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Browsing by Author "Pollastri, Gianluca"

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Ab initio and homology based prediction of protein domains by recursive neural networks

Walsh, Ian ; Martin, Alberto J. M. ; Mooney, Catherine ; Rubagotti, Enrico ; Vullo, Alessandro ; Pollastri, Gianluca (BioMed Central, 2009-06-26)

Background: Proteins, especially larger ones, are often composed of individual evolutionary units, domains, which have their own function and structural fold. Predicting domains is an important intermediate step in protein ...
Ab initio and template-based prediction of multi-class distance maps by two-dimensional recursive neural networks

Walsh, Ian ; Baù, Davide ; Martin, Alberto J. M. ; Mooney, Catherine ; Vullo, Alessandro ; Pollastri, Gianluca (BioMed Central, 2009-01-30)

Background: Prediction of protein structures from their sequences is still one of the open grand challenges of computational biology. Some approaches to protein structure prediction, especially ab initio ones, rely to some ...
Accurate prediction of protein secondary structure and solvent accessibility by consensus combiners of sequence and structure information

Pollastri, Gianluca ; Martin, Alberto J. M. ; Mooney, Catherine ; Vullo, Alessandro (BioMed Central, 2007-06-14)

Background : Structural properties of proteins such as secondary structure and solvent accessibility contribute to three-dimensional structure prediction, not only in the ab initio case but also when homology information ...
Beyond the twilight zone : automated prediction of structural properties of proteins by recursive neural networks and remote homology information

Mooney, Catherine ; Pollastri, Gianluca (Wiley InterScience, 2009-10)

The prediction of 1D structural properties of proteins is an important step toward the prediction of protein structure and function, not only in the ab initio case but also when homology information to known structures is ...
Distill : a suite of web servers for the prediction of one-, two- and three-dimensional structural features of proteins

Baù, Davide ; Martin, Alberto J. M. ; Mooney, Catherine ; Vullo, Alessandro ; Walsh, Ian ; Pollastri, Gianluca (BioMed Central, 2006-09-05)

We describe Distill, a suite of servers for the prediction of protein structural features: secondary structure; relative solvent accessibility; contact density; backbone structural motifs; residue contact maps at 6, 8 and ...
Prediction of short linear protein binding regions

Mooney, Catherine ; Pollastri, Gianluca ; Shields, Denis C. ; Haslam, Niall J. (Elsevier, 2012-01-06)

Short linear motifs in proteins (typically 3–12 residues in length) play key roles in protein–protein interactions by frequently binding specifically to peptide binding domains within interacting proteins. Their tendency ...
Protein structural motif prediction in multidimensional φ-ψ space leads to improved secondary structure prediction

Mooney, Catherine ; Vullo, Alessandro ; Pollastri, Gianluca (Mary Ann Liebert, 2006-10-24)

A significant step towards establishing the structure and function of a protein is the prediction of the local conformation of the polypeptide chain. In this article, we present systems for the prediction of three new ...
SCLpred : protein subcellular localization prediction by N-to-1 neural networks

Mooney, Catherine ; Wang, Yong-Hong ; Pollastri, Gianluca (Oxford University Press, 2011-08-27)

Knowledge of the subcellular location of a protein provides valuable information about its function and possible interaction with other proteins. In the post-genomic era, fast and accurate predictors of subcellular location ...
Towards the Improved Discovery and Design of Functional Peptides: Common Features of Diverse Classes Permit Generalized Prediction of Bioactivity

Mooney, Catherine ; Haslam, Niall J. ; Pollastri, Gianluca ; Shields, Denis C. (PLOS, 2012-10)

The conventional wisdom is that certain classes of bioactive peptides have specific structural features that endow their particular functions. Accordingly, predictions of bioactivity have focused on particular subgroups, ...

Now showing items 1-9 of 9

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