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List of works by Sofia Ananiadou

A Deep Learning Approach to Refine the Identification of High-Quality Clinical Research Articles From the Biomedical Literature: Protocol for Algorithm Development and Validation

scientific article published on 29 November 2021

A Text Mining Framework for Accelerating the Semantic Curation of Literature

article

A Text Mining Pipeline Using Active and Deep Learning Aimed at Curating Information in Computational Neuroscience

scientific article published on 01 July 2019

A comparative geolocation and text mining analysis of emotions and topics during the COVID-19 Pandemic in the UK (Preprint)

scientific article published in 2022

A cross-lingual similarity measure for detecting biomedical term translations

scientific article

A method for discovering and inferring appropriate eligibility criteria in clinical trial protocols without labeled data ⬇️

scientific article published on April 5, 2013

A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text

scientific article (publication date: July 2013)

A semi-supervised approach using label propagation to support citation screening

scientific article

AGRA: analysis of gene ranking algorithms.

scientific article

ASCOT: a text mining-based web-service for efficient search and assisted creation of clinical trials ⬇️

scientific article published on April 30, 2012

Accelerating the annotation of sparse named entities by dynamic sentence selection

scientific article

Adaptable, high recall, event extraction system with minimal configuration

scientific article published on 13 July 2015

Adverse drug events and medication relation extraction in electronic health records with ensemble deep learning methods

scientific article published on 01 January 2020

An ensemble of neural models for nested adverse drug events and medication extraction with subwords

scientific article published on 01 January 2020

Analysis of the effect of sentiment analysis on extracting adverse drug reactions from tweets and forum posts

scientific article published on 27 June 2016

Anatomical entity mention recognition at literature scale

scientific article

Anatomical entity recognition with a hierarchical framework augmented by external resources

scientific article

Annotating and detecting phenotypic information for chronic obstructive pulmonary disease

scientific article published on 26 April 2019

Annotation and detection of drug effects in text for pharmacovigilance

Applications of text mining within systematic reviews

scientific article

Argo: an integrative, interactive, text mining-based workbench supporting curation ⬇️

scientific article published on March 20, 2012

Argo: enabling the development of bespoke workflows and services for disease annotation

scientific article

Automatic extraction of angiogenesis bioprocess from text ⬇️

scientific article (publication date: October 2011)

Automatic extraction of microorganisms and their habitats from free text using text mining workflows

scientific article published on 10 October 2011

Back to the Future: Towards Explainable Temporal Reasoning with Large Language Models

scientific article published on 08 May 2024

Bilingual term alignment from comparable corpora in English discharge summary and Chinese discharge summary

scientific article

BioCause: Annotating and analysing causality in the biomedical domain ⬇️

scientific article published on January 16, 2013

BioCreative V BioC track overview: collaborative biocurator assistant task for BioGRID.

scientific article published in September 2016

Biosimilar Versus Originator Insulins: Systematic review and meta-analysis

scientific article published on 14 March 2018

Boosting automatic event extraction from the literature using domain adaptation and coreference resolution ⬇️

scientific article published on April 25, 2012

Boosting drug named entity recognition using an aggregate classifier

scientific article

Building a high-quality sense inventory for improved abbreviation disambiguation

scientific article

Building an abbreviation dictionary using a term recognition approach

scientific article

COPIOUS: A gold standard corpus of named entities towards extracting species occurrence from biodiversity literature ⬇️

scientific article published on 22 January 2019

Clinical text classification under the Open and Closed Topic Assumptions

scientific article published on January 2009

Constructing a biodiversity terminological inventory

scientific article

Construction of an annotated corpus to support biomedical information extraction

scientific article (publication date: 2009)

Data Visualization with Structural Control of Global Cohort and Local Data Neighborhoods

scientific article

Dealing with Data Sparsity in Drug Named Entity Recognition

article published in 2013

Deploying and sharing U-Compare workflows as web services

scientific article

Detecting experimental techniques and selecting relevant documents for protein-protein interactions from biomedical literature

scientific article

Developing a Robust Part-of-Speech Tagger for Biomedical Text

article

Disambiguating the species of biomedical named entities using natural language parsers

scientific article

Discovering and visualizing indirect associations between biomedical concepts. ⬇️

scientific article

Dólares or Dollars? Unraveling the Bilingual Prowess of Financial LLMs Between Spanish and English

scientific article published on 25 August 2024

EmoLLMs: A Series of Emotional Large Language Models and Annotation Tools for Comprehensive Affective Analysis

scientific article published on 25 August 2024

Enriching news events with meta-knowledge information

Erratum to: Using text mining for study identification in systematic reviews: a systematic review of current approaches

scientific article published on 28 April 2015

Event extraction across multiple levels of biological organization ⬇️

scientific article published on September 15, 2012

Event extraction for systems biology by text mining the literature

scientific article

Event-based text mining for biology and functional genomics

scientific article

Extracting semantically enriched events from biomedical literature

scientific article

FACTA: a text search engine for finding associated biomedical concepts

scientific article

Filling the gaps between tools and users: a tool comparator, using protein-protein interaction as an example.

scientific article published in January 2008

Generalising semantic category disambiguation with large lexical resources for fun and profit

scientific article

How to make the most of NE dictionaries in statistical NER. ⬇️

scientific article

Hypothesis, analysis and synthesis, it's all Greek to me

scientific article published on 20 February 2019

Identification of research hypotheses and new knowledge from scientific literature.

scientific article

Improving clinical named entity recognition in Chinese using the graphical and phonetic feature

scientific article published on 23 December 2019

Improving reference prioritisation with PICO recognition

scientific article published on 05 December 2019

Large-scale event extraction from literature with multi-level gene normalization

scientific article

Learning string similarity measures for gene/protein name dictionary look-up using logistic regression

scientific article published on 12 August 2007

LitPathExplorer: A Confidence-based Visual Text Analytics Tool for Exploring Literature-Enriched Pathway Models.

scientific article published on 8 December 2017

MaSTerClass: a case-based reasoning system for the classification of biomedical terms

scientific article published on 22 February 2005

Machine learning algorithms for systematic review: reducing workload in a preclinical review of animal studies and reducing human screening error

article

Mapping Phenotypic Information in Heterogeneous Textual Sources to a Domain-Specific Terminological Resource

scientific article

Mapping anatomical related entities to human body parts based on wikipedia in discharge summaries

scientific article published on 17 August 2019

MentaLLaMA: Interpretable Mental Health Analysis on Social Media with Large Language Models

scientific article published on 08 May 2024

Mining metabolites: extracting the yeast metabolome from the literature

scientific article

Mining semantically related terms from biomedical literature

Named Entity Recognition for Bacterial Type IV Secretion Systems ⬇️

scientific article published on March 29, 2011

Negated bio-events: analysis and identification

scientific article

Normalizing biomedical terms by minimizing ambiguity and variability

scientific article

Optimising chemical named entity recognition with pre-processing analytics, knowledge-rich features and heuristics

scientific article

Overview of the Cancer Genetics and Pathway Curation tasks of BioNLP Shared Task 2013.

scientific article published on 13 July 2015

Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011 ⬇️

scientific article published on June 26, 2012

Overview of the interactive task in BioCreative V

scientific article (publication date: 2016)

PathText: a text mining integrator for biological pathway visualizations

scientific article

Prioritising references for systematic reviews with RobotAnalyst: A user study

scientific article

Proceedings of the Second International Symposium for Semantic Mining in Biomedicine

Processing biological literature with customizable Web services supporting interoperable formats

scientific article

Proximity-Based Frameworks for Generating Embeddings from Multi-Output Data ⬇️

scientific article published on November 1, 2012

Quantifying risk factors in medical reports with a context-aware linear model ⬇️

scientific article published on 01 June 2019

Recognising discourse causality triggers in the biomedical domain

scientific article published on 02 December 2013

Reducing systematic review workload through certainty-based screening.

scientific article

Risk of bias reporting in the recent animal focal cerebral ischaemia literature

scientific article

SciLite: a platform for displaying text-mined annotations as a means to link research articles with biological data.

scientific article published on January 2016

Self-Tuned Descriptive Document Clustering Using a Predictive Network

Semi-supervised learning of causal relations in biomedical scientific discourse

scientific article

Supporting Systematic Reviews Using Text Mining

scholarly article by Sofia Ananiadou et al published 20 April 2009 in Social Science Computer Review

Supporting systematic reviews using LDA-based document representations

scientific article

Supporting the annotation of chronic obstructive pulmonary disease (COPD) phenotypes with text mining workflows

scientific article

Supporting the education evidence portal via text mining

scientific article

Terminology-driven literature mining and knowledge acquisition in biomedicine.

scientific article published on December 2002

Terminology-driven mining of biomedical literature

scientific article published on May 2003

Text Mining Supporting Search for Knowledge Discovery in Diabetes

Text Mining the History of Medicine

scientific article

Text mining and its potential applications in systems biology

scientific article published on 12 October 2006

Text mining and ontologies in biomedicine: making sense of raw text

scientific article

Text mining meets workflow: linking U-Compare with Taverna

scientific article

Text mining resources for the life sciences

scientific article

Text-mining-assisted biocuration workflows in Argo

scientific article (publication date: 2014)

Thalia: Semantic search engine for biomedical abstracts

scientific article published in May 2019

The BioLexicon: a large-scale terminological resource for biomedical text mining

article published in 2011

The pace of modern culture

scientific article published on 20 January 2020

The strategic impact of META-NET on the regional, national and international level

The use of text-mining and machine learning algorithms in systematic reviews: reducing workload in preclinical biomedical sciences and reducing human screening error

scholarly article published 31 January 2018

The value of an in-domain lexicon in genomics QA.

scientific article published in February 2010

Themes in biomedical natural language processing: BioNLP08.

scientific article

Thesaurus or Logical Ontology, Which One Do We Need for Text Mining?

article

Topic detection using paragraph vectors to support active learning in systematic reviews

scientific article

U-Compare bio-event meta-service: compatible BioNLP event extraction services

scientific article (publication date: 18 December 2011)

U-Compare: share and compare text mining tools with UIMA

scientific article

UKPMC: a full text article resource for the life sciences

scientific article

Using automatically learnt verb selectional preferences for classification of biomedical terms

scientific article published on December 2004

Using text mining for study identification in systematic reviews: a systematic review of current approaches

scientific article

Using text mining techniques to extract phenotypic information from the PhenoCHF corpus

scientific article published on 15 June 2015

Using uncertainty to link and rank evidence from biomedical literature for model curation

scientific article published on 24 July 2017

Using workflows to explore and optimise named entity recognition for chemistry

scientific article

Wide coverage biomedical event extraction using multiple partially overlapping corpora ⬇️

scientific article published on June 3, 2013

Zero-shot Temporal Relation Extraction with ChatGPT ⬇️

scientific article published on 11 April 2023

biochem4j: Integrated and extensible biochemical knowledge through graph databases.

scientific article published on 14 July 2017

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