BSeQC: quality control of bisulfite sequencing experiments. - Xueqiu Lin; Deqiang Sun; Benjamin Rodriguez; Qian Zhao; Hanfei Sun; Yong Zhang 006; Wei Li 036 (Bioinform., 2013)

CistromeFinder for ChIP-seq and DNase-seq data reuse. - Hanfei Sun; Bo Qin; Tao Liu 022; Qixuan Wang; Jing Liu; Juan Wang; Xueqiu Lin; Yulin Yang; Len Taing; Prakash K. Rao; Myles Brown; Yong Zhang 006; et al. (Bioinform., 2013)

Design of a net-zero charge neural stimulator with feedback control. - Xilin Liu; Milin Zhang 001; Hanfei Sun; Andrew G. Richardson; Timothy H. Lucas; Jan Van der Spiegel (BioCAS, 2014)

CR Cistrome: a ChIP-Seq database for chromatin regulators and histone modification linkages in human and mouse. - Qixuan Wang; Jinyan Huang; Hanfei Sun; Jing Liu; Juan Wang; Qian Wang; Qian Qin; Shenglin Mei; Chengchen Zhao; Xiaoqin Yang; Xiaole Shirley Liu; Yong Zhang 006 (Nucleic Acids Res., 2014)

ChiLin: a comprehensive ChIP-seq and DNase-seq quality control and analysis pipeline. - Qian Qin; Shenglin Mei; Qiu Wu; Hanfei Sun; Lewyn Li; Len Taing; Sujun Chen; Fugen Li; Tao Liu 022; Chongzhi Zang; Han Xu; Yiwen Chen; et al. (BMC Bioinform., 2016)

RubyStar: A Non-Task-Oriented Mixture Model Dialog System. - Huiting Liu; Tao Lin; Hanfei Sun; Weijian Lin; Chih-Wei Chang; Teng Zhong; Alexander I. Rudnicky (CoRR, 2017)

Cistrome Data Browser: a data portal for ChIP-Seq and chromatin accessibility data in human and mouse. - Shenglin Mei; Qian Qin; Qiu Wu; Hanfei Sun; Rongbin Zheng; Chongzhi Zang; Muyuan Zhu; Jiaxin Wu; Xiaohui Shi; Len Taing; Tao Liu 022; Myles Brown; et al. (Nucleic Acids Res., 2017)

VIPER: Visualization Pipeline for RNA-seq, a Snakemake workflow for efficient and complete RNA-seq analysis. - MacIntosh Cornwell; Mahesh Vangala; Len Taing; Zachary Herbert; Johannes Köster; Bo Li; Hanfei Sun; Taiwen Li; Jian Zhang; Xintao Qiu; Matthew Pun; Rinath Jeselsohn; et al. (BMC Bioinform., 2018)

Unsupervised Typography Transfer. - Hanfei Sun; Yiming Luo; Ziang Lu (CoRR, 2018)

Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis. - Rongbin Zheng; Changxin Wan; Shenglin Mei; Qian Qin; Qiu Wu; Hanfei Sun; Chen-Hao Chen; Myles Brown; Xiaoyan Zhang; Clifford A. Meyer; Xiaole Shirley Liu (Nucleic Acids Res., 2019)

SPORTSINTERVIEW: A Large-Scale Sports Interview Benchmark for Entity-centric Dialogues. - Hanfei Sun; Ziyuan Cao; Diyi Yang (LREC, 2022)

ChipNeMo: Domain-Adapted LLMs for Chip Design. - Mingjie Liu; Teodor-Dumitru Ene; Robert Kirby 001; Chris Cheng; Nathaniel Ross Pinckney; Rongjian Liang; Jonah Alben; Himyanshu Anand; Sanmitra Banerjee; Ismet Bayraktaroglu; Bonita Bhaskaran; Bryan Catanzaro; et al. (CoRR, 2023)

JARVIS: A Multi-Agent Code Assistant for High-Quality EDA Script Generation. - Ghasem Pasandi; Kishor Kunal; Varun Tej; Kunjal Shan; Hanfei Sun; Sumit Jain; Chunhui Li; Chenhui Deng; Teodor-Dumitru Ene; Haoxing Ren; Sreedhar Pratty (CoRR, 2025)