Syeed Ibn Faiz

Syeed Ibn Faiz Research Assistant Cognitive Engineering Lab Computer Science University of Western Ontario syeedibnfaiz@gmail.com
Area of Research:	Applied Natural Language Processing Biomedical Relation Extraction Discourse Parsing
Supervisor:	Dr. Robert Mercer

Here are links to some of the stuffs that I have worked on:
MSc thesis: Discovering Higher Order Relations from Biomedical Text Abstract: A discourse relation is a coherence relation that connects discourse segments expressing abstract objects, i.e., events, facts, states or propositions. A biomedical relation, on the other hand, exhibits a relationship between biomedical entities. When the abstract objects involved in a discourse relation in a biomedical text correspond to biomedical relations (or biomedical events, facts, etc.), we can infer a higher order relationship between those biomedical relations. In this thesis, our goal is to extract such higher order relations from biomedical research articles. These higher order relations can be used for question answering, knowledge discovery or understanding reasoning in biomedical text. We have developed systems for parsing explicit discourse relations and extracting biomedical relations from biomedical research articles. We have evaluated these systems using public benchmark corpora and obtained promising results. Finally, we have presented an algorithm that can extract higher order relations leveraging the discourse relation parser and the relation extractor Discourse Parser A full discourse parser that extracts explicit discourse relations from English text. It has models trained on both the PDTB and the Biomedical Discourse Relation Bank. So, it can be used for parsing discourse relations from biomedical text as well as general English text. Consider the following text: John will not come because he is sick. However, he may come tomorrow. So, we are going to talk about it tomorrow. Sent-0: John will not come because he is sick . Conn: because [4,4] Sense: Contingency Arg2Head: is 6 Arg1Head: will [0,1] Sent-1: However , he may come tomorrow . Conn: However [0,0] Sense: Comparison Arg2Head: may 3 Arg1Head: will [0,1] Sent-2: So , we are going to talk about it tomorrow . Conn: So [0,0] Sense: Contingency Arg2Head: going 4 Arg1Head: may [1,3] The output follows the following format: Sent-<Sentence#>: <Token 0> SPACE <Token 1> ... <Token (n-1)> Conn: <Connective> TAB [<Start Token#>,<End Token#>] Sense: <Sense> Arg2Head: <Arg2 Head Token> TAB <Arg2 Head Token#> Arg1Head: <Arg1 Head Token> TAB [<Arg1 Sentence#>,<Arg1 Head Token#>] NewLine Rule-based and ML-based biomedical relation extraction system. LibSVM-Java-Kernel A lightly refactored version of the Java implementation of LibSVM which allows easy integration of custom kernel functions. Here is an easy introduction on how to use it: Writing Custom Kernel Functions in Java for LibSVM . Answering Natural Language Biomedical Queries using Answerset Programming A query answering system that can provide answers to biomedical queries presented in Attempto Controlled English. The system converts a query into an answer set program and solves it using the CLASP answer set solver. For example, this system can give answers to queries like the following: What are the drugs that treat a disease which causes Anxiety or which is related to HTR1A? Automated Theorem Prover for First-Order Logic A tableau-based automated theorem prover for first-order logic written in C++. Bangla Speech Recognition System A limited vocabulary, speaker independent, Bengali speech recognition system using CMU Sphinx speech framework. Tautology Prover Applet A tautology prover applet for propositional logic. Generic Database Reader An XML-configurable generic database reader in C++ that can read from MySQL, MS SQL Server, etc. Model Builder for Propositional Partial Information Ionic Logic An Implementation of the propositional partial information ionic logic presented in Logic of Partial Information . Alt-LTC WebWatch A Simpler Web Interface for LTC Web Watch.