Youngsong Cho, Jae-Kwan Kim, Joonghyun Ryu, Chung-In Won, Chong-Min Kim, Donguk Kim, and Deok-Soo Kim,
BetaMol: a molecular modeling, analysis and visualization software based on the beta-complex and the quasi-triangulation,
Journal of Advanced Mechanical Design, Systems, and Manufacturing, Vol.6, Issue 3, pp. 389-403, 2012
WebLab is a multifunctional bioinformatics analysis platform integrating diversified tools with unified, user-friendly web interface. However, WebLab is not a mere bioinformatics toolbox, we also offer powerful data management function, group strategy and knowledge sharing mechanism, which will bring considerable advance of efficiency for both wet bench and in silico scientists working in biomedicine community.
dictyExpress is an interactive, web-based exploratory data analytics application providing access to over 1,000 Dictyostelium gene expression experiments from Baylor College of Medicine. The applications consists of components for data retrieval, selection of individual genes or groups of genes, graphic display of gene expression time courses, Gene Ontology term enrichment analysis, display of gene co-expression networks, hierarchical clustering, and expression profile visualization of selected genes in different experiments. The components are connected such that a change in any one of the components (e.g., selection of a gene subset from the hierarchical clustering dendrogram) can propagate to other components and their associated visualizations.
ReadXplorer is a freely available comprehensive exploration and evaluation tool for NGS data. It extracts and adds quantity and quality measures to each alignment in order to classify the mapped reads. This classification is then taken into account for the different data views and all supported automatic analysis functions.
MIDAS (Multiallelic Interallelic Disequilibrium Analysis Software) is a linkage disequilibrium analysis program with a comprehensive graphical user interface providing novel views of patterns of linkage disequilibrium between all types of multiallelic and biallelic markers.
DNA-Chip Analyzer (dChip) is a Windows software package for probe-level (e.g. Affymetrix platform) and high-level analysis of gene expression microarrays and SNP microarrays.
Gene expression or SNP data from various microarray platforms can also be analyzed by importing as external dataset. At the probe level, dChip can display and normalize the CEL files, and the model-based approach allows pooling information across multiple arrays and automatic probe selection to handle cross-hybridization and image contamination. High-level analysis in dChip includes comparing samples, hierarchical clustering, view expression and SNP data along chromosome, LOH and copy number analysis of SNP arrays, and linkage analysis. In these functions the gene information and sample information are correlated with the analysis results.
Started in Wing Wong Lab , Developed & Maintained by Cheng Li Lab.