List of works by Cecilia Arighi

A Coordinated Approach by Public Domain Bioinformatics Resources to Aid the Fight Against Alzheimer's Disease Through Expert Curation of Key Protein Targets

scientific article published on 20 July 2020

A Tutorial on Protein Ontology Resources for Proteomic Studies ⬇️

scientific article published on January 1, 2011

A crowdsourcing open platform for literature curation in UniProt

scientific article published on 6 December 2021

A framework for biomedical figure segmentation towards image-based document retrieval

scientific article

An Image-Text Approach for Extracting Experimental Evidence of Protein-Protein Interactions in the Biomedical Literature

An effective biomedical document classification scheme in support of biocuration: addressing class imbalance

An evolutionarily conserved motif is required for Plasmodesmata-located protein 5 to regulate cell-to-cell movement

scientific article published on 05 June 2020

An improved ontological representation of dendritic cells as a paradigm for all cell types

scientific article

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task

scientific article published on 17 January 2013

Analysis of Protein Phosphorylation and Its Functional Impact on Protein-Protein Interactions via Text Mining of the Scientific Literature

scientific article published on January 2017

BC4GO: a full-text corpus for the BioCreative IV GO task

scientific article

BioC-compatible full-text passage detection for protein-protein interactions using extended dependency graph

scientific article published on 11 May 2016

BioCreative III interactive task: an overview

scientific article

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

scientific article published in September 2016

BioCreative-2012 virtual issue

scientific article published on 5 December 2012

BioCreative-IV virtual issue

scientific article published on 22 May 2014

Bioinformatics Knowledge Map for Analysis of Beta-Catenin Function in Cancer

scientific article published on 28 October 2015

Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees

scientific article

Computational Strategies to Combat COVID-19: Useful Tools to Accelerate SARS-CoV-2 and Coronavirus Research

scientific article published on 23 May 2020

Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research

scientific article published on 04 November 2020

Construction of phosphorylation interaction networks by text mining of full-length articles using the eFIP system

scientific article

Construction of protein phosphorylation networks by data mining, text mining and ontology integration: analysis of the spindle checkpoint

scientific article

Correction: Toll-Like Receptor Signaling in Vertebrates: Testing the Integration of Protein, Complex, and Pathway Data in the Protein Ontology Framework

scientific article published on 18 June 2015

Divalent interaction of the GGAs with the Rabaptin-5-Rabex-5 complex

scientific article

Expert curation in UniProtKB: a case study on dealing with conflicting and erroneous data

scientific article

Framework for a protein ontology

scientific article

Framework for a protein ontology

Gene Ontology Consortium: going forward

scientific article (publication date: 2015)

Integration of bioinformatics resources for functional analysis of gene expression and proteomic data

scientific article

Integrative annotation and knowledge discovery of kinase post-translational modifications and cancer-associated mutations through federated protein ontologies and resources.

scientific article

Micellar lipoproteins as the possible storage and translocation form of intracellular diacylglycerol.

scientific article

Murine Oviductosomes (OVS) microRNA profiling during the estrous cycle: Delivery of OVS-borne microRNAs to sperm where miR-34c-5p localizes at the centrosome

scientific article published in Scientific Reports

On expert curation and scalability: UniProtKB/Swiss-Prot as a case study ⬇️

scientific article published on 13 July 2017

On expert curation and sustainability: UniProtKB/Swiss-Prot as a case study

scientific article published on 14 December 2016

Ongoing and future developments at the Universal Protein Resource

scientific article

Overview of the BioCreative III Workshop

scientific article

Overview of the COVID-19 text mining tool interactive demonstration track in BioCreative VII

scientific article published in 2022

Overview of the gene ontology task at BioCreative IV

scientific article

Overview of the interactive task in BioCreative V

scientific article (publication date: 2016)

PIRSF family classification system for protein functional and evolutionary analysis

scientific article published on January 2006

PIRSitePredict for protein functional site prediction using position-specific rules

Pathway curation: Application of text-mining tools eGIFT and RLIMS-P

Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges

scientific article

Protein Ontology (PRO): enhancing and scaling up the representation of protein entities

scientific article

Protein Ontology: a controlled structured network of protein entities

scientific article

Protein ontology on the semantic web for knowledge discovery

scientific article published on 12 October 2020

RESTful API for iPTMnet: a resource for protein post-translational modification network discovery

scientific article published on 01 January 2020

RLIMS-P 2.0: A Generalizable Rule-Based Information Extraction System for Literature Mining of Protein Phosphorylation Information

scientific article

RLIMS-P: an online text-mining tool for literature-based extraction of protein phosphorylation information

scientific article

Recent advances in biocuration: meeting report from the Fifth International Biocuration Conference

scientific article (publication date: 2012)

Reorganizing the protein space at the Universal Protein Resource (UniProt)

scientific article (publication date: 2012)

Role of the mammalian retromer in sorting of the cation-independent mannose 6-phosphate receptor

scientific article

Scalable Text Mining Assisted Curation of Post-Translationally Modified Proteoforms in the Protein Ontology

scientific article published on August 2016

Structural mechanism for ubiquitinated-cargo recognition by the Golgi-localized, gamma-ear-containing, ADP-ribosylation-factor-binding proteins

scientific article

TGF-beta signaling proteins and the Protein Ontology

scientific article

Temperature-induced conformational switch in intestinal fatty acid binding protein (IFABP) revealing an alternative mode for ligand binding

scientific article

Temperature-induced conformational transition of intestinal fatty acid binding protein enhancing ligand binding: a functional, spectroscopic, and molecular modeling study.

scientific article

Text Mining of Protein Phosphorylation Information Using a Generalizable Rule-Based Approach

Text mining for the biocuration workflow

scientific article

The Protein Ontology: a structured representation of protein forms and complexes

scientific article

The eFIP system for text mining of protein interaction networks of phosphorylated proteins

scientific article

The representation of protein complexes in the Protein Ontology (PRO).

scientific article

Toll-like receptor signaling in vertebrates: testing the integration of protein, complex, and pathway data in the protein ontology framework.

scientific article

Tutorial on Protein Ontology Resources

scientific article published on January 2017

UPCLASS: a deep learning-based classifier for UniProtKB entry publications

scientific article published on 01 January 2020

UniRule: a unified rule resource for automatic annotation in the UniProt Knowledgebase

scientific article published on 12 May 2020

UniRule: a unified rule resource for automatic annotation in the UniProt Knowledgebase

scientific article published in December 2020

Use of the protein ontology for multi-faceted analysis of biological processes: a case study of the spindle checkpoint

scientific article published on 26 April 2013

Utilizing image and caption information for biomedical document classification

scientific article published on 12 July 2021

eFIP: a tool for mining functional impact of phosphorylation from literature

scientific article published on January 2011

eGenPub, a text mining system for extending computationally mapped bibliography for UniProt Knowledgebase by capturing centrality

scientific article published in January 2017

iPTMnet: Integrative Bioinformatics for Studying PTM Networks

scientific article published on January 2017

iPTMnet: an integrated resource for protein post-translational modification network discovery

scientific article

iTextMine: integrated text-mining system for large-scale knowledge extraction from the literature

scientific article published on 01 January 2018

miRTex: A Text Mining System for miRNA-Gene Relation Extraction

scientific article

pGenN, a gene normalization tool for plant genes and proteins in scientific literature

scientific article published on 10 August 2015

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