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List of works by Anália Lourenço

@Note: a workbench for biomedical text mining

scientific article published on 22 April 2009

A Systematic Approach to the Interrogation and Sharing of Standardised Biofilm Signatures

A framework for the integrated analysis of metabolic and regulatory networks

article published in 2008

A linear classifier based on entity recognition tools and a statistical approach to method extraction in the protein-protein interaction literature

scientific article

A network perspective on antimicrobial peptide combination therapies: the potential of colistin, polymyxin B and nisin.

scientific article published on 27 April 2017

A new approach to bacterial colony morphotyping by matrix-assisted laser desorption ionization time of flight-based mass spectrometry

scientific article

A peptidome-based phylogeny pipeline reveals differential peptides at the strain level within Bifidobacterium animalis subsp. lactis

scientific article published on 29 June 2016

Agent-based model of diffusion of N-acyl homoserine lactones in a multicellular environment of Pseudomonas aeruginosa and Candida albicans

scientific article published on 08 March 2018

Agent-based spatiotemporal simulation of biomolecular systems within the open source MASON framework.

scientific article

An harmonised vocabulary for communicating and interchanging biofilms experimental results.

scientific article published on 23 October 2014

Application of agent-based modelling to assess single-molecule transport across the cell envelope of E. coli

scientific article published on 02 March 2019

Application of classification-tree models to characterize the mycobiota of grapes on the basis of origin.

scientific article published in September 2006

Approach for Unveiling the Glycoside Hydrolase Activities in Through a Systematic and Integrative Large-Scale Analysis

scientific article published on 04 April 2019

BEW: Bioinformatics Workbench for Analysis of Biofilms Experimental Data

BIOMedical Search Engine Framework: Lightweight and customized implementation of domain-specific biomedical search engines

scientific article published on 08 April 2016

BioDR: Semantic indexing networks for biomedical document retrieval

BiofOmics: a Web platform for the systematic and standardized collection of high-throughput biofilm data

scientific article

Biomedical Text Mining Applied to Document Retrieval and Semantic Indexing

BlasterJS: A novel interactive JavaScript visualisation component for BLAST alignment results

scientific article published in PLoS ONE

Challenges in integrating Escherichia coli molecular biology data

scientific article

Collaborative relation annotation and quality analysis in Markyt environment.

scientific article published in January 2017

Computational approach to the systematic prediction of glycolytic abilities: looking into human microbiota

scientific article published on 06 March 2020

Computational prediction of the bioactivity potential of proteomes based on expert knowledge

scientific article published on 07 February 2019

Computational resources and strategies to construct single-molecule metabolic models of microbial cells

scientific article

Construction of antimicrobial peptide-drug combination networks from scientific literature based on a semi-automated curation workflow.

scientific article published on 26 December 2016

Correction: A linear classifier based on entity recognition tools and a statistical approach to method extraction in the protein-protein interaction literature

scientific article published on 27 July 2012

Critical review on biofilm methods.

scientific article published on 21 November 2016

DEWE: A novel tool for executing differential expression RNA-Seq workflows in biomedical research

scientific article published on 27 February 2019

Data Integration Issues in the Reconstruction of the Genome-Scale Metabolic Model of Zymomonas Mobillis

Data Quality in Biofilm High-Throughput Routine Analysis: Intralaboratory Protocol Adaptation and Experiment Reproducibility

scientific article

Designing an Ontology Tool for the Unification of Biofilms Data

Enabling systematic, harmonised and large-scale biofilms data computation: the Biofilms Experiment Workbench.

scientific article

Evaluating Web Site Structure Based on Navigation Profiles and Site Topology

article published in 2013

Exploring Anti-Quorum Sensing and Anti-Virulence Based Strategies to fight Candida albicans infections: an in silico approach.

scientific article published on 6 March 2018

Extraction of pharmacokinetic evidence of drug-drug interactions from the literature ⬇️

scientific article

From amino acid sequence to bioactivity: The biomedical potential of antitumor peptides.

scientific article published on 24 March 2016

Heteroresistance to colistin in Klebsiella pneumoniae is triggered by small colony variants sub-populations within biofilms

scientific article published in May 2016

High performance computing for three-dimensional agent-based molecular models

scientific article published on 8 June 2016

Improving Phylogeny Reconstruction at the Strain Level Using Peptidome Datasets

scientific article (publication date: 29 December 2016)

In Silico Screening of the Human Gut Metaproteome Identifies Th17-Promoting Peptides Encrypted in Proteins of Commensal Bacteria

scientific article published on 8 September 2017

In silico prediction reveals the existence of potential bioactive neuropeptides produced by the human gut microbiota

scientific article published on 30 January 2019

Information Retrieval and Text Mining Technologies for Chemistry.

scientific article

Interpreting the Regulatory Interplay in E. coli Metabolic Pathways

scholarly article by Anália Lourenço et al published 2011 in Advances in Intelligent and Soft Computing

Lessons Learned: Recommendations for Establishing Critical Periodic Scientific Benchmarking

MAHMI database: a comprehensive MetaHit-based resource for the study of the mechanism of action of the human microbiota

scientific article published on 10 January 2017

Marky: a tool supporting annotation consistency in multi-user and iterative document annotation projects

scientific article

Minimum information about a biofilm experiment (MIABiE): standards for reporting experiments and data on sessile microbial communities living at interfaces

scientific article

MorphoCol: A Powerful Tool for the Clinical Profiling of Pathogenic Bacteria

MorphoCol: An ontology-based knowledgebase for the characterisation of clinically significant bacterial colony morphologies.

scientific article published on 25 March 2015

Networking the Way towards Antimicrobial Combination Therapies

New trends in peptide-based anti-biofilm strategies: a review of recent achievements and bioinformatic approaches.

scientific article published on January 2012

Next generation community assessment of biomedical entity recognition web servers: metrics, performance, interoperability aspects of BeCalm

scientific article published on 24 June 2019

P4P: a peptidome-based strain-level genome comparison web tool

scientific article published on 8 May 2017

Pathogenicity phenomena in three model systems: from network mining to emerging system-level properties

scientific article published on 07 October 2013

Polymicrobial Ventilator-Associated Pneumonia: Fighting In Vitro Candida albicans-Pseudomonas aeruginosa Biofilms with Antifungal-Antibacterial Combination Therapy

scientific article

Probiotics, gut microbiota, and their influence on host health and disease.

scientific article

Quorum sensing inhibition in Pseudomonas aeruginosa biofilms: new insights through network mining.

scientific article published on 25 January 2017

Resources and tools for the high-throughput, multi-omic study of intestinal microbiota

scientific article

Revisiting the Metabolic Capabilities of Bifidobacterium longum susbp. longum and Bifidobacterium longum subsp. infantis from a Glycoside Hydrolase Perspective

scientific article published on 13 May 2020

Searching for new strategies against biofilm infections: Colistin-AMP combinations against Pseudomonas aeruginosa and Staphylococcus aureus single- and double-species biofilms

scientific article

Semantic annotation of biological concepts interplaying microbial cellular responses

scientific article

Single Molecule Simulation of Diffusion and Enzyme Kinetics.

scientific article published on 6 April 2016

Stringent response of Escherichia coli: revisiting the bibliome using literature mining.

scientific article published on 30 December 2011

Tackling probiotic and gut microbiota functionality through proteomics.

scientific article published on 18 March 2016

Text mining for the biocuration workflow

scientific article

The Complexity of Promoter Regions Based on a Vector Topological Entropy

The Evolving Role of Information Technology in Haemovigilance Systems.

scientific article

The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge

scientific article

Using Twitter to Understand the Human Bowel Disease Community: Exploratory Analysis of Key Topics

scientific article published on 15 August 2019

Web scraping technologies in an API world ⬇️

scientific article published on April 30, 2013

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