Protein annotation and modelling servers at University College London

By Daniel W. A. Buchan, Sean Ward, Anna E. Lobley, Timothy Nugent, Kevin Bryson, David T. Jones. Nucleic Acids Res., 2010

386 citations recorded by the source corpus.

The UCL Bioinformatics Group web portal offers several high quality protein structure prediction and function annotation algorithms including PSIPRED, pGenTHREADER, pDomTHREADER, MEMSAT, MetSite, DISOPRED2, DomPred and FFPred for the prediction of secondary structure, protein fold, protein structural domain, transmembrane helix topology, metal binding sites, regions of protein disorder, protein domain boundaries and protein function, respectively. We also now offer a fully automated 3D modelling pipeline: BioSerf, which performed well in CASP8 and uses a fragment-assembly approach which placed it in the top five servers in the de novo modelling category. The servers are available via the group web site at http://bioinf.cs.ucl.ac.uk/.

Subfields: Materials Chemistry, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/971686248d65647dcd3af8916814b2d273481aa8

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Materials Chemistry

1. Jinbo Xu
2. Sheng Wang
3. Zhiyong Wang
4. David T. Jones
5. Lukasz Kurgan
6. Daniel W. A. Buchan
7. Ke Chen
8. Jian Peng

In Molecular Biology

1. Jinbo Xu
2. Sheng Wang
3. David T. Jones
4. Daniel W. A. Buchan
5. Lukasz Kurgan
6. Zhiyong Wang
7. Badri Adhikari
8. Yang Zhang

Citations in the corpus

• Template-based protein structure modeling using the RaptorX web server (2012, methodology): “( c ) Performance comparison between RaptorX and PSIPRED for secondary structure prediction.”
• Scalable web services for the PSIPRED Protein Analysis Workbench (2013, methodology): “Here, we give a brief overview of the new or updated algorithms available via the PSIPRED workbench; for those algorithms that have not seen major updates, we refer the reader to our previous 2010 Web Server article (5) or seminal publications for particular methods (6).”
• Computational prediction of secondary and supersecondary structures. (2013, methodology): “Two recent comparative studies (16, 39) and prior evaluations within the framework of the EVA initiative show that SABLE achieves accuracy of about 78%.”
• Computational Methods in Drug Discovery (2014, methodology): “, PSIPRED (Buchan et al., 2010) and MODELER (Marti-Renom et al.”