Browsing Conway Institute Research Collection by Author "Shields, Denis C."

DSpace/Manakin Repository

You are here:
Research Repository UCD
>
Institutes and Centres
>
Conway Institute
>
Conway Institute Research Collection
>
Browsing Conway Institute Research Collection by Author

Browsing Conway Institute Research Collection by Author "Shields, Denis C."

Now showing items 1-8 of 8

CycloPs : generating virtual libraries of cyclized and constrained peptides including nonnatural amino acids

Duffy, Fergal J. ; Verniere, Mélanie ; Devocelle, Marc ; Bernard, Elise ; Shields, Denis C. ; Chubb, Anthony J. (ACS Publications, 2011-03-24)

We introduce CycloPs, software for the generation of virtual libraries of constrained peptides including natural and nonnatural commercially available amino acids. The software is written in the cross-platform Python ...
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 ...
Predictive modelling of angiotensin converting enzyme inhibitory dipeptides

Norris, Roseanne ; Casey, Fergal ; FitzGerald, Richard ; Shields, Denis C. ; Mooney, Catherine (Elsevier, 2012-08-14)

The ability of docking to predict angiotensin converting enzyme (ACE) inhibitory dipeptide sequences was assessed using AutoDock Vina. All potential dipeptides and phospho-dipeptides were docked and scored. Peptide intestinal ...
Profile-based short linear protein motif discovery.

Haslam, Niall J. ; Shields, Denis C. (BioMed Central, 2012-05-18)

Background Short linear protein motifs are attracting increasing attention as functionally independent sites, typically 3-10 amino acids in length that are enriched in disordered regions of proteins. Multiple methods ...
SLiMFinder : a web server to find novel, significantly over-represented, short protein motifs

Davey, Norman E. ; Haslam, Niall J. ; Shields, Denis C. ; Edwards, Richard J. (Oxford University Press, 2010-07)

Short, linear motifs (SLiMs) play a critical role in many biological processes, particularly in protein–protein interactions. The Short, Linear Motif Finder (SLiMFinder) web server is a de novo motif discovery tool that ...
SLiMSearch 2.0 : biological context for short linear motifs in proteins

Davey, Norman E. ; Haslam, Niall J. ; Shields, Denis C. ; Edwards, Richard J. (Oxford University Press, 2011-05-26)

Short, linear motifs (SLiMs) play a critical role in many biological processes. The SLiMSearch 2.0 (Short, Linear Motif Search) web server allows researchers to identify occurrences of a user-defined SLiM in a proteome, ...
SLiMSearch : a webserver for finding novel occurrences of short linear motifs in proteins, incorporating sequence context

Davey, Norman E. ; Haslam, Niall J. ; Shields, Denis C. ; Edwards, Richard J. (Springer, 2010)

Short, linear motifs (SLiMs) play a critical role in many biological processes. The SLiMSearch (Short, Linear Motif Search) webserver is a flexible tool that enables researchers to identify novel occurrences of pre- defined ...
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, ...