VBRC Publications
1) Chris Upton’s publication at Google Scholar
- NEW BOOK: Vaccinia Virus, Methods and protocols. Editor: Jason Mercer. (2019)
- Bioinformatic Approaches for Comparative Analysis of Viruses (2018)
- Virus Databases (2017)
- Bioinformatics for Analysis of Poxvirus Genomes (2012)
2) Manuscripts describing the VBRC Tools at Google Scholar (includes citations)
- VOCs
- VGO
- JDotter
- GATU
- Base-by-Base (v1), Base-by-Base (v2), Base-By-Base (v3)
- STS (1), STS (2)
- Sequence Searcher
Refereed conference proceedings (considered full publications in Computer Science)
- Barsky, M., U. Stege, A. Thomo, C. Upton. 2006. A New Algorithm for Fast All-Against-All Substring Matching Proc. of String Processing and Information Retrieval. SPIRE’06, Glasgow, Scotland.
- Barsky, M., U. Stege, A. Thomo, C. Upton. 2007. Shortest Path Approaches for the Longest Common Subsequence of a Set of Strings. IEEE 7th International Symposium on Bioinformatics and BioEngineering (BIBE07), pp. 327-333 IEEE. Boston, USA.
- Barsky, M., U. Stege, A. Thomo, C. Upton. 2008. A new method on indexing genomes using on-disk suffix trees. ACM 17th Conference on Information and Knowledge Management. Napa Valley, California USA.
- Barsky, M., U. Stege, A. Thomo, C. Upton. 2009. Suffix trees for very large genomic sequences. ACM 18th Conference on Information and Knowledge Management. Hong Kong, China.
