECCO | Reinforcement learning for adaptive operator selection in memetic search applied to quadratic assignment problem. | Stephanus Daniel Handoko, Duc Thien Nguyen, Zhi Yuan, Hoong Chuin Lau |
| 2014 | GECCO | Building algorithm portfolios for memetic algorithms. | Mustafa Misir, Stephanus Daniel Handoko, Hoong Chuin Lau |
| 2011 | CEC | Classification-assisted memetic algorithms for solving optimization problems with restricted equality constraint function mapping. | Stephanus Daniel Handoko, Chee Keong Kwoh, Yew-Soon Ong, Jonathan H. Chan |
| 2008 | CEC | A study on constrained MA using GA and SQP: Analytical vs. finite-difference gradients. | Stephanus Daniel Handoko, Chee Keong Kwoh, Yew-Soon Ong, Meng-Hiot Lim |
| 2008 | SMC | Using classification for constrained memetic algorithm: A new paradigm. | Stephanus Daniel Handoko, Chee Keong Kwoh, Yew-Soon Ong |
| 2006 | ISNN | Extreme Learning Machine for Predicting HLA-Peptide Binding. | Stephanus Daniel Handoko, Chee Keong Kwoh, Yew-Soon Ong, Guanglan Zhang, Vladimir Brusic |