Nicola J. Mulder

Orcid: 0000-0003-4905-0941

Affiliations:
  • University of Cape Town, South Africa


According to our database1, Nicola J. Mulder authored at least 70 papers between 2000 and 2024.

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Bibliography

2024
Advancing microbiome research through standardized data and metadata collection: introducing the Microbiome Research Data Toolkit.
Database J. Biol. Databases Curation, January, 2024

The African Human Microbiome Portal: a public web portal of curated metagenomic metadata.
Database J. Biol. Databases Curation, January, 2024

2023
Consent Codes: Maintaining Consent in an Ever-expanding Open Science Ecosystem.
Neuroinformatics, January, 2023

MetaNovo: An open-source pipeline for probabilistic peptide discovery in complex metaproteomic datasets.
PLoS Comput. Biol., 2023

2022
Correction: Ten simple rules for organizing a bioinformatics training course in low- and middle-income countries.
PLoS Comput. Biol., 2022

The Sickle Cell Disease Ontology: recent development and expansion of the universal sickle cell knowledge representation.
Database J. Biol. Databases Curation, 2022

2021
Using a multiple-delivery-mode training approach to develop local capacity and infrastructure for advanced bioinformatics in Africa.
PLoS Comput. Biol., 2021

Ten simple rules for organizing a bioinformatics training course in low- and middle-income countries.
PLoS Comput. Biol., 2021

Ten simple rules for developing bioinformatics capacity at an academic institution.
PLoS Comput. Biol., 2021

Data Management Plans in the genomics research revolution of Africa: Challenges and recommendations.
J. Biomed. Informatics, 2021

H3ABioNet genomic medicine and microbiome data portals hackathon proceedings.
Database J. Biol. Databases Curation, 2021

IHP-PING - generating integrated human protein-protein interaction networks on-the-fly.
Briefings Bioinform., 2021

Reviewing and assessing existing meta-analysis models and tools.
Briefings Bioinform., 2021

2020
FRANC: a unified framework for multi-way local ancestry deconvolution with high density SNP data.
Briefings Bioinform., 2020

2019
Ten simple rules for organizing a webinar series.
PLoS Comput. Biol., 2019

Advancing the international data science workforce through shared training and education.
F1000Research, 2019

Building Infrastructure for African Human Genomic Data Management.
Data Sci. J., 2019

Proposed Guideline for Minimum Information Stroke Research and Clinical Data Reporting.
Data Sci. J., 2019

The H3ABioNet helpdesk: an online bioinformatics resource, enhancing Africa's capacity for genomics research.
BMC Bioinform., 2019

GenGraph: a python module for the simple generation and manipulation of genome graphs.
BMC Bioinform., 2019

A comprehensive survey of models for dissecting local ancestry deconvolution in human genome.
Briefings Bioinform., 2019

2018
Strategies and opportunities for promoting bioinformatics in Zimbabwe.
PLoS Comput. Biol., 2018

The development and application of bioinformatics core competencies to improve bioinformatics training and education.
PLoS Comput. Biol., 2018

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics.
BMC Bioinform., 2018

Large-scale data-driven integrative framework for extracting essential targets and processes from disease-associated gene data sets.
Briefings Bioinform., 2018

Multi-stage Association Analysis of Glioblastoma Gene Expressions with Texture and Spatial Patterns.
Proceedings of the Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries, 2018

Relating connectivity changes in brain networks to genetic information in Alzheimer patients.
Proceedings of the 15th IEEE International Symposium on Biomedical Imaging, 2018

2017
Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network.
PLoS Comput. Biol., 2017

Designing a course model for distance-based online bioinformatics training in Africa: The H3ABioNet experience.
PLoS Comput. Biol., 2017

Ten simple rules for forming a scientific professional society.
PLoS Comput. Biol., 2017

Four simple recommendations to encourage best practices in research software.
F1000Research, 2017

Genomic Research Data Generation, Analysis and Sharing - Challenges in the African Setting.
Data Sci. J., 2017

A multi-scenario genome-wide medical population genetics simulation framework.
Bioinform., 2017

Gene Ontology semantic similarity tools: survey on features and challenges for biological knowledge discovery.
Briefings Bioinform., 2017

2016
Applying, Evaluating and Refining Bioinformatics Core Competencies (An Update from the Curriculum Task Force of ISCB's Education Committee).
PLoS Comput. Biol., 2016

The Development of Computational Biology in South Africa: Successes Achieved and Lessons Learnt.
PLoS Comput. Biol., 2016

A-DaGO-Fun: an adaptable Gene Ontology semantic similarity-based functional analysis tool.
Bioinform., 2016

ancGWAS: a post genome-wide association study method for interaction, pathway and ancestry analysis in homogeneous and admixed populations.
Bioinform., 2016

2015
A Quick Guide for Building a Successful Bioinformatics Community.
PLoS Comput. Biol., 2015

GOBLET: The Global Organisation for Bioinformatics Learning, Education and Training.
PLoS Comput. Biol., 2015

Bioinformatics Education - Perspectives and Challenges out of Africa.
Briefings Bioinform., 2015

2014
<i>PPI layouts</i>: BioJS components for the display of Protein-Protein Interactions.
F1000Research, 2014

A web-based protein interaction network visualizer.
BMC Bioinform., 2014

2013
DaGO-Fun: tool for Gene Ontology-based functional analysis using term information content measures.
BMC Bioinform., 2013

iAnn: an event sharing platform for the life sciences.
Bioinform., 2013

Best practices in bioinformatics training for life scientists.
Briefings Bioinform., 2013

Identification of All Exact and Approximate Inverted Repeats in Regular and Weighted Sequences.
Proceedings of the Engineering Applications of Neural Networks, 2013

2012
InterPro in 2011: new developments in the family and domain prediction database.
Nucleic Acids Res., 2012

Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation.
Database J. Biol. Databases Curation, 2012

A Topology-Based Metric for Measuring Term Similarity in the Gene Ontology.
Adv. Bioinformatics, 2012

2011
DAS Writeback: A Collaborative Annotation System.
BMC Bioinform., 2011

Investigating the effect of paralogs on microarray gene-set analysis.
BMC Bioinform., 2011

Dasty3, a WEB framework for DAS.
Bioinform., 2011

From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems.
Bioinform., 2011

Generation and Analysis of Large-Scale Data-Driven <i>Mycobacterium tuberculosis</i> Functional Networks for Drug Target Identification.
Adv. Bioinformatics, 2011

2009
InterPro: the integrative protein signature database.
Nucleic Acids Res., 2009

2007
New developments in the InterPro database.
Nucleic Acids Res., 2007

2005
InterProScan: protein domains identifier.
Nucleic Acids Res., 2005

InterPro, progress and status in 2005.
Nucleic Acids Res., 2005

2003
The Proteome Analysis database: a tool for the in silico analysis of whole proteomes.
Nucleic Acids Res., 2003

The InterPro Database, 2003 brings increased coverage and new features.
Nucleic Acids Res., 2003

The European Bioinformatics Institute's data resources.
Nucleic Acids Res., 2003

2002
Interactive InterPro-based comparisons of proteins in whole genomes.
Bioinform., 2002

InterPro: An Integrated Documentation Resource for Protein Families, Domains and Functional Sites
Briefings Bioinform., 2002

Applications of InterPro in Protein Annotation and Genome Analysis.
Briefings Bioinform., 2002

Automation of Protein Sequence Characterization and Its Application in Whole Proteome Analysis.
Proceedings of the Gene Regulations and Metabolism - Postgenomic Computational Approaches, 2002

2001
Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes.
Nucleic Acids Res., 2001

The InterPro database, an integrated documentation resource for protein families, domains and functional sites.
Nucleic Acids Res., 2001

2000
InterPro-an integrated documentation resource for protein families, domains and functional sites.
Bioinform., 2000

Proteome Analysis: Application of InterPro and CluSTr for the Functional Classification of Proteins in Whole Genomes.
Proceedings of the German Conference on Bioinformatics (GCB 2000), 2000


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