| Start Date | Title | P-Investigator | Funding Organization/經費來源 |
| 2022 | 臺灣沿近海域降低海洋保育類生物混獲之忌避措施推廣計畫 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2022 | 臺灣沿近海軟骨魚類資源調查（1/2） | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2021 | 臺灣沿近海域降低海洋保育類生物混獲之忌避措施可行性評估 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2021 | 臺灣西岸沿近海軟骨魚類資源調查 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2020 | 臺灣沿近海域海洋保育類野生動物與漁業互動狀況調查計畫 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2020 | 109年度台灣周邊海域大型軟骨魚類生態調查計畫 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2020 | 鯨豚與臺灣海洋漁業之交互關係影響研究 | Shoou-Jeng Joung | Fisheries Agency,COA, Executive Yuan |
| 2020 | 生物多樣性監測計畫-巨口鯊衛星標識放流 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2019 | 108年度台灣巨口鯊混獲資料庫建立及生物學研究計畫 | Shoou-Jeng Joung | Ocean Conservation Administration |
| 2018 | Comparison of Habitat Environment and Trophic Level for Rare Chondrichthyans in Taiwan | Shoou-Jeng Joung | National Science and Technology Council |
| 2015 | Comparison of Habitat Environment and Trophic Level for the Whale and Megamouth Sharks | Shoou-Jeng Joung | National Science and Technology Council |
| 2014 | The Relation between Bycatch Species in the Three Oceans | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2013 | Study on Endangered Large Chondrichthyan Fishes | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2013 | Ecological Risk Assessment of Bycatch Sharks by Taiwanese Fisheries Caught in Three Oceans | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2012 | Endangered or exactly need to be conserved marine organism resource status and biological characteristics investigation and research-ecology and stock structure studies of the whale shark | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2012 | Estimation on the ratio between fins and body weight, and life history parameters for shark by-catch species in Pacific Ocean | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2011 | Study on the friendly escape mechanism for the whale shark trapped by set-net | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2011 | Estimation on the ratio between fins and body weight, and growth parameters for shark by-catch species in Pacific Ocean | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2010 | Age and sex ratio studies for incidental catch of the whale shark | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2010 | Estimation on the Ratio Between Fins and Body Weight, and Growth Parameters for Shark By-Catch Species in Pacific and Atlantic Oceans | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2007 | Study on Stock Structure and Fisheries Biology of Rajids | Shoou-Jeng Joung | National Science and Technology Council |
| 2007 | Fishery Biology and CPUE Trend of the Blue Shark, Prionace glauca in the Atlantic Ocean | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2006 | Fisheries Biology and Migration of the Whale Shark (II) | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2005 | Fisheries Biology and Migration of the Whale Shark | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2005 | Assessment of Sharks Landing from Far Sea Fisheries | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2004 | Sustainable Utilization and Management on Whale Shark (IV) | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2003 | Sustainable Utilization and Management on Whale Shark (III) | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2002 | Sustainable Utilization and Management on Whale Shark | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2001 | 鯊魚盾鱗的顯微世界 | Shoou-Jeng Joung | Ministry of Education |
| 2001 | Sustainable Utilization and Management on Whale Shark | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2001 | Management of Shark Fishery in the Coastal and Offshore Waters off Taiwan---A Precautionary Approach -2 | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
| 2000 | Fisheries Biology of the Silky Shark, Carcharhinus falciformis in the Pacific Ocean | Shoou-Jeng Joung | National Science and Technology Council |
| 1999 | Studies on the Stock Assessment and Propagation of Fisheries Resources in Taiwan Waters-21 | Shoou-Jeng Joung | Council of Agriculture,Executive Yuan |
