ACM-BCB 2015 List of Demos

Sept. 10th, 2015 and Sept. 11th, 2015

Location: 2nd Floor Hall Way


Gene Ontology(GO) is one of the most popular bioinformatic resources to study functional relationships between genes. However, the existing tools for calculating the semantic similarity are limited since they only rely on GO annotations and structure. NETSIMWeb is a working demonstration of a web tool that calculates functional similarities between genes based on GO term associations by integrating gene co-function networks and information from GO. NETSIMWeb supplies researchers a gene function similarity measurement that considers both gene co-function network and information from GO. NETSIMWeb is presented by co-authors Jiajie Peng and Hongxiang Li, PhD students in computer science and technology at Harbin Institute of Technology along with their advisor Professor Yadong Wang, and Dr. Jin Chen, an Assistant Professor in the Department of Energy Plant Research Laboratory (PRL) and the Department of Computer Science and Engineering, Michigan State University.

KBase Demo:

KBase ( is an integrated software and data platform designed to meet the grand challenge of systems biology—predicting and designing biological function on a range of scales, from the biomolecular to the ecological. Users can perform large-scale analyses and combine multiple lines of evidence to model plant and microbial physiology and community dynamics. KBase offers open access to quality-controlled data and high-performance modeling and simulation tools that enable researchers to build new knowledge, interpret missing information necessary for predictive modeling, test hypotheses, design experiments, and share findings such that they can be reproduced and extended by others. KBase is presented by Bob Cottingham from Oak Ridge National Laboratory where he is Group Leader for Bioinformatics.