SMP-Graph: Structure-Enhanced Unsupervised Semantic Graph Representation for Precise Medical Procedure Coding on EMRs

Author(s):  
Yue Gao ◽  
Xiangling Fu ◽  
Xien Liu ◽  
Kaiyin Zhou ◽  
Ji Wu
Author(s):  
Haonan Li ◽  
Ehsan Hamzei ◽  
Ivan Majic ◽  
Hua Hua ◽  
Jochen Renz ◽  
...  

Existing question answering systems struggle to answer factoid questions when geospatial information is involved. This is because most systems cannot accurately detect the geospatial semantic elements from the natural language questions, or capture the semantic relationships between those elements. In this paper, we propose a geospatial semantic encoding schema and a semantic graph representation which captures the semantic relations and dependencies in geospatial questions. We demonstrate that our proposed graph representation approach aids in the translation from natural language to a formal, executable expression in a query language. To decrease the need for people to provide explanatory information as part of their question and make the translation fully automatic, we treat the semantic encoding of the question as a sequential tagging task, and the graph generation of the query as a semantic dependency parsing task. We apply neural network approaches to automatically encode the geospatial questions into spatial semantic graph representations. Compared with current template-based approaches, our method generalises to a broader range of questions, including those with complex syntax and semantics. Our proposed approach achieves better results on GeoData201 than existing methods.


2012 ◽  
Vol 10 (04) ◽  
pp. 1250008 ◽  
Author(s):  
NOAH C. BENSON ◽  
VALERIE DAGGETT

Graphs are rapidly becoming a powerful and ubiquitous tool for the analysis of protein structure and for event detection in dynamical protein systems. Despite their rise in popularity, however, the graph representations employed to date have shared certain features and parameters that have not been thoroughly investigated. Here, we examine and compare variations on the construction of graph nodes and graph edges. We propose a graph representation based on chemical groups of similar atoms within a protein rather than residues or secondary structure and find that even very simple analyses using this representation form a powerful event detection system with significant advantages over residue-based graph representations. We additionally compare graph edges based on probability of contact to graph edges based on contact strength and analyses of the entire graph structure to an alternative and more computationally tractable node-based analysis. We develop the simplest useful technique for analyzing protein simulations based on these comparisons and use it to shed light on the speed with which static protein structures adjust to a solvated environment at room temperature in simulation.


2016 ◽  
Vol 55 (10) ◽  
pp. 103111 ◽  
Author(s):  
Xiaojuan Ning ◽  
Yinghui Wang ◽  
Weiliang Meng ◽  
Xiaopeng Zhang

Author(s):  
Pengyang Wang ◽  
Yanjie Fu ◽  
Yuanchun Zhou ◽  
Kunpeng Liu ◽  
Xiaolin Li ◽  
...  

In this paper, we design and evaluate a new substructure-aware Graph Representation Learning (GRL) approach. GRL aims to map graph structure information into low-dimensional representations. While extensive efforts have been made for modeling global and/or local structure information, GRL can be improved by substructure information. Some recent studies exploit adversarial learning to incorporate substructure awareness, but hindered by unstable convergence. This study will address the major research question: is there a better way to integrate substructure awareness into GRL? As subsets of the graph structure, interested substructures (i.e., subgraph) are unique and representative for differentiating graphs, leading to the high correlation between the representation of the graph-level structure and substructures. Since mutual information (MI) is to evaluate the mutual dependence between two variables, we develop a MI inducted substructure-aware GRL method. We decompose the GRL pipeline into two stages: (1) node-level, where we introduce to maximize MI between the original and learned representation by the intuition that the original and learned representation should be highly correlated; (2) graph-level, where we preserve substructures by maximizing MI between the graph-level structure and substructure representation. Finally, we present extensive experimental results to demonstrate the improved performances of our method with real-world data.


2008 ◽  
Author(s):  
Ronald L. Blount ◽  
Katie A. Devine ◽  
Patricia S. Cheng ◽  
Laura E. Simons ◽  
Lisa Hayutin
Keyword(s):  

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