AKSmooth: Enhancing low-coverage bisulfite sequencing data via kernel-based smoothing. - Junfang Chen; Pavlo Lutsik; Ruslan Akulenko; Jörn Walter; Volkhard Helms (J. Bioinform. Comput. Biol., 2014)

A novel technology: microfluidic devices for microbubble ultrasound contrast agent generation. - Hangyu Lin; Junfang Chen; Chuanpin Chen (Medical Biol. Eng. Comput., 2016)

Gimpute: an efficient genetic data imputation pipeline. - Junfang Chen; Dietmar Lippold; Josef Frank; William Rayner; Andreas Meyer-Lindenberg; Emanuel Schwarz (Bioinform., 2019)

Biologically informed risk scoring in schizophrenia based on genome-wide omics data - Junfang Chen (2020)

Differential resting-state patterns across networks are spatially associated with Comt and Trmt2a gene expression patterns in a mouse model of 22q11.2 deletion. - Natalia Gass; Zeru Peterson; Jonathan Rochus Reinwald; Alexander Sartorius; Wolfgang Weber-Fahr; Markus Sack; Junfang Chen; Han Cao 001; Michael Didriksen; Tine Bryan Stensbøl; Gabrielle Klemme; Adam J. Schwarz; et al. (NeuroImage, 2021)

Generative network models of altered structural brain connectivity in schizophrenia. - Xiaolong Zhang; Urs Braun; Anais Harneit; Zhenxiang Zang; Lena S. Geiger; Richard F. Betzel; Junfang Chen; Janina I. Schweiger; Kristina Schwarz; Jonathan Rochus Reinwald; Stefan Fritze; Stephanie H. Witt; et al. (NeuroImage, 2021)

BioM2: biologically informed multi-stage machine learning for phenotype prediction using omics data. - Shunjie Zhang; Pan Li; Shenghan Wang; Jijun Zhu; Zhongting Huang; Fuqiang Cai; Sebastian Freidel; Fei Ling; Emanuel Schwarz; Junfang Chen (Briefings Bioinform., 2024)

Deep Tree Tensor Networks for Image Recognition. - Chang Nie; Junfang Chen; Yajie Chen (CoRR, 2025)