2012, Our works for research community

 Self-Developed frameworks open for biomedical research community

During 2003 to now, we have integrated with experiences from wet labs and information technology to implement several frameworks. All of them are open for biomedical research community and get the access from worldwide. The list of these systems can be found below as reference.

1.      Primer design Assistant (PDA), for PCR primer design, NAR 2003, http://dbb.nhri.org.tw/primer, Accumulative visits: ~180,000 and processed sequences: ~1,180,000 since July 2003

 

2.      Database of Protein Interactome of Helicobacter pylori, Bioinformatics, 2005, http://dpi.nhri.org.tw/hp, Accumulative visits: 220,200 since April 2005. Selected  as NAR Molecular Biology Database Collection entry number 664. 

3.      Database of Protein Interactome of Drosophila melanogaster, BMC bioinformatics, 2006, http://flydpi.nhri.org.tw, Accumulative visits: 141,000 since Dec 2006

figure1

 

4.      POWER, phylogenetics web repeater, NAR, 2005, http://power.nhri.org.tw, Accumulative visits: 18,600 since July, 2005

5.      UPS, unique probe selector, for microarray and hybridization probe design, (BMC Bioinformatics, 2008, BMC Genomics, 2010), http://array.iis.sinica.edu.tw/ups, Accumulative visit: 2,240 since Jan 2008.

6.      Hubba, Hub object analyzer for network biology, NAR 2008, http://hub.iis.sinica.edu.tw,  Accumulative visit: 2,387 since July 2008.

7.      PALM, Phylogenetic Reconstruction by Automatic Likelihood Model Selector, PLoS ONE 2009,  http://palm.iis.sinica.edu.tw, Accumulative visit: 3,441 since Dec 2009.



8.   MOLAs, Microarray Online Analysis system, submitted, http://molas.iis.sinica.edu.tw/Ocean

9.      myBLAST, a customized BLAST platform for genomics and proteomics, submitted, http://mybioweb.nhri.org.tw/myblast, standalone version for windows/MAC

 

10.      Annotation and Feature Extractor of GenBank, afterGenBank, (Submitted), http://aftergenbank.nhri.org.tw

 

11.  Assembly of Protein Complexes by Integrating Graph Clusterings , Gene, 2012, http://hub.iis.sinica.edu.tw/spotlight

12. Penaeus Genome Database, Marine Biotechnology, 2011 http://sysbio.iis.sinica.edu.tw/page, 

13. cytoHubba, a Cytoscape Plug-in for Hub Object Analysis in Network Biology, Submitted, http://hub.iis.sinica.edu.tw/cytohubba or http://apps.cytoscape.org/apps/cytohubba