Profiles

• Google Scholar
• ORCID

2022

• A multilingual Shiny app for drug labelling in worldwide submission.
  Jinchun Zhang, Aiming Yang, Yiwen Luo, Nan Xiao, Yilong Zhang. PharmaSUG 2022.
• PDXNet portal: patient-derived Xenograft model, data, workflow and tool discovery.
  Soner Koc, Michael W Lloyd, Jeffrey W Grover, Nan Xiao, Sara Seepo, Sai Lakshmi Subramanian, Manisha Ray, Christian Frech, John DiGiovanna, Phillip Webster, Steven Neuhauser, Anuj Srivastava, Xing Yi Woo, Brian J Sanderson, Brian White, Paul Lott, Lacey E Dobrolecki, Heidi Dowst, PDXNet Consortium , Yvonne A Evrard, Tiffany A Wallace, Jeffrey A Moscow, James H Doroshow, Nicholas Mitsiades, Salma Kaochar, Chong-xian Pan, Moon S Chen, Luis Carvajal-Carmona, Alana L Welm, Bryan E Welm, Michael T Lewis, Ramaswamy Govindan, Li Ding, Shunqiang Li, Meenhard Herlyn, Michael A Davies, Jack Roth, Funda Meric-Bernstam, Peter N Robinson, Carol J Bult, Brandi Davis-Dusenbery, Dennis A Dean, II, Jeffrey H Chuang. NAR Cancer 4(2), 2022.

2021

• Bioinformatics tools developed to support BioCompute Objects.
  Janisha A Patel, Dennis A Dean, Charles Hadley King, Nan Xiao, Soner Koc, Ekaterina Minina, Anton Golikov, Phillip Brooks, Robel Kahsay, Rahi Navelkar, Manisha Ray, Dave Roberson, Chris Armstrong, Raja Mazumder, Jonathon Keeney. Database 2021: 1–13, 2021.

2020

• BCO App: tools for generating BioCompute Objects from next-generation sequencing workflows and computations [version 1; peer review: 2 approved].
  Nan Xiao, Soner Koc, David Roberson, Phillip Brooks, Manisha Ray, Dennis Dean. F1000Research, 9:1144, 2020.
• The Rockerverse: packages and applications for containerisation with R.
  Daniel Nüst, Dirk Eddelbuettel, Dom Bennett, Robrecht Cannoodt, Dav Clark, Gergely Daróczi, Mark Edmondson, Colin Fay, Ellis Hughes, Lars Kjeldgaard, Sean Lopp, Ben Marwick, Heather Nolis, Jacqueline Nolis, Hong Ooi, Karthik Ram, Noam Ross, Lori Shepherd, Péter Sólymos, Tyson Lee Swetnam, Nitesh Turaga, Charlotte Van Petegem, Jason Williams, Craig Willis, Nan Xiao. The R Journal 12(1): 437–461, 2020.
• Strengthening the BioCompute standard by crowdsourcing on PrecisionFDA.
  Sarah H Stephens, Charles Hadley King IV, Sean Watford, Janisha Patel, Dennis A. Dean II, Soner Koc, Nan Xiao, Eric F Donaldson, Elaine E Thompson, Anjan Purkayastha, Raja Mazumder, Elaine Johanson, Jonathon Keeney. bioRxiv 2020.11.02.365528.

2019

• Collaboration patterns and network in chemometrics.
  Chuan-Quan Li, Nan Xiao, Ye Wen, Shi-Hui He, Yuan‐Da Xu, You-Wu Lin, Hong-Dong Li, Qing-Song Xu. Chemometrics and Intelligent Laboratory Systems 191: 21–29, 2019. [PDF]

2018

• dml: distance metric learning in R.
  Yuan Tang, Tao Gao, Nan Xiao. Journal of Open Source Software 3(30): 1036, 2018.
• A selective review and comparison for interval variable selection in spectroscopic modeling.
  Li-Li Wang, You-Wu Lin, Xu-Fei Wang, Nan Xiao, Yuan-Da Xu, Hong-Dong Li, Qing-Song Xu. Chemometrics and Intelligent Laboratory Systems 172: 229–240, 2018. [PDF]

2017

• Ordered homogeneity pursuit lasso for group variable selection with applications to spectroscopic data.
  You-Wu Lin, Nan Xiao, Li-Li Wang, Chuan-Quan Li, Qing-Song Xu. Chemometrics and Intelligent Laboratory Systems 168: 62–71, 2017. [PDF] [Website] [R package]

2016

• A novel local manifold-ranking based k-NN for modeling the regression between bioactivity and molecular descriptors.
  Liang Shen, Dong-Sheng Cao, Qing-Song Xu, Xin Huang, Nan Xiao, Yi-Zeng Liang. Chemometrics and Intelligent Laboratory Systems 151: 71–77, 2016. [PDF]
• hdnom: building nomograms for penalized Cox models with high-dimensional survival data.
  Nan Xiao, Qing-Song Xu, and Miao-Zhu Li. bioRxiv 065524.

2015

• Multi-step adaptive elastic-net: reducing false positives in high-dimensional variable selection.
  Nan Xiao and Qing-Song Xu. Journal of Statistical Computation and Simulation 85(18): 3755–3765, 2015. [PDF] [R package]
• protr/ProtrWeb: R package and web server for generating various numerical representation schemes of protein sequence.
  Nan Xiao, Dong-Sheng Cao, Min-Feng Zhu, and Qing-Song Xu. Bioinformatics 31(11): 1857–1859, 2015. [PDF] [R package] [Shiny app]
• Rcpi: R/Bioconductor package to generate various descriptors of proteins, compounds, and their interactions.
  Dong-Sheng Cao, Nan Xiao, Qing-Song Xu and Alex F. Chen. Bioinformatics 31(2): 279–281, 2015. [PDF] [R package]
• Integrating multiple evidence sources to predict adverse drug reactions based on systems pharmacology model.
  Dong-Sheng Cao, Nan Xiao, Yuan-Jian Li, Wen-Bin Zeng, Yi-Zeng Liang, Ai-Ping Lu, Qing-Song Xu, Alex F. Chen. CPT: Pharmacometrics & Systems Pharmacology 4(9): 498–506, 2015. [PDF] [Code and dataset]
• In silico evaluation of logD_7.4 and comparison with other prediction methods.
  Jian-Bing Wang, Dong-Sheng Cao, Min-Feng Zhu, Yong-Huan Yun, Nan Xiao, Yi-Zeng Liang. Journal of Chemometrics 29(7): 389–398, 2015. [PDF] [Dataset]