Simon M. Lin

Publication Activity (10 Years)

Years Active: 2001-2021
Publications (10 Years): 40

Top Topics

Clinical Decision Support

Semantic Tagging

Query Reformulation

Top Venues

Publications

Xianlong Zeng, Simon M. Lin, Chang Liu
Transformer-based unsupervised patient representation learning based on medical claims for risk stratification and analysis. CoRR (2021)
Xianlong Zeng, Simon M. Lin, Chang Liu
Transformer-based unsupervised patient representation learning based on medical claims for risk stratification and analysis. BCB (2021)
Xiang Yue, Xinliang Frederick Zhang, Ziyu Yao, Simon M. Lin, Huan Sun
CliniQG4QA: Generating Diverse Questions for Domain Adaptation of Clinical Question Answering. BIBM (2021)
Xianlong Zeng, Simon M. Lin, Chang Liu
Pre-training transformer-based framework on large-scale pediatric claims data for downstream population-specific tasks. CoRR (2021)
Xianlong Zeng, Simon M. Lin, Chang Liu
Multi-View Deep Learning Framework for Predicting Patient Expenditure in Healthcare. IEEE Open J. Comput. Soc. 2 (2021)
Xinliang Frederick Zhang, Heming Sun, Xiang Yue, Simon M. Lin, Huan Sun
COUGH: A Challenge Dataset and Models for COVID-19 FAQ Retrieval. EMNLP (1) (2021)
Zhen Wang, Jennifer Lee, Simon M. Lin, Huan Sun
Rationalizing Medical Relation Prediction from Corpus-level Statistics. CoRR (2020)
Xiang Yue, Xinliang Frederick Zhang, Ziyu Yao, Simon M. Lin, Huan Sun
CliniQG4QA: Generating Diverse Questions for Domain Adaptation of Clinical Question Answering. CoRR (2020)
Xinliang Frederick Zhang, Heming Sun, Xiang Yue, Emmett Jesrani, Simon M. Lin, Huan Sun
COUGH: A Challenge Dataset and Models for COVID-19 FAQ Retrieval. CoRR (2020)
Xiang Yue, Zhen Wang, Jingong Huang, Srinivasan Parthasarathy, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Wen Zhang, Ping Zhang, Huan Sun
Graph embedding on biomedical networks: methods, applications and evaluations. Bioinform. 36 (4) (2020)
Selasi Attipoe, Yungui Huang, Sharon B. Schweikhart, Jennifer L. Hefner, Daniel M. Walker, Steven W. Rust, Jeffrey Hoffman, Simon M. Lin
Tasks Associated With Extreme After-hours EHR Use Among Ambulatory Care Pediatricians. AMIA (2020)
Zhen Wang, Jennifer Lee, Simon M. Lin, Huan Sun
Rationalizing Medical Relation Prediction from Corpus-level Statistics. ACL (2020)
Kaushik Mani, Xiang Yue, Bernal Jimenez Gutierrez, Yungui Huang, Simon M. Lin, Huan Sun
Clinical Phrase Mining with Language Models. BIBM (2020)
Manirupa Das, Juanxi Li, Eric Fosler-Lussier, Simon M. Lin, Steve Rust, Yungui Huang, Rajiv Ramnath
Sequence-to-Set Semantic Tagging for Complex Query Reformulation and Automated Text Categorization in Biomedical IR using Self-Attention. BioNLP (2020)
Xianlong Zeng, Yunyi Feng, Soheil Moosavinasab, Deborah Lin, Simon M. Lin, Chang Liu
Multilevel Self-Attention Model and Its Use on Medical Risk Prediction. PSB (2020)
Zhen Wang, Xiang Yue, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Huan Sun
SurfCon: Synonym Discovery on Privacy-Aware Clinical Data. CoRR (2019)
Yunyi Feng, Simon M. Lin, Enju Lin, Lesley Farley, Yungui Huang, Chang Liu
Identifying Candidates for Medical Coding Audits: Demonstration of a Data Driven Approach to Improve Medicare Severity Diagnosis-Related Group Coding Compliance. HIS (2019)
Zhen Wang, Xiang Yue, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Huan Sun
SurfCon: Synonym Discovery on Privacy-Aware Clinical Data. KDD (2019)
Alessandra C. Gasior, Carlos Reck, Victoria Lane, Richard J. Wood, Jeremy Patterson, Robert Strouse, Simon M. Lin, Jennifer N. Cooper, D. Gregory Bates, Marc A. Levitt
Transcending Dimensions: a Comparative Analysis of Cloaca Imaging in Advancing the Surgeon's Understanding of Complex Anatomy. J. Digit. Imaging 32 (5) (2019)
Xiang Yue, Zhen Wang, Jingong Huang, Srinivasan Parthasarathy, Soheil Moosavinasab, Yungui Huang, Simon M. Lin, Wen Zhang, Ping Zhang, Huan Sun
Graph Embedding on Biomedical Networks: Methods, Applications, and Evaluations. CoRR (2019)
Manirupa Das, Juanxi Li, Eric Fosler-Lussier, Simon M. Lin, Soheil Moosavinasab, Steve Rust, Yungui Huang, Rajiv Ramnath
Sequence-to-Set Semantic Tagging: End-to-End Multi-label Prediction using Neural Attention for Complex Query Reformulation and Automated Text Categorization. CoRR (2019)
Xianlong Zeng, Soheil Moosavinasab, En-Ju D. Lin, Simon M. Lin, Razvan C. Bunescu, Chang Liu
Distributed representation of patients and its use for medical cost prediction. CoRR (2019)
Zhizhang Hu, Emre Sezgin, Simon M. Lin, Pei Zhang, Hae Young Noh, Shijia Pan
Device-free Sleep Stage Recognition through Bed Frame Vibration Sensing. DFHS@BuildSys (2019)
Emre Sezgin, Monica Weiler, Anthony Weiler, Simon M. Lin
A roadmap of transition to health independence: A patient-centered study of self-management and digital-health solutions among teens with chronic conditions. AMIA (2018)
Syed-Amad A. Hussain, Soheil Moosavinasab, Emre Sezgin, Yungui Huang, Simon M. Lin
Char2Vec: Learning the Semantic Embedding of Rare and Unseen Words in the Biomedical Literature. AMIA (2018)
Selasi Attipoe, Yungui Huang, Sharon B. Schweikhart, Simon M. Lin
Variation in After-hours EHR Usage among Ambulatory Care Physicians. AMIA (2018)
David Chen, Steve Rust, En-Ju D. Lin, Simon M. Lin, Leslie Nelson, Lindsay Alfano, Linda P. Lowes
Prediction of Clinical Outcomes of Spinal Muscular Atrophy Using Motion Tracking Data and Elastic Net Regression. BCB (2018)
Manirupa Das, Eric Fosler-Lussier, Simon M. Lin, Soheil Moosavinasab, David Chen, Steve Rust, Yungui Huang, Rajiv Ramnath
Phrase2VecGLM: Neural generalized language model-based semantic tagging for complex query reformulation in medical IR. BioNLP (2018)
Xianlong Zeng, Soheil Moosavinasab, Enju Lin, Yungui Huang, Chang Liu, Simon M. Lin
DeepChild: Hospitalization Prediction via Neural Network. AMIA (2018)
Katherine Miller, Rajeswari Swaminathan, Soheil Moosavinasab, Robert Strouse, Matthew Bailey, Yungui Huang, Simon M. Lin
Genome Dashboard: An Interactive Tool for the Exploration of Human Genomic Variants and Phenotypic Associations. AMIA (2017)
Tyler Gorham, Steven W. Rust, Jing Yang, James Lin, Richard Hoyt, Swan Bee Liu, Jeffrey Hoffman, Tensing Maa, Yungui Huang, Simon M. Lin
Vitals Risk Index: A Simplified Pediatric Early Warning Index that Relies Solely on Objective Measures. AMIA (2017)
Rajeswari Swaminathan, Yungui Huang, Caroline Astbury, Sara Fitzgerald-Butt, Katherine Miller, Justin Cole, Christopher Bartlett, Simon M. Lin
Clinical exome sequencing reports: current informatics practice and future opportunities. J. Am. Medical Informatics Assoc. 24 (6) (2017)
Wei Chen, Claire Durkin, Yungui Huang, Brent Adler, Steve Rust, Simon M. Lin
Simplified Readability Metric Drives Improvement of Radiology Reports: an Experiment on Ultrasound Reports at a Pediatric Hospital. J. Digit. Imaging 30 (6) (2017)
Emre Sezgin, Koushik Jinna, Tran Bourgeois, Soheil Moosavinasab, Yungui Huang, Simon M. Lin
DeepSuggest: Query Expansion for Clinical Notes by Deep Learning. AMIA (2017)
Rajeswari Swaminathan, Yungui Huang, Katherine Miller, Matthew Pastore, Sayaka Hashimoto, Theodora Jacobson, Danielle Mouhlas, Simon M. Lin
Sharing exome sequencing data between Clinical Sequencing Labs and Healthcare Providers. AMIA (2017)
Soheil Moosavinasab, Jeremy Patterson, Robert Strouse, Majid Rastegar-Mojarad, Kelly Regan, Philip R. O. Payne, Yungui Huang, Simon M. Lin
'RE: fine drugs': an interactive dashboard to access drug repurposing opportunities. Database J. Biol. Databases Curation 2016 (2016)
Zhan Ye, Christopher Kadolph, Robert Strenn, Daniel Wall, Elizabeth McPherson, Simon M. Lin
WHATIF: An open-source desktop application for extraction and management of the incidental findings from next-generation sequencing variant data. Comput. Biol. Medicine 68 (2016)
Wei Chen, Soheil Moosavinasab, Steve Rust, Yungui Huang, Simon M. Lin, Anna Zemke, Ariana Prinzbach
Evaluation of a Machine Learning Method to Rank PubMed Central Articles For Clinical Relevancy: NCH at TREC 2016 Clinical Decision Support Track. TREC (2016)
Scott J. Hebbring, Majid Rastegar-Mojarad, Zhan Ye, John Mayer, Crystal Jacobson, Simon M. Lin
Application of clinical text data for phenome-wide association studies (PheWASs). Bioinform. 31 (12) (2015)
Simon M. Lin, Marco Tomamichel
Investigating properties of a family of quantum Rényi divergences. Quantum Inf. Process. 14 (4) (2015)
Matthew Fredrikson, Eric Lantz, Somesh Jha, Simon M. Lin, David Page, Thomas Ristenpart
Privacy in Pharmacogenetics: An End-to-End Case Study of Personalized Warfarin Dosing. USENIX Security Symposium (2014)
Amy Webb, Aaron Albin, Zhan Ye, Majid Rastegar-Mojarad, Kun Huang, Jeffrey D. Parvin, Wolfgang Sadee, Lang Li, Simon M. Lin, Yang Xiang
Mining massive SNP data for identifying associated SNPs and uncovering gene relationships. BCB (2014)
Matthias Samwald, Robert R. Freimuth, Joanne S. Luciano, Simon M. Lin, Robert L. Powers, M. Scott Marshall, Klaus-Peter Adlassnig, Michel Dumontier, Richard D. Boyce
An RDF/OWL Knowledge Base for Query Answering and Decision Support in Clinical Pharmacogenetics. MedInfo (2013)
Kai Peng, Wei Xu, Jianyong Zheng, Kegui Huang, Huisong Wang, Jiansong Tong, Zhifeng Lin, Jun Liu, Wenqing Cheng, Dong Fu, Pan Du, Warren A. Kibbe, Simon M. Lin, Tian Xia
The disease and gene annotations (DGA): an annotation resource for human disease. Nucleic Acids Res. 41 (Database-Issue) (2013)
Pedro Madrigal, Noa Sela, Simon M. Lin
Conference Postcards from ISMB/ECCB 2011. PLoS Comput. Biol. 7 (11) (2011)
Lihua Julie Zhu, Claude Gazin, Nathan D. Lawson, Hervé Pagès, Simon M. Lin, David S. Lapointe, Michael R. Green
ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data. BMC Bioinform. 11 (2010)
Pan Du, Xiao Zhang, Chiang-Ching Huang, Nadereh Jafari, Warren A. Kibbe, Lifang Hou, Simon M. Lin
Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis. BMC Bioinform. 11 (2010)
Pan Du, Gang Feng, Jared Flatow, Jie Song, Michelle Holko, Warren A. Kibbe, Simon M. Lin
From disease ontology to disease-ontology lite: statistical methods to adapt a general-purpose ontology for the test of gene-ontology associations. Bioinform. 25 (12) (2009)
Chia-Ju Lee, Dong Fu, Pan Du, Hongmei Jiang, Simon M. Lin, Warren A. Kibbe
A divide-and-conquer strategy to solve the out-of-memory problem of processing thousands of Affymetrix microarrays. Int. J. Comput. Biol. Drug Des. 1 (4) (2008)
Pan Du, Simon M. Lin, Mary Qu Yang, Jack Y. Yang
2009 and beyond: the decade of personalised medicine. Int. J. Comput. Biol. Drug Des. 1 (4) (2008)
Pan Du, Warren A. Kibbe, Simon M. Lin
: a pipeline for processing Illumina microarray. Bioinform. 24 (13) (2008)
Pan Du, Simon M. Lin, Warren A. Kibbe, Haihui Wang
Application of Wavelet Transform to the MS-based Proteomics Data Preprocessing. BIBE (2007)
Pan Du, Warren A. Kibbe, Simon M. Lin
Improved peak detection in mass spectrum by incorporating continuous wavelet transform-based pattern matching. Bioinform. 22 (17) (2006)
Simon M. Lin, Patrick McConnell, Kimberly F. Johnson, Jennifer Shoemaker
MedlineR: an open source library in R for Medline literature data mining. Bioinform. 20 (18) (2004)
Nilanjan Dasgupta, Simon M. Lin, Lawrence Carin
Sequential modeling for identifying CpG island locations in human genome. IEEE Signal Process. Lett. 9 (12) (2002)
Xuejun Liao, Nilanjan Dasgupta, Simon M. Lin, Lawrence Carin
ICA and PLS modeling for functional analysis and drug sensitivity for DNA microarray signals. ICASSP (2002)
Patrick McConnell, Kimberly F. Johnson, Simon M. Lin
Applications of Tree-Maps to hierarchical biological data. Bioinform. 18 (9) (2002)
Simon M. Lin, Sumeer Dhar, Rose-Mary N. Boustany
Extracting knowledge from gene expression data: A case study of Batten Disease. BIOKDD (2001)
Kimberly F. Johnson, Simon M. Lin
Critical Assessment of Microarray Data Analysis: the 2001 challenge. Bioinform. 17 (9) (2001)