List of works by Paula M. Mabee

500,000 fish phenotypes: The new informatics landscape for evolutionary and developmental biology of the vertebrate skeleton

scientific article (publication date: June 2012)

A <scp>FAIR</scp> and modular image‐based workflow for knowledge discovery in the emerging field of imageomics

scientific article published on 22 April 2024

A Logical Model of Homology for Comparative Biology

scientific article published on 01 March 2020

A logical model of homology for comparative biology

scientific article published on 26 March 2019

A unified anatomy ontology of the vertebrate skeletal system

scientific article (publication date: 2012)

AN EMPIRICAL REJECTION OF THE ONTOGENETIC POLARITY CRITERION

article

AN EXPERIMENTAL STUDY OF INTRASPECIFIC VARIATION, DEVELOPMENTAL TIMING, AND HETEROCHRONY IN FISHES

article

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

scientific article published on 17 January 2013

Annotation of phenotypes using ontologies: a Gold Standard for the training and evaluation of natural language processing systems

Annotation of phenotypes using ontologies: a gold standard for the training and evaluation of natural language processing systems

scientific article published on 01 January 2018

Annotation of phenotypic diversity: decoupling data curation and ontology curation using Phenex

scientific article

Answering Research Questions Using Semantic Traits

scientific article published in 2019

Assessing Bayesian Phylogenetic Information Content of Morphological Data Using Knowledge From Anatomy Ontologies

scientific article published on 10 March 2022

Automated Integration of Trees and Traits: A Case Study Using Paired Fin Loss Across Teleost Fishes.

scientific article published on 9 January 2018

Building a Global Ecosystem Research Infrastructure to Address Global Grand Challenges for Macrosystem Ecology

scientific article published in May 2022

CARO – The Common Anatomy Reference Ontology

article

CharaParser+EQ: Performance evaluation without gold standard

article by Hong Cui et al published 2015 in Proceedings of the Association for Information Science and Technology

Coding Polymorphic Data: Examples from Allozymes and Ontogeny

scientific article published in 1993

Connecting evolutionary morphology to genomics using ontologies: a case study from Cypriniformes including zebrafish

scientific article published in September 2007

Corrigendum: The Extended Specimen Network: A Strategy to Enhance US Biodiversity Collections, Promote Research and Education

scientific article published on 13 January 2020

Data Sources for Trait Databases: Comparing the Phenomic Content of Monographs and Evolutionary Matrices

scientific article

Development of the cranium and paired fins in Betta splendens (Teleostei: Percomorpha): Intraspecific variation and interspecific comparisons

scientific article published on 01 March 1996

Development of the cranium and paired fins in the zebrafish Danio rerio (Ostariophysi, Cyprinidae)

scientific article published on 01 August 1996

Development of the mandibular, hyoid arch and gill arch skeleton in the Chinese barb Puntius semifasciolatus: comparisons of ossification sequences among Cypriniformes

scientific article published in July 2012

Development of the paired fins in the paddlefish, Polyodon spathula.

scientific article published in September 2004

Development of the pharyngeal arch skeleton in Catostomus commersonii (Teleostei: Cypriniformes).

scientific article published in March 2009

Developmental Data and Phylogenetic Systematics: Evolution of the Vertebrate Limb

scientific article published on 13 March 2006

Developmental Data and Phylogenetic Systematics: Evolution of the Vertebrate Limb1

scholarly article by Paula M. Mabee published October 2000 in American Zoologist

Developmental morphology of the axial skeleton of the zebrafish, Danio rerio (Ostariophysi: Cyprinidae).

scientific article published on November 2003

Discovering Novel Biological Traits From Images Using Phylogeny-Guided Neural Networks

scientific article published on 04 August 2023

Early developmental plasticity and integrative responses in arctic charr (Salvelinus alpinus): effects of water velocity on body size and shape

scientific article published in July 2007

Effect of Clearing and Staining on Fish Length

Emerging semantics to link phenotype and environment

scientific article

Evolution of Pigment Pattern Development in Centrarchid Fishes

article

Evolution of median fin modules in the axial skeleton of fishes.

scientific article published in August 2002

Evolutionary characters, phenotypes and ontologies: curating data from the systematic biology literature

scientific article (publication date: 20 May 2010)

Expression of bmp2a and bmp2b in late-stage zebrafish median fin development.

scientific article published in December 2004

Extending U.S. Biodiversity Collections to Address National Challenges

scientific article published in 2019

Finding our way through phenotypes

scientific article

Founding editorial: embryology--an integrated approach.

scientific article published on 26 October 2001

Gdf5 is expressed in the developing skeleton of median fins of late-stage zebrafish, Danio rerio

scientific article published on 23 November 2001

Gene expression patterns underlying proximal-distal skeletal segmentation in late-stage zebrafish, Danio rerio

scientific article published in November 2007

Gill-arch musculature of the quillback carpiodes cyprinus (cypriniformes: catostomidae) with a comparison to cyprinids

scientific article published on 21 May 2012

Integrating Evolution and Development: The Need for Bioinformatics in Evo-Devo

article

Integration of anatomy ontology data with protein-protein interaction networks improves the candidate gene prediction accuracy for anatomical entities

scientific article published on 07 October 2020

Morphology of the Hatching Glands in Betta splendens (Teleostei: Perciformes)

Moving the mountain: analysis of the effort required to transform comparative anatomy into computable anatomy

scientific article

Muscle Logic: New Knowledge Resource for Anatomy Enables Comprehensive Searches of the Literature on the Feeding Muscles of Mammals

scientific article

Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology

scientific article

Phenex: ontological annotation of phenotypic diversity

scientific article (publication date: 5 May 2010)

Phenoscape: Identifying Candidate Genes for Evolutionary Phenotypes

scientific article

Phenoscape: Ontologies for Large Multi-species Phenotype Datasets

Phenoscape: Ontologies for Large Multi-species Phenotype Datasets

scientific article published on 14 August 2009

Phenoscape: Semantic analysis of organismal traits and genes yields insights in evolutionary biology

scholarly article published 13 June 2018

Phenoscape: Semantic analysis of organismal traits and genes yields insights in evolutionary biology

article

Phenotype Ontology Research Coordination Network meeting report: creating a community network for comparing and leveraging phenotype-genotype knowledge across species

scientific article published on 20 July 2012

Phenotype ontologies: the bridge between genomics and evolution

scientific article published on 09 April 2007

Publisher Correction: Open Science principles for accelerating trait-based science across the Tree of Life

scientific article published on 01 April 2020

REASSESSING THE ONTOGENETIC CRITERION: A RESPONSE TO PATTERSON

scientific article published in 1996

Removing Finalism from Developmental Biology

Segmentation and fusion on the midline: basibranchial homologies in cypriniform fishes.

scientific article published on 28 March 2012

Supraneural and Predorsal Bones in Fishes: Development and Homologies

article

The Extended Specimen Network: A Strategy to Enhance US Biodiversity Collections, Promote Research and Education

scientific article published on 22 November 2019

The New “Just So” Stories

The Open Traits Network: Using Open Science principles to accelerate trait-based science across the Tree of Life ⬇️

scientific article published on 17 February 2020

The US National Ecological Observatory Network and the Global Biodiversity Framework: national research infrastructure with a global reach

scientific article published on 14 December 2023

The founding charter of the Omic Biodiversity Observation Network (Omic BON)

scientific article published in 2022

The teleost anatomy ontology: anatomical representation for the genomics age

scientific article

The vertebrate taxonomy ontology: a framework for reasoning across model organism and species phenotypes

scientific article

Thinking about Developmental Evolution

Toward Synthesizing Our Knowledge of Morphology: Using Ontologies and Machine Reasoning to Extract Presence/Absence Evolutionary Phenotypes across Studies

scientific article

Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon

scientific article

Using the phenoscape knowledgebase to relate genetic perturbations to phenotypic evolution

scientific article published on 28 July 2015

What is an anatomy ontology?

scientific article

rphenoscate: An R package for semantics‐aware evolutionary analyses of anatomical traits

scientific article published in 2023

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