User:EnricoG

Publications

• E. Glaab, J. M. Garibaldi, N. Krasnogor, ArrayMining: a modular web-application for microarray analysis combining ensemble and consensus methods with cross-study normalization, BMC Bioinformatics 2009, 10:358

Talks

• Gene Set Enrichment Analysis in Microarray Cancer Analysis
  2009-06-16, Madrid, Spanish National Cancer Research Centre (CNIO) (45 min)

• Tumour grade classification for microarray breast cancer samples
  2009-05-27, Queens Medical Centre (45 min)

• Using Gene Set Analysis for Classification of Microarray Cancer Samples
  2009-06-10, Florence, BIOPTRAIN workshop (45 min)

• ArrayMining.net: A modular web-application for microarray analysis
  2009-01-10, Nottingham (15 min)

• Gene set based microarray sample classification
  2009-06-09, Nottingham, Research Away Day (30 min)

Conferences/Posters

• Poster: A Web Interface for Automatic DNA-Microarray Analysis
  BioSysBio conference 2009, 2009-03-23 - 2009-03-25, Cambridge, UK
• Cancer-om-atics: Multilevel interpretation of cancer genome data
  Conference at the Spanish National Cancer Institute (CNIO), 06/07/2009 - 08/07/2009, Madrid, Spain

Competitions/Awards

• Peer Review Poster Award at Graduate School Poster Prize event (2009-05-06, Nottingham)
• 2nd Place Poster Award Winner at Bridging the Gaps "Interdisciplinary Research Showcase" (2009-03-06, Nottingham)
• KDD Machine Learning Cup 2009, Slow Track, Rank 53

Software projects

• PathLoupe: a web-tool for comparative network-analysis of gene sets, PathLoupe
• ArrayMining.net: a web-interface for automatic microarray analysis, http://www.arraymining.net
• VRMLGen: a software-package for 3D visualization of biological data on the web, VRMLGen

Talks

• Statistical Gene Expression Analysis
  2008-06-19, Research Away Day (30 min)

• Computational Analysis of Drug Molecules (CoMFA and CoMSIA)
  2008-05-22, ASAP group seminar (1 h)

Publications

• First year report, School of Computer Science, 2008-07-01

Fellowship meetings

• BIOPTRAIN Workshop, Florence, Italy, 11-06-2009 - 12-06-2009
• BIOPTRAIN Meeting, Innsbruck, Austria, 12-01-2009

Research skills

• Virtual Statistical Tutor, Graduate School (2009-04-25)
• Using posters to communicate research, Graduate School (2009-01-28)
• Presentation Skills for Researchers, Graduate School (2008-12-06)

Workshops

• NATCOR workshop "Combinatorial Optimization", University of Southampton (2008-09-15 - 2008-09-19)

Research skills

• Problem Exploration in Research, Graduate School (2007-11-09)
• Introduction to Managing Research, Graduate School (2007-11-05 - 2007-11-06)
• Organisation of a two-day research meeting ("Research Away Day 2008", 2008-06-19 - 2008-06-20),
  (devising the webpage, the booklet and the time schedule for the event and booking the venue)

Training events

• Equality and Diversity Training, University of Nottingham (2007-11-28)

Courses

• "Briefings in Research Practice", School of Computer Science

Workshops

• NATCOR workshop "Heuristics and Approximation Algorithms", University of Nottingham (2008-03-31 - 2008-04-04)

• Integrating protein interaction data and metabolic pathway data to score associations between gene sets (co-operation with Spanish National Cancer Institute, CNIO, Madrid, Spain)
• Implementation of a web-tool for comparative network-analysis of gene sets using protein interaction data (co-operation with Spanish National Cancer Institute, CNIO, Madrid, Spain)
• Pathway-based analysis of microarray breast cancer data (co-operation with Queens Medical Center, Nottingham)
• 3-months secondment at Katholieke Universiteit Leuven
• Writing journal paper manuscripts on microarray ensemble and consensus analysis methods, rule-based sample classification and gene set analysis
• Attendance of Bioinformatics-related conferences (BioSysBio-conference, Cancer-om-atics)
• Implementation of new analysis modules for a web-application on microarray analysis, ArrayMining.net (new modulesGene Set Analysis, Cross-Study Normalization, Gene Network Co-expression Analysis)

• Implementation of a web-tool for online analysis of microarray data (providing feature selection, sample classification and clustering for uploaded data sets and pre-processed example data)
• Implementation of a hybrid algorithm for feature subset selection and evaluation using 3 common microarray sample classification methods and ensemble learning
• Comparative analysis of combinatorial feature selection and prediction algorithms (on two simulation data sets and four real-world microarray data sets)
• Pre-processing and unsupervised and supervised analysis for various microarray data sets (pre-eclampsia and breast cancer)
• Collection and pre-processing of microarray cancer data sets
• Literature review (microarray feature selection and sample classification, lcs, ensemble learning, active learning, etc.)