| 2024 | RECOMB | ImputeCC Enhances Integrative Hi-C-Based Metagenomic Binning Through Constrained Random-Walk-Based Imputation. | Yuxuan Du, Wenxuan Zuo, Fengzhu Sun |
| 2012 | RECOMB | Alignment-Free Sequence Comparison Based on Next Generation Sequencing Reads: Extended Abstract. | Kai Song, Jie Ren, Zhiyuan Zhai, Xuemei Liu, Minghua Deng, Fengzhu Sun |
| 2006 | ISMB | An integrative approach for causal gene identification and gene regulatory pathway inference. | Zhidong Tu, Li Wang, Michelle N. Arbeitman, Ting Chen, Fengzhu Sun |
| 2004 | PSB | A Comparison of Different Strategies for Computing Confidence Intervals of the Linkage Disequilibrium Measure. | Sung K. Kim, Kui Zhang, Fengzhu Sun |
| 2003 | PSB | Assessment of the reliability of protein-protein interactions and protein function prediction. | Minghua Deng, Fengzhu Sun, Ting Chen |
| 2003 | RECOMB | An integrated probabilistic model for functional prediction of proteins. | Minghua Deng, Ting Chen, Fengzhu Sun |
| 2003 | RECOMB | Dynamic programming algorithms for haplotype block partitioning: applications to human chromosome 21 haplotype data. | Kui Zhang, Fengzhu Sun, Michael S. Waterman, Ting Chen |
| 2002 | RECOMB | Inferring domain-domain interactions from protein-protein interactions. | Minghua Deng, Shipra Mehta, Fengzhu Sun, Ting Chen |
| 2002 | RECOMB | Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data. | Kui Zhang, Ting Chen, Michael S. Waterman, Zhaohui S. Qin, Jun S. Liu, Fengzhu Sun |
| 1998 | RECOMB | Modeling DNA shuffling. | Fengzhu Sun |
| 1997 | RECOMB | Pooling strategies for establishing physical genome maps using FISH. | Fengzhu Sun, Gary Benson, Norman Arnheim, Michael S. Waterman |