Lista de obras - Cathy H. Wu - Dominio Público Uruguay

A comparison study of biomedical short form definition detection algorithms

A comparison study on algorithms of detecting long forms for short forms in biomedical text

artículo científico publicado en 2007

A comprehensive protein-centric ID mapping service for molecular data integration

artículo científico publicado en 2011

A crowdsourcing open platform for literature curation in UniProt

artículo científico publicado en 2021

A fast Peptide Match service for UniProt Knowledgebase

artículo científico publicado en 2013

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

artículo científico publicado en 2013

A generalizable NLP framework for fast development of pattern-based biomedical relation extraction systems.

artículo científico publicado en 2014

Aberrant iron homeostasis, oxidative fiber enrichment, and activation of ketogenesis in muscle tissue of ISCU Myopathy patients.

artículo científico publicado en 2012

Accomplishments and challenges in literature data mining for biology

artículo científico publicado en 2002

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

An integrated approach for analyzing clinical genomic variant data from next-generation sequencing.

artículo científico publicado en 2015

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

artículo científico publicado en 2013

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

artículo científico

Artificial neural networks for molecular sequence analysis

artículo científico publicado en 1997

Automatic gene annotation using GO terms from cellular component domain

article

BioC interoperability track overview

artículo científico publicado en 2014

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

artículo científico publicado en 2016

BioC: a minimalist approach to interoperability for biomedical text processing

artículo científico publicado en 2013

BioCreative III interactive task: an overview

artículo científico publicado en 2011

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

artículo científico publicado en 2016

BioCreative-2012 virtual issue

artículo científico publicado en 2012

BioCreative-IV virtual issue

artículo científico publicado en 2014

BioTagger-GM: a gene/protein name recognition system.

artículo científico publicado en 2008

BioThesaurus: a web-based thesaurus of protein and gene names

scientific article published on 02 November 2005

Bioinformatic Databases

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

artículo científico publicado en 2015

Building a classifier for identifying sentences pertaining to disease-drug relationships in tardive dyskinesia

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

artículo científico publicado en 2012

Community annotation in biology

artículo científico publicado en 2010

Completing sparse and disconnected protein-protein network by deep learning

artículo científico publicado en 2018

Computational analysis and identification of amino acid sites in dengue E proteins relevant to development of diagnostics and vaccines.

artículo científico publicado en 2007

Computational clustering for viral reference proteomes.

artículo científico publicado en 2016

Computational identification of strain-, species- and genus-specific proteins

artículo científico publicado en 2005

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

artículo científico publicado en 2015

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

artículo científico publicado en 2013

Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition

artículo científico publicado en 2019

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

artículo científico publicado en 2015

DEXTER: Disease-Expression Relation Extraction from Text.

artículo científico publicado en 2018

Dependence network modeling for biomarker identification

artículo científico

Development of Bioinformatics Pipeline for Analyzing Clinical Pediatric NGS Data.

artículo científico publicado en 2015

Document Classification for Mining Host Pathogen Protein-Protein Interactions

Document classification for mining host pathogen protein-protein interactions

artículo científico publicado en 2010

DynGO: a tool for visualizing and mining of Gene Ontology and its associations

artículo científico publicado en 2005

Elevated FGF21 secretion, PGC-1α and ketogenic enzyme expression are hallmarks of iron-sulfur cluster depletion in human skeletal muscle

artículo científico publicado en 2013

Enhancing interacting residue prediction with integrated contact matrix prediction in protein-protein interaction.

scientific article published on 22 October 2016

Evolutionary Model Selection and Parameter Estimation for Protein-Protein Interaction Network Based on Differential Evolution Algorithm

artículo científico publicado en 2015

Evolutionary analysis and interaction prediction for protein-protein interaction network in geometric space

artículo científico publicado en 2017

Framework for a protein ontology

artículo científico publicado en 2007

Framework for a protein ontology

GeneFIND web server for protein family identification and information retrieval ⬇️

artículo científico publicado el 1 de enero de 1998

Human RhoGAP domain-containing proteins: structure, function and evolutionary relationships

artículo científico publicado en 2002

Inference of protein-protein interaction networks from multiple heterogeneous data

artículo científico publicado en 2016

Integrated Bioinformatics for Radiation-Induced Pathway Analysis from Proteomics and Microarray Data

artículo científico publicado en 2008

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

artículo científico publicado en 2007

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

artículo científico publicado en 2018

InterPro in 2011: new developments in the family and domain prediction database

artículo científico publicado en 2012

InterPro in 2011: new developments in the family and domain prediction database

artículo científico publicado en 2012

InterPro in 2017-beyond protein family and domain annotations

artículo científico publicado en 2016

InterPro, progress and status in 2005

artículo científico publicado en 2005

InterPro: the integrative protein signature database

artículo científico publicado en 2009

Mapping Gene/Protein Names in Free Text to Biomedical Databases

article

New developments in the InterPro database

artículo científico publicado en 2007

Omics-based molecular target and biomarker identification.

artículo científico publicado en 2011

Oncogenic fusion protein EWS-FLI1 is a network hub that regulates alternative splicing

artículo científico publicado en 2015

Overview of the BioCreative III Workshop

artículo científico publicado en 2011

Overview of the interactive task in BioCreative V

artículo científico publicado en 2016

PIRSF family classification system for protein functional and evolutionary analysis

artículo científico publicado en 2006

PIRSF: family classification system at the Protein Information Resource

artículo científico publicado en 2004

PIRSitePredict for protein functional site prediction using position-specific rules

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

Phylogenomic analysis of marine Roseobacters

artículo científico publicado en 2010

Plant protein annotation in the UniProt knowledgebase

artículo científico publicado en 2005

Predicting ligand binding residues and functional sites using multipositional correlations with graph theoretic clustering and kernel CCA.

artículo científico publicado en 2012

Prediction of catalytic residues using Support Vector Machine with selected protein sequence and structural properties

artículo científico publicado en 2006

Prediction of contact matrix for protein–protein interaction ⬇️

artículo científico publicado el 15 de febrero de 2013

Prediction of residue-residue contact matrix for protein-protein interaction with Fisher score features and deep learning.

artículo científico publicado en 2016

Prepublication data sharing

artículo científico publicado en 2009

Protein Bioinformatics Databases and Resources.

artículo científico publicado en 2017

Protein Bioinformatics Infrastructure for the Integration and Analysis of Multiple High-Throughput "omics" Data

artículo científico publicado en 2010

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

artículo científico publicado en 2016

Protein Ontology: a controlled structured network of protein entities

artículo científico publicado en 2013

Protein bioinformatics databases and resources

artículo científico publicado en 2011

Protein classification artificial neural system ⬇️

artículo científico publicado el 1 de mayo de 1992

Protein family classification and functional annotation

artículo científico publicado en 2003

Protein name tagging guidelines: lessons learned

artículo científico publicado en 2005

Protein ontology on the semantic web for knowledge discovery

artículo científico publicado en 2020

Protein sequence databases

Protein-centric data integration for functional analysis of comparative proteomics data

artículo científico publicado en 2011

Protein-protein interaction prediction based on multiple kernels and partial network with linear programming.

artículo científico publicado en 2016

Proteomic analysis of pathways involved in estrogen-induced growth and apoptosis of breast cancer cells.

artículo científico publicado en 2011

Quantitative assessment of dictionary-based protein named entity tagging

artículo científico publicado en 2006

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

artículo científico publicado en 2015

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

artículo científico publicado en 2014

RNA-Seq Analysis of Abdominal Fat in Genetically Fat and Lean Chickens Highlights a Divergence in Expression of Genes Controlling Adiposity, Hemostasis, and Lipid Metabolism

artículo científico publicado en 2015

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

artículo científico publicado en 2012

Representative proteomes: a stable, scalable and unbiased proteome set for sequence analysis and functional annotation.

artículo científico publicado en 2011

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

artículo científico

Sequence signatures in envelope protein may determine whether flaviviruses produce hemorrhagic or encephalitic syndromes.

artículo científico publicado en 2009

SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes

artículo científico publicado en 2014

Software for pre-processing Illumina next-generation sequencing short read sequences.

artículo científico publicado en 2014

Structural and functional studies of S-adenosyl-L-methionine binding proteins: a ligand-centric approach

artículo científico publicado en 2013

Structure-guided rule-based annotation of protein functional sites in UniProt knowledgebase

artículo científico publicado en 2011

Substring selection for biomedical document classification

artículo científico publicado en 2006

Systems integration of biodefense omics data for analysis of pathogen-host interactions and identification of potential targets

artículo científico publicado en 2009

TGF-beta signaling proteins and the Protein Ontology

artículo científico publicado en 2009

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

Text mining for the biocuration workflow

artículo científico publicado en 2012

The InterPro protein families and domains database: 20 years on

artículo científico publicado en 2020

The InterPro protein families database: the classification resource after 15 years

artículo científico publicado en 2015

The Protein Information Resource

artículo científico publicado en 2003

The Protein Information Resource: an integrated public resource of functional annotation of proteins

artículo científico publicado en 2002

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

artículo científico publicado en 2010

The Universal Protein Resource (UniProt)

artículo científico publicado en 2005

The Universal Protein Resource (UniProt): an expanding universe of protein information

artículo científico publicado en 2006

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

artículo científico publicado en 2012

The human proteome project: Current state and future direction

artículo científico

The iProClass integrated database for protein functional analysis

artículo científico

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

artículo científico publicado en 2011

TnCentral: a Prokaryotic Transposable Element Database and Web Portal for Transposon Analysis

artículo científico publicado en 2021

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

artículo científico publicado en 2015

Transcription factors and genetic circuits orchestrating the complex, multilayered response of Clostridium acetobutylicum to butanol and butyrate stress.

artículo científico publicado en 2013

Transcriptional profiling of liver during the critical embryo-to-hatchling transition period in the chicken (Gallus gallus)

scientific article published on 21 September 2018

Tunable synthetic extracellular matrices to investigate breast cancer response to biophysical and biochemical cues

artículo científico publicado en 2019

Understanding ER+ Breast Cancer Dormancy Using Bioinspired Synthetic Matrices for Long-Term 3D Culture and Insights into Late Recurrence

artículo científico publicado en 2020

UniProt Genomic Mapping for Deciphering Functional Effects of Missense Variants

UniProt genomic mapping for deciphering functional effects of missense variants.

artículo científico publicado en 2019

UniProt: the Universal Protein knowledgebase

artículo científico publicado en 2004

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

artículo científico publicado en 2014

UniRef: comprehensive and non-redundant UniProt reference clusters

artículo científico publicado en 2007

Update on genome completion and annotations: Protein Information Resource

artículo científico publicado en 2004

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

artículo científico publicado en 2013

Using distant supervision to augment manually annotated data for relation extraction

artículo científico publicado en 2019

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

artículo científico publicado en 2011

eGARD: Extracting associations between genomic anomalies and drug responses from text.

artículo científico publicado en 2017

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

artículo científico publicado en 2017

iPTMnet: Integrative Bioinformatics for Studying PTM Networks

artículo científico

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

artículo científico publicado en 2017

iProClass: an integrated database of protein family, function and structure information

artículo científico publicado en 2003

iProLINK: an integrated protein resource for literature mining

artículo científico

iSimp in BioC standard format: enhancing the interoperability of a sentence simplification system

artículo científico publicado en 2014

iSimp: A sentence simplification system for biomedicail text

article

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

artículo científico publicado en 2018

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

artículo científico publicado en 2015

miRiaD: A Text Mining Tool for Detecting Associations of microRNAs with Diseases

artículo científico publicado en 2016

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

artículo científico publicado en 2015

piNET: a versatile web platform for downstream analysis and visualization of proteomics data

artículo científico publicado en 2020

Lista de obras de Cathy H. Wu

A comparison study of biomedical short form definition detection algorithms

A comparison study on algorithms of detecting long forms for short forms in biomedical text

A comprehensive protein-centric ID mapping service for molecular data integration

A crowdsourcing open platform for literature curation in UniProt

A fast Peptide Match service for UniProt Knowledgebase

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

A generalizable NLP framework for fast development of pattern-based biomedical relation extraction systems.

Aberrant iron homeostasis, oxidative fiber enrichment, and activation of ketogenesis in muscle tissue of ISCU Myopathy patients.

Accomplishments and challenges in literature data mining for biology

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

An integrated approach for analyzing clinical genomic variant data from next-generation sequencing.

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

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

Artificial neural networks for molecular sequence analysis

Automatic gene annotation using GO terms from cellular component domain

BioC interoperability track overview

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

BioC: a minimalist approach to interoperability for biomedical text processing

BioCreative III interactive task: an overview

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

BioCreative-2012 virtual issue

BioCreative-IV virtual issue

BioTagger-GM: a gene/protein name recognition system.

BioThesaurus: a web-based thesaurus of protein and gene names

Bioinformatic Databases

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

Building a classifier for identifying sentences pertaining to disease-drug relationships in tardive dyskinesia

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

Community annotation in biology

Completing sparse and disconnected protein-protein network by deep learning

Computational analysis and identification of amino acid sites in dengue E proteins relevant to development of diagnostics and vaccines.

Computational clustering for viral reference proteomes.

Computational identification of strain-, species- and genus-specific proteins

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

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

Coordination between TGF-β cellular signaling and epigenetic regulation during epithelial to mesenchymal transition

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

DEXTER: Disease-Expression Relation Extraction from Text.

Dependence network modeling for biomarker identification

Development of Bioinformatics Pipeline for Analyzing Clinical Pediatric NGS Data.

Document Classification for Mining Host Pathogen Protein-Protein Interactions

Document classification for mining host pathogen protein-protein interactions

DynGO: a tool for visualizing and mining of Gene Ontology and its associations

Elevated FGF21 secretion, PGC-1α and ketogenic enzyme expression are hallmarks of iron-sulfur cluster depletion in human skeletal muscle

Enhancing interacting residue prediction with integrated contact matrix prediction in protein-protein interaction.

Evolutionary Model Selection and Parameter Estimation for Protein-Protein Interaction Network Based on Differential Evolution Algorithm

Evolutionary analysis and interaction prediction for protein-protein interaction network in geometric space

Framework for a protein ontology

Framework for a protein ontology

GeneFIND web server for protein family identification and information retrieval ⬇️

Human RhoGAP domain-containing proteins: structure, function and evolutionary relationships

Inference of protein-protein interaction networks from multiple heterogeneous data

Integrated Bioinformatics for Radiation-Induced Pathway Analysis from Proteomics and Microarray Data

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

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

InterPro in 2011: new developments in the family and domain prediction database

InterPro in 2011: new developments in the family and domain prediction database

InterPro in 2017-beyond protein family and domain annotations

InterPro, progress and status in 2005

InterPro: the integrative protein signature database

Mapping Gene/Protein Names in Free Text to Biomedical Databases

New developments in the InterPro database

Omics-based molecular target and biomarker identification.

Oncogenic fusion protein EWS-FLI1 is a network hub that regulates alternative splicing

Overview of the BioCreative III Workshop

Overview of the interactive task in BioCreative V

PIRSF family classification system for protein functional and evolutionary analysis

PIRSF: family classification system at the Protein Information Resource

PIRSitePredict for protein functional site prediction using position-specific rules

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

Phylogenomic analysis of marine Roseobacters

Plant protein annotation in the UniProt knowledgebase

Predicting ligand binding residues and functional sites using multipositional correlations with graph theoretic clustering and kernel CCA.

Prediction of catalytic residues using Support Vector Machine with selected protein sequence and structural properties

Prediction of contact matrix for protein–protein interaction ⬇️

Prediction of residue-residue contact matrix for protein-protein interaction with Fisher score features and deep learning.

Prepublication data sharing

Protein Bioinformatics Databases and Resources.

Protein Bioinformatics Infrastructure for the Integration and Analysis of Multiple High-Throughput "omics" Data