OrderedList - a bioconductor package for detecting similarity in ordered gene lists. - Claudio Lottaz; Xinan Yang; Stefanie Scheid; Rainer Spang (Bioinform., 2006)

Similarities of Ordered Gene Lists. - Xinan Yang; Stefan Bentink; Stefanie Scheid; Rainer Spang (J. Bioinform. Comput. Biol., 2006)

Meta-analysis of several gene lists for distinct types of cancer: A simple way to reveal common prognostic markers. - Xinan Yang; Xiao Sun 006 (BMC Bioinform., 2007)

Comparability of gene expression in human blood, immune and carcinoma cells. - Xinan Yang; Xiao Sun 006; Jianming Xie; Zuhong Lu (Appl. Math. Comput., 2008)

SVM-Based Approach for Predicting DNA-Binding Residues in Proteins from Amino Acid Sequences. - Xin Ma 003; Jiansheng Wu; Hongde Liu; Xinan Yang; Jianming Xie; Xiao Sun 006 (IJCBS, 2009)

Mechanism-anchored profiling derived from epigenetic networks predicts outcome in acute lymphoblastic leukemia. - Xinan Yang; Yong Huang; James L. Chen; Jianming Xie; Xiao Sun 006; Yves A. Lussier (BMC Bioinform., 2009)

Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models. - Xinan Yang; Younghee Lee; Yong Huang; James L. Chen; H. Rosie Xing; Yves A. Lussier (BMC Bioinform., 2010)

Kinase inhibition-related adverse events predicted from in vitro kinome and clinical trial data. - Xinan Yang; Yong Huang; Matthew G. Crowson; Jianrong Li; Michael L. Maitland; Yves A. Lussier (J. Biomed. Informatics, 2010)

Network Modeling Identifies Molecular Functions Targeted by miR-204 to Suppress Head and Neck Tumor Metastasis. - Younghee Lee; Xinan Yang; Yong Huang; Hanli Fan; Qingbei Zhang; Youngfei Wu; Jianrong Li; Rifat Hasina; Chao Cheng; Mark W. Lingen; Mark B. Gerstein; Ralph R. Weichselbaum; et al. (PLoS Comput. Biol., 2010)

GO-Module: functional synthesis and improved interpretation of Gene Ontology patterns. - Xinan Yang; Jianrong Li; Younghee Lee; Yves A. Lussier (Bioinform., 2011)

Towards Mechanism Classifiers: Expression-anchored Gene Ontology Signature Predicts Clinical Outcome in Lung Adenocarcinoma Patients. - Xinan Yang; Haiquan Li; Kelly Regan; Jianrong Li; Yong Huang; H. Rosie Xing; Yves A. Lussier (AMIA, 2012)

Approximate dynamic programming with Bézier Curves/Surfaces for Top-percentile Traffic Routing. - Andreas Grothey; Xinan Yang (Eur. J. Oper. Res., 2012)

Single Sample Expression-Anchored Mechanisms Predict Survival in Head and Neck Cancer. - Xinan Yang; Kelly Regan; Yong Huang; Qingbei Zhang; Jianrong Li; Tanguy Y. Seiwert; Ezra E. W. Cohen; H. Rosie Xing; Yves A. Lussier (PLoS Comput. Biol., 2012)

Research and applications: Network models of genome-wide association studies uncover the topological centrality of protein interactions in complex diseases. - Younghee Lee; Haiquan Li; Jianrong Li; Ellen Rebman; Ikbel Achour; Kelly Regan; Eric R. Gamazon; James L. Chen; Xinan Holly Yang; Nancy J. Cox; Yves A. Lussier (J. Am. Medical Informatics Assoc., 2013)

Seq2pathway: an R/Bioconductor package for pathway analysis of next-generation sequencing data. - Bin Wang; John M. Cunningham; Xinan Holly Yang (Bioinform., 2015)

Systematic computation with functional gene-sets among leukemic and hematopoietic stem cells reveals a favorable prognostic signature for acute myeloid leukemia. - Xinan Yang; Meiyi Li; Bin Wang; Wanqi Zhu; Aurelie Desgardin; Kenan Onel; Jill de Jong; Jianjun Chen; Luonan Chen; John M. Cunningham (BMC Bioinform., 2015)

Robust Berth Allocation Using a Hybrid Approach Combining Branch-and-Cut and the Genetic Algorithm. - Ghazwan Alsoufi; Xinan Yang; Abdellah Salhi (HM, 2016)

An approximate dynamic programming approach for improving accuracy of lossy data compression by Bloom filters. - Xinan Yang; Alexei Vernitski; Laura Carrea (Eur. J. Oper. Res., 2016)

Choice-Based Demand Management and Vehicle Routing in E-Fulfillment. - Xinan Yang; Arne K. Strauss; Christine S. M. Currie; Richard W. Eglese (Transp. Sci., 2016)

Incorporating genomic, transcriptomic and clinical data: a prognostic and stem cell-like MYC and PRC imbalance in high-risk neuroblastoma. - Xinan Holly Yang; Fangming Tang; Jisu Shin 003; John M. Cunningham (BMC Syst. Biol., 2017)

An approximate dynamic programming approach to attended home delivery management. - Xinan Yang; Arne K. Strauss (Eur. J. Oper. Res., 2017)

An efficient mixed integer programming model for pairing containers in inland transportation based on the assignment of orders. - Hajem A. Daham; Xinan Yang; Michaela K. Warnes (J. Oper. Res. Soc., 2017)

CisPi: a transcriptomic score for disclosing cis-acting disease-associated lincRNAs. - Zhezhen Wang; John M. Cunningham; Xinan Holly Yang (Bioinform., 2018)

Combined quay crane assignment and quay crane scheduling with crane inter-vessel movement and non-interference constraints. - Ghazwan Alsoufi; Xinan Yang; Abdellah Salhi (J. Oper. Res. Soc., 2018)

An evolutionary approach to a combined mixed integer programming model of seaside operations as arise in container ports. - Abdellah Salhi; Ghazwan Alsoufi; Xinan Yang (Ann. Oper. Res., 2019)

A rolling-horizon dynamic programming approach for collaborative caching. - Xinan Yang; Nikolaos Thomos (CoRR, 2019)

A column generation-based decomposition and aggregation approach for combining orders in inland transportation of containers. - Xinan Yang; Hajem A. Daham (OR Spectr., 2020)

Chromatin-enriched RNAs mark active and repressive cis-regulation: An analysis of nuclear RNA-seq. - Xiangying Sun; Zhezhen Wang; Johnathon M. Hall; Carlos Perez-Cervantes; Alexander J. Ruthenburg; Ivan P. Moskowitz; Michael Gribskov; Xinan Holly Yang (PLoS Comput. Biol., 2020)

Combined strip and discharge delivery of containers in heterogeneous fleets with time windows. - Xinan Yang; Hajem A. Daham; Abdellah Salhi (Comput. Oper. Res., 2021)

Volcano eruption algorithm for solving optimization problems. - Eghbal Hosseini; Ali Safaa Sadiq; Kayhan Zrar Ghafoor; Danda B. Rawat; Mehrdad Saif; Xinan Yang (Neural Comput. Appl., 2021)

Robot-Assisted Delivery Problems and Their Exact Solutions. - Abdullahi Mohammed Jingi; Xinan Yang (OLA, 2023)

Demand management in time-slotted last-mile delivery via dynamic routing with forecast orders. - Mohammad Abdollahi; Xinan Yang; Moncef Ilies Nasri; Michael Fairbank (Eur. J. Oper. Res., 2023)

A multi-objective approach for the integrated planning of drone and robot assisted truck operations in last-mile delivery. - Ali Mokhtari Moghadam; Abdellah Salhi; Xinan Yang; Trung Thanh Nguyen 002; Pourya Pourhejazy (Expert Syst. Appl., 2025)