Volume 14 Supplement 3

Selected proceedings from the Automated Function Prediction Meeting 2011


Edited by Iddo Friedberg and Predrag Radivojac

The Automated Function Prediction meeting at ISMB 2011 was supported by a US National Institutes of Health grant R13 HG006079-01A1 awarded to PR and a US Department of Energy, Office of Science grant DE-SC0006807TDD awarded to IF. The meeting organizers gratefully acknowledge the ongoing support of the International Society for Computational Biology to the Automated Function Prediction Special Interest Group.

Automated Function Prediction SIG 2011 featuring the CAFA Challenge: Critical Assessment of Function Annotations. Go to conference site.

Vienna, Austria

15-16 July 2011

  1. Proceedings

    How to inherit statistically validated annotation within BAR+ protein clusters

    In the genomic era a key issue is protein annotation, namely how to endow protein sequences, upon translation from the corresponding genes, with structural and functional features. Routinely this operation is ...

    Damiano Piovesan, Pier Luigi Martelli, Piero Fariselli, Giuseppe Profiti, Andrea Zauli, Ivan Rossi and Rita Casadio

    BMC Bioinformatics 2013 14(Suppl 3):S4

    Published on: 28 February 2013

  2. Proceedings

    Protein function prediction using domain families

    Here we assessed the use of domain families for predicting the functions of whole proteins. These 'functional families' (FunFams) were derived using a protocol that combines sequence clustering with supervised...

    Robert Rentzsch and Christine A Orengo

    BMC Bioinformatics 2013 14(Suppl 3):S5

    Published on: 28 February 2013

  3. Proceedings

    Homology-based inference sets the bar high for protein function prediction

    Any method that de novo predicts protein function should do better than random. More challenging, it also ought to outperform simple homology-based inference.

    Tobias Hamp, Rebecca Kassner, Stefan Seemayer, Esmeralda Vicedo, Christian Schaefer, Dominik Achten, Florian Auer, Ariane Boehm, Tatjana Braun, Maximilian Hecht, Mark Heron, Peter Hönigschmid, Thomas A Hopf, Stefanie Kaufmann, Michael Kiening, Denis Krompass…

    BMC Bioinformatics 2013 14(Suppl 3):S7

    Published on: 28 February 2013

  4. Proceedings

    MS-k NN: protein function prediction by integrating multiple data sources

    Protein function determination is a key challenge in the post-genomic era. Experimental determination of protein functions is accurate, but time-consuming and resource-intensive. A cost-effective alternative i...

    Liang Lan, Nemanja Djuric, Yuhong Guo and Slobodan Vucetic

    BMC Bioinformatics 2013 14(Suppl 3):S8

    Published on: 28 February 2013

  5. Proceedings

    A domain-centric solution to functional genomics via dcGO Predictor

    Computational/manual annotations of protein functions are one of the first routes to making sense of a newly sequenced genome. Protein domain predictions form an essential part of this annotation process. This...

    Hai Fang and Julian Gough

    BMC Bioinformatics 2013 14(Suppl 3):S9

    Published on: 28 February 2013

  6. Proceedings

    Protein function annotation with Structurally Aligned Local Sites of Activity (SALSAs)

    The prediction of biochemical function from the 3D structure of a protein has proved to be much more difficult than was originally foreseen. A reliable method to test the likelihood of putative annotations and...

    Zhouxi Wang, Pengcheng Yin, Joslynn S Lee, Ramya Parasuram, Srinivas Somarowthu and Mary Jo Ondrechen

    BMC Bioinformatics 2013 14(Suppl 3):S13

    Published on: 28 February 2013