User:Dan Bolser

Contact Info

Hi!

• Dan Bolser
• Email me through OpenWetWare, or at dan.bolser@gmail.com

I work in bioinformatics.

Education

• 2001-2006, PhD, MRC-Dunn / MRC-LMB, UK
• 2000-2001, MRes, The University of York, UK
• 1997-2000, BSc, The University of York, UK

Research interests

1. Developing community resources (wiki) for sharing scientific data. Some examples include:
   1. MetaBase / MetaBase in WikiPedia / MetaBase.
   2. PDBWiki / PDBWiki in WikiPedia / PDBWiki.
   3. Bioinformatist.Org
   4. Bioinformatics.Org/Wiki / Bioinformatics.Org in Wikipedia / Bioinformatics.Org.
   5. SEQwiki / SEQwiki in WikiPedia / SEQwiki.

All of these resources have been created under the umbrella of the BiO Community Cluster (BiO.CC) project. You can read about BiO.CC on MetaBase.

See also the BioWiki nature network, and the Nature wiki reviews [1][2].

Non wiki interests

1. The analysis of protein-protein interaction networks in a phylogenetic context (re:PSIMAP).
2. The analysis of protein complexes and protein biophysics.

Publications

1. Hu JC, Aramayo R, Bolser D, Conway T, Elsik CG, Gribskov M, Kelder T, Kihara D, Knight TF Jr, Pico AR, Siegele DA, Wanner BL, and Welch RD. The emerging world of wikis. Science. 2008 Jun 6;320(5881):1289-90. DOI:10.1126/science.320.5881.1289b |

   Wiki!

2. Gong S, Park C, Choi H, Ko J, Jang I, Lee J, Bolser DM, Oh D, Kim DS, and Bhak J. A protein domain interaction interface database: InterPare. BMC Bioinformatics. 2005 Aug 25;6:207. DOI:10.1186/1471-2105-6-207 |
3. Park D, Lee S, Bolser D, Schroeder M, Lappe M, Oh D, and Bhak J. Comparative interactomics analysis of protein family interaction networks using PSIMAP (protein structural interactome map). Bioinformatics. 2005 Aug 1;21(15):3234-40. DOI:10.1093/bioinformatics/bti512 |
4. Gong S, Yoon G, Jang I, Bolser D, Dafas P, Schroeder M, Choi H, Cho Y, Han K, Lee S, Choi H, Lappe M, Holm L, Kim S, Oh D, and Bhak J. PSIbase: a database of Protein Structural Interactome map (PSIMAP). Bioinformatics. 2005 May 15;21(10):2541-3. DOI:10.1093/bioinformatics/bti366 |
5. Dafas P, Bolser D, Gomoluch J, Park J, and Schroeder M. Using convex hulls to extract interaction interfaces from known structures. Bioinformatics. 2004 Jul 10;20(10):1486-90. DOI:10.1093/bioinformatics/bth106 |
6. Kim WK, Bolser DM, and Park JH. Large-scale co-evolution analysis of protein structural interlogues using the global protein structural interactome map (PSIMAP). Bioinformatics. 2004 May 1;20(7):1138-50. DOI:10.1093/bioinformatics/bth053 |
7. Bolser D, Dafas P, Harrington R, Park J, and Schroeder M. Visualisation and graph-theoretic analysis of a large-scale protein structural interactome. BMC Bioinformatics. 2003 Oct 8;4:45. DOI:10.1186/1471-2105-4-45 |
8. Park J and Bolser D. Conservation of protein interaction network in evolution. Genome Inform. 2001;12:135-40.

Useful links

• Introductory tutorial
• OpenWetWare help pages