Christopher J. Mungall

Christopher J. Mungall's AcademicInfluence.com Rankings

Computer Science

#8323

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#8750

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Database

#5344

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#5546

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computer-science Degrees

Christopher J. Mungall

Biology

#11733

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#15155

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Bioinformatics

#140

World Rank

#142

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Computational Biology

#255

World Rank

#256

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biology Degrees

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Computer Science
Biology

Christopher J. Mungall's Degrees

PhD Bioinformatics Stanford University
Masters Computer Science Stanford University
Bachelors Computer Science Stanford University

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Christopher J. Mungall's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

Genome sequence of the human malaria parasite Plasmodium falciparum (2002) (4255)
The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration (2007) (2558)
Gene Ontology Consortium: The Gene Ontology (GO) database and informatics resource (2004) (2444)
An atlas of active enhancers across human cell types and tissues (2014) (2106)
The Bioperl toolkit: Perl modules for the life sciences. (2002) (1700)
A promoter-level mammalian expression atlas (2014) (1664)
AmiGO: online access to ontology and annotation data (2008) (1558)
The Gene Ontology resource: enriching a GOld mine (2020) (1508)
The Gene Ontology Resource: 20 years and still GOing strong (2019) (1467)
The generic genome browser: a building block for a model organism system database. (2002) (1223)
Relations in biomedical ontologies (2005) (1106)
Tools for neuroanatomy and neurogenetics in Drosophila (2008) (874)
The Human Phenotype Ontology project: linking molecular biology and disease through phenotype data (2013) (789)
The Sequence Ontology: a tool for the unification of genome annotations (2005) (788)
The Gene Ontology project in 2008 (2007) (741)
The Human Phenotype Ontology in 2017 (2016) (640)
JBrowse: a next-generation genome browser. (2009) (621)
Gateways to the FANTOM5 promoter level mammalian expression atlas (2015) (611)
Uberon, an integrative multi-species anatomy ontology (2012) (542)
Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data (2014) (521)
GOATOOLS: A Python library for Gene Ontology analyses (2018) (510)
Gene Ontology Annotations and Resources (2012) (503)
Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells (2015) (502)
Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources (2018) (481)
The Gene Ontology in 2010: extensions and refinements (2009) (449)
Annotation of the Drosophila melanogaster euchromatic genome: a systematic review (2002) (376)
The Matchmaker Exchange: A Platform for Rare Disease Gene Discovery (2015) (375)
The Human Phenotype Ontology in 2021 (2020) (373)
An integrated expression atlas of miRNAs and their promoters in human and mouse (2017) (361)
Linking Human Diseases to Animal Models Using Ontology-Based Phenotype Annotation (2009) (311)
Integrating phenotype ontologies across multiple species (2010) (305)
Improved exome prioritization of disease genes through cross-species phenotype comparison (2014) (300)
Finding Our Way through Phenotypes (2015) (284)
The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species (2016) (269)
Heterochromatic sequences in a Drosophila whole-genome shotgun assembly (2002) (260)
A Chado case study: an ontology-based modular schema for representing genome-associated biological information (2007) (246)
The environment ontology: contextualising biological and biomedical entities (2013) (244)
The FlyBase database of the Drosophila Genome Projects and community literature. (2002) (230)
The Gene Ontology: enhancements for 2011 (2011) (211)
The Release 5.1 Annotation of Drosophila melanogaster Heterochromatin (2007) (198)
The Human Phenotype Ontology: Semantic Unification of Common and Rare Disease (2015) (195)
Disease Model Discovery from 3,328 Gene Knockouts by The International Mouse Phenotyping Consortium (2017) (190)
A Whole-Genome Analysis Framework for Effective Identification of Pathogenic Regulatory Variants in Mendelian Disease. (2016) (183)
National Center for Biomedical Ontology: advancing biomedicine through structured organization of scientific knowledge. (2006) (182)
The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses (2012) (171)
Gene Ontology Consortium : going forward The Gene Ontology (2015) (169)
The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability (2016) (168)
Assessing the impact of comparative genomic sequence data on the functional annotation of the Drosophila genome (2002) (154)
Global biotic interactions: An open infrastructure to share and analyze species-interaction datasets (2014) (153)
High-performance web services for querying gene and variant annotation (2016) (150)
The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation (2016) (149)
The Gene Ontology's Reference Genome Project: A Unified Framework for Functional Annotation across Species (2009) (147)
Logical Development of the Cell Ontology (2011) (141)
Phenotype ontologies: the bridge between genomics and evolution. (2007) (140)
Cross-product extensions of the Gene Ontology (2009) (137)
Ontobee: A Linked Data Server and Browser for Ontology Terms (2011) (137)
The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species (2019) (131)
Obol: Integrating Language and Meaning in Bio-Ontologies (2004) (129)
Deletions of chromosomal regulatory boundaries are associated with congenital disease (2014) (128)
How many rare diseases are there? (2019) (127)
PhenoDigm: analyzing curated annotations to associate animal models with human diseases (2013) (126)
Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon (2014) (118)
CARO - The Common Anatomy Reference Ontology (2008) (115)
Alliance of Genome Resources Portal: unified model organism research platform (2019) (113)
The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics (2017) (113)
Ontobee: A linked ontology data server to support ontology term dereferencing, linkage, query and integration (2016) (111)
Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data (2017) (110)
Standardized description of scientific evidence using the Evidence Ontology (ECO) (2014) (107)
On the Use of Gene Ontology Annotations to Assess Functional Similarity among Orthologs and Paralogs: A Short Report (2012) (102)
Evolution of the Sequence Ontology terms and relationships (2009) (101)
Survey-based naming conventions for use in OBO Foundry ontology development (2009) (94)
Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals (2016) (91)
CLO: The cell line ontology (2014) (91)
Entity/quality-based logical definitions for the human skeletal phenome using PATO (2009) (88)
Ontologies as integrative tools for plant science. (2012) (87)
Construction and accessibility of a cross-species phenotype ontology along with gene annotations for biomedical research. (2013) (85)
Large-Scale Trends in the Evolution of Gene Structures within 11 Animal Genomes (2006) (84)
VO: Vaccine Ontology (2009) (84)
A method for increasing expressivity of Gene Ontology annotations using a compositional approach (2014) (83)
ROBOT: A Tool for Automating Ontology Workflows (2019) (83)
Computational evaluation of exome sequence data using human and model organism phenotypes improves diagnostic efficiency (2015) (82)
The ARKdb: genome databases for farmed and other animals (2001) (69)
MouseFinder: Candidate disease genes from mouse phenotype data (2012) (67)
Navigating the Phenotype Frontier: The Monarch Initiative (2016) (64)
A Whole-Genome Assembly of Drosophila (2000) (63)
Processing OWL2 Ontologies using Thea: An Application of Logic Programming (2009) (63)
Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology (2013) (59)
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture (2018) (59)
GOATOOLS: Tools for Gene Ontology (2015) (58)
Gene Ontology Causal Activity Modeling (GO-CAM) moves beyond GO annotations to structured descriptions of biological functions and systems (2019) (57)
ECO, the Evidence & Conclusion Ontology: community standard for evidence information (2018) (55)
MIRO: guidelines for minimum information for the reporting of an ontology (2018) (55)
The Gene Ontology (GO) Cellular Component Ontology: integration with SAO (Subcellular Anatomy Ontology) and other recent developments (2013) (52)
The Matchmaker Exchange API: Automating Patient Matching Through the Exchange of Structured Phenotypic and Genotypic Profiles (2015) (51)
Dead simple OWL design patterns (2017) (49)
The RNA Ontology (RNAO): An ontology for integrating RNA sequence and structure data (2009) (47)
Phenotypic overlap in the contribution of individual genes to CNV pathogenicity revealed by cross-species computational analysis of single-gene mutations in humans, mice and zebrafish (2012) (47)
Formalization of taxon-based constraints to detect inconsistencies in annotation and ontology development (2010) (46)
TermGenie – a web-application for pattern-based ontology class generation (2014) (46)
A Unified Anatomy Ontology of the Vertebrate Skeletal System (2012) (44)
Representing Phenotypes in OWL (2007) (44)
Mapping between the OBO and OWL ontology languages (2011) (43)
Hematopoietic cell types: Prototype for a revised cell ontology (2009) (41)
Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis. (2010) (40)
Improving ontologies by automatic reasoning and evaluation of logical definitions (2011) (38)
Use of Model Organism and Disease Databases to Support Matchmaking for Human Disease Gene Discovery (2015) (38)
KG-COVID-19: a framework to produce customized knowledge graphs for COVID-19 response (2020) (38)
Modelling kidney disease using ontology: insights from the Kidney Precision Medicine Project (2020) (37)
Uberon: towards a comprehensive multi-species anatomy ontology (2009) (36)
OBO Foundry in 2021: operationalizing open data principles to evaluate ontologies (2021) (36)
An improved ontological representation of dendritic cells as a paradigm for all cell types (2009) (35)
Semantic integration of clinical laboratory tests from electronic health records for deep phenotyping and biomarker discovery (2019) (35)
A strategy for building neuroanatomy ontologies (2012) (33)
Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology (2014) (33)
Ontologies for biologists: a community model for the annotation of genomic data. (2003) (32)
A Census of Disease Ontologies (2018) (31)
The Ontologies Community of Practice: A CGIAR Initiative for Big Data in Agrifood Systems (2020) (31)
Capturing phenotypes for precision medicine (2015) (30)
Design and implementation of a CORBA-based genome mapping system prototype (1998) (29)
Use of OWL within the Gene Ontology (2014) (28)
The Plant Ontology Facilitates Comparisons of Plant Development Stages Across Species (2019) (27)
Encoding Clinical Data with the Human Phenotype Ontology for Computational Differential Diagnostics (2019) (27)
Disease insights through cross-species phenotype comparisons (2015) (27)
The Gene Ontology’s Reference Genome Project: A Unified Framework for Functional Annotation across Species (2009) (26)
Construction and accessibility of a cross-species phenotype ontology along with gene annotations for biomedical research (2013) (26)
Experiences Using Logic Programming in Bioinformatics (2009) (26)
Plain-language medical vocabulary for precision diagnosis (2018) (26)
Obol: integrating language and meaning in bio-ontologies: Conference Papers (2004) (25)
Clinical interpretation of CNVs with cross-species phenotype data (2014) (24)
Mouse, man, and meaning: bridging the semantics of mouse phenotype and human disease (2009) (24)
The National Microbiome Data Collaborative: enabling microbiome science (2020) (24)
Harmonizing model organism data in the Alliance of Genome Resources (2022) (24)
The health care and life sciences community profile for dataset descriptions (2016) (22)
The Alliance of Genome Resources: Building a Modern Data Ecosystem for Model Organism Databases (2019) (22)
Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities (2021) (22)
FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation (2014) (21)
Genome-Wide Analysis of Human Disease Alleles Reveals That Their Locations Are Correlated in Paralogous Proteins (2008) (21)
Emerging semantics to link phenotype and environment (2015) (21)
Towards naming conventions for use in controlled vocabulary and ontology engineering (2009) (20)
k-BOOM: A Bayesian approach to ontology structure inference, with applications in disease ontology construction (2016) (19)
Biolink Model: A universal schema for knowledge graphs in clinical, biomedical, and translational science (2022) (19)
Gene Ontology Data Archive (2018) (19)
KG-COVID-19: A Framework to Produce Customized Knowledge Graphs for COVID-19 Response (2020) (18)
WebinTool: a generic Web to database interface building tool (1996) (18)
Representing Kidney Development Using the Gene Ontology (2014) (17)
ROBOT: A command-line tool for ontology development (2015) (17)
Continuous Integration of Open Biological Ontology Libraries (2012) (17)
Dataset Descriptions: HCLS Community Profile (2015) (17)
The GA4GH Phenopacket schema defines a computable representation of clinical data (2022) (16)
FAIR principles and the IEDB: short-term improvements and a long-term vision of OBO-foundry mediated machine-actionable interoperability (2018) (15)
The influence of disease categories on gene candidate predictions from model organism phenotypes (2014) (15)
Uberon, an integrative multi-species anatomy (2012) (15)
NSAID use and clinical outcomes in COVID-19 patients: A 38-center retrospective cohort study (2021) (14)
A Call for an Abductive Reasoning Feature in OWL-Reasoning Tools toward Ontology Quality Control (2008) (14)
Ontology based molecular signatures for immune cell types via gene expression analysis (2013) (14)
The Minimum Information about a Molecular Interaction CAusal STatement (MI2CAST) (2020) (14)
The Porifera Ontology (PORO): enhancing sponge systematics with an anatomy ontology (2014) (13)
Taking shortcuts with OWL using safe macros (2011) (13)
A Simple Standard for Sharing Ontological Mappings (SSSOM) (2021) (12)
ONTO-ToolKit: enabling bio-ontology engineering via Galaxy (2010) (12)
Reactome and the Gene Ontology: digital convergence of data resources (2021) (11)
A knowledge based approach to matching human neurodegenerative disease and animal models (2013) (11)
Planteome: A resource for Common Reference Ontologies and Applications for Plant Biology (2016) (10)
Modeling biochemical pathways in the gene ontology (2016) (10)
From SNOMED CT to Uberon: Transferability of evaluation methodology between similarly structured ontologies (2017) (10)
Use of animal models for exome prioritization of rare disease genes (2014) (10)
Mondo Disease Ontology: Harmonizing Disease Concepts Across the World (short paper) (2020) (10)
Ten Simple Rules for Biomedical Ontology Development (2016) (9)
The GA4GH Phenopacket schema: A computable representation of clinical data for precision medicine (2021) (9)
Ontology engineering (2010) (9)
Transforming the study of organisms: Phenomic data models and knowledge bases (2020) (9)
Novel and Emerging Capabilities that Can Provide a Holistic Understanding of the Plant Root Microbiome (2021) (9)
Environmental Semantics for Sustainable Development in an Interconnected Biosphere (2016) (9)
Cyclooxygenase inhibitor use is associated with increased COVID-19 severity (2021) (9)
Phenotype Ontologies Traversing All The Organisms (POTATO) workshop aims to reconcile logical definitions across species. Workshop Report (2018) (9)
Ontology Development Kit: a toolkit for building, maintaining and standardizing biomedical ontologies (2022) (8)
Semisubmersible Based Dry Tree Platform with Compliant Vertical Access Risers (2004) (8)
A Logical Model of Homology for Comparative Biology (2019) (8)
OBO & OWL: Roundtrip Ontology Transformations (2009) (7)
GraPE: fast and scalable Graph Processing and Embedding (2021) (6)
Unifying the identification of biomedical entities with the Bioregistry (2022) (6)
Building the OBO Foundry - One Policy at a Time (2011) (6)
Comparison of Ontology Mapping Techniques to Map Plant Trait Ontologies (2016) (6)
What's in a Genotype?: An Ontological Characterization for Integration of Genetic Variation Data (2013) (6)
MyGene.info and MyVariant.info: Gene and Variant Annotation Query Services (2015) (6)
FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation (2016) (6)
OPPL-Galaxy, a Galaxy tool for enhancing ontology exploitation as part of bioinformatics workflows (2013) (6)
ECO: the Evidence and Conclusion Ontology, an update for 2022 (2021) (5)
Investigating the importance of anatomical homology for cross-species phenotype comparisons using semantic similarity (2015) (5)
BioMake: a GNU make‐compatible utility for declarative workflow management (2017) (5)
Muscle Logic: New Knowledge Resource for Anatomy Enables Comprehensive Searches of the Literature on the Feeding Muscles of Mammals (2016) (5)
Arachne: an OWL RL Reasoner Applied to Gene Ontology Causal Activity Models (and Beyond) (2018) (5)
Sequence ontology terminology for gene regulation. (2021) (5)
The Environment Ontology – Linking Environmental Data (2009) (5)
Term Matrix: a novel Gene Ontology annotation quality control system based on ontology term co-annotation patterns (2020) (4)
Brain Data Standards Ontology: A data-driven ontology of transcriptomically defined cell types in the primary motor cortex (2021) (4)
NSAID use and clinical outcomes in COVID-19 patients: a 38-center retrospective cohort study (2022) (4)
KG-Microbe: A Reference Knowledge-Graph and Platform for Harmonized Microbial Information (2021) (4)
The NCBO OBOF to OWL Mapping (2009) (4)
Phenotype‐driven approaches to enhance variant prioritization and diagnosis of rare disease (2022) (3)
Distributed Cognition and Process Management Enabling Individualized Translational Research: The NIH Undiagnosed Diseases Program Experience (2016) (3)
SvAnna: efficient and accurate pathogenicity prediction of coding and regulatory structural variants in long-read genome sequencing (2021) (3)
The Linked Data Modeling Language (LinkML): A General-Purpose Data Modeling Framework Grounded in Machine-Readable Semantics (2021) (3)
A roadmap for the functional annotation of protein families: a community perspective (2022) (3)
String of PURLs - frugal migration and maintenance of persistent identifiers (2020) (3)
Enhancing the Human Phenotype Ontology for Use by the Layperson (2016) (3)
The Environmental Conditions, Treatments, and Exposures Ontology (ECTO): connecting toxicology and exposure to human health and beyond (2023) (2)
Correction for Vangay et al., “Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative’s Workshop and Follow-On Activities” (2021) (2)
“Opposite-of”-information improves similarity calculations in phenotype ontologies (2017) (2)
The Plant Trait Ontology Links Wheat Traits for Crop Improvement and Genomics (short paper) (2020) (2)
Ubergraph: integrating OBO ontologies into a unified semantic graph (2022) (2)
Challenges in Bioinformatics Workflows for Processing Microbiome Omics Data at Scale (2022) (2)
An algorithmic framework for isoform-specific functional analysis (2022) (2)
The Monarch Initiative: Insights across species reveal human disease mechanisms (2016) (2)
Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network (2021) (2)
Semantic linking of phenotypes and environments (2015) (2)
The Ontologies Community of Practice: An Initiative by the CGIAR Platform for Big Data in Agriculture (2020) (2)
10 Simple rules for design, provision, and reuse of persistent identifiers for life science data (2015) (2)
Tailoring the NCI Thesaurus for Use in The OBO Library (2017) (2)
GOTaxon: Representing the evolution of biological functions in the Gene Ontology (2018) (2)
obo-relations: 2015-10-29 release (2015) (2)
The Constrained Maximal Expression Level Owing to Haploidy Shapes Gene Content on the Mammalian X Chromosome (2015) (2)
What is an anatomy ontology? (2013) (2)
Perspectives for self-driving labs in synthetic biology. (2022) (2)
Processing phenotype data using the Phenopackets-API and PXFTools (2016) (2)
The BRAIN Initiative Cell Census Network Data Ecosystem: A User’s Guide (2022) (2)
Standardizing Ontology Workflows Using ROBOT (2018) (2)
Reasoning over Anatomical Homology in the Phenoscape KB (2018) (2)
10 Simple rules for design, provision, and reuse of identifiers for web-based life science data (2015) (2)
NLP and Phenotypes: using Ontologies to link Human Diseases to Animal Models (2008) (2)
Next-generation information systems for genomics (2011) (2)
The Gene Ontology (GO) Cellular Component Ontology: integration with SAO (Subcellular Anatomy Ontology) and other recent developments (2013) (1)
Supervised learning with word embeddings derived from PubMed captures latent knowledge about protein kinases and cancer (2021) (1)
Logic Programming for the Biomedical Sciences (2020) (1)
Development of an Ontology of Microbial Phenotypes (OMP) (2009) (1)
An Ontology-Based Approach to Linking Model Organisms and Resources to Human Diseases (2011) (1)
CLO: The cell line ontology (2014) (1)
Medical Action Ontology (MAxO) (2019) (1)
Posh - The Prolog OWL Shell (2011) (1)
Ontology based molecular signatures for immune cell types via gene expression analysis (2013) (1)
Brain Data Standards - A method for building data-driven cell-type ontologies (2022) (1)
Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon (2014) (1)
The influence of disease categories on gene candidate predictions from model organism phenotypes (2014) (1)
The Porifera Ontology (PORO): enhancing sponge systematics with an anatomy ontology (2014) (1)
The environment ontology: contextualising biological and biomedical entities (2013) (1)
uPheno 2: Framework for standardised representation of phenotypes across species (2019) (1)
Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology (2013) (1)
Methodphenotype ontologies across multiple species (2010) (1)
16 CARO — The Common Anatomy Reference Ontology (2007) (1)
Modularization for the Cell Ontology (2011) (1)
Revising the Cell Ontology (2011) (1)
Simple rules for sharing phylogenetic data (2014) (1)
GA4GH Phenopackets: A Practical Introduction (2022) (1)
Identifiers for the 21 st century : How to design , provision , and reuse identifiers to maximize data utility and impact (2016) (1)
The Planteome Project (2016) (1)
Deletions of chromosomal regulatory boundaries are associated with congenital disease (2014) (1)
A method for increasing expressivity of Gene Ontology annotations using a compositional approach (2014) (1)
Dead simple OWL design patterns (2017) (1)
Knowledge Beacons: Web services for data harvesting of distributed biomedical knowledge (2021) (1)
Formalization of Genome Interval Relations (2014) (1)
Method Relations in biomedical ontologies (2005) (1)
Mapping of glossary terms from the Flora of North America to the Plant Ontology enhances both resources (2012) (1)
Uberon, an integrative multi-species anatomy ontology (2012) (1)
OPPL-Galaxy, a Galaxy tool for enhancing ontology exploitation as part of bioinformatics workflows (2013) (1)
How many rare diseases are there? (2019) (1)
owlcollab/owltools: 2020-04-06 (2020) (1)
BioMake: a GNU Make-compatible utility for declarative workflow management (2016) (1)
Aligning the Human Phenotype and Mammalian Phenotype Ontology using Dead Simple Ontology Design Patterns (2017) (1)
cell-ontology: 2016-02-01 release (2016) (0)
Gateways to the FANTOM5 promoter level mammalian expression atlas (2015) (0)
Lawrence Berkeley National Laboratory Recent Work Title ROBOT : A Tool for Automating Ontology Workflows (2019) (0)
sdgio: 2016-02-04 (2016) (0)
Lawrence Berkeley National Laboratory Recent Work Title The environment ontology in 2016 : Bridging domains with increased scope , semantic density , and interoperation Permalink (2016) (0)
Edinburgh Research Explorer A strategy for building neuroanatomy ontologies. (2018) (0)
environmental-conditions: 2016-07-20 release (2016) (0)
phenoscape/phenoscape-owl-tools: Release v1.9.4 (2020) (0)
Increased Expressivity of Gene Ontology Annotations (2012) (0)
cephalopod-ontology: 2016-01-12 release (2016) (0)
Finding Our Way Through Phenotypes (2019) (0)
mme-apis: Matchmaker Exchange API v1.0 (2015) (0)
The Cell Ontology 2016: enhanced content, modularization, and ontology interoperability (2016) (0)
Example phenopacket containing one disease and two associations (2016) (0)
Structured prompt interrogation and recursive extraction of semantics (SPIRES): A method for populating knowledge bases using zero-shot learning (2023) (0)
Leveraging Ontologies within the National Microbiome Data Collaborative (2021) (0)
A simplified method for creating a cell cycle ontology for the laboratory mouse (2012) (0)
Processing GTEx for tissue-specific gene expression (2015) (0)
Computing on the anatomical form for disease discovery (338.1) (2014) (0)
/releases/2016-08-12/uberon.owl (2016) (0)
129. Standardization of cancer terminology in the Mondo Disease Ontology (2022) (0)
Recommendations for extending the GFF3 specification for improved interoperability of genomic data (2022) (0)
/releases/2017-12-01/uberon.owl (2017) (0)
Bringing Schemas to the Schemaless (2021) (0)
obo-relations: 2015-12-18 release (2015) (0)
The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation (2016) (0)
SWEET Ontology Suite v3.0.0: Development, Alignments and Use Cases (2018) (0)
The appendicular system in Uberon: changes 2013-2014 (2014) (0)
Aberystwyth Uberon, an integrative multi-species anatomy ontology (2012) (0)
Quick and Easy Genome Annotation Editing with Apollo (2020) (0)
evidenceontology: 2016-03-29 (2016) (0)
Creation and unification of development and life stage ontologies for animals (2022) (0)
cell-ontology: 2015-08-08 release (2015) (0)
ctenophore-ontology: 2016-07-20 release (2016) (0)
pato: 2016-05-22 release (2016) (0)
plant-ontology: Plant Ontology Release August 31, 2016 (2016) (0)
/releases/2016-10-23/uberon.owl (2016) (0)
bio-attribute-ontology: 2016-02-12 release (2016) (0)
The Noctua modeling tool (2016) (0)
Register for the Uberon workshop, April 5 & 6, Toronto (2014) (0)
obo-relations: 2016-05-13 release (2016) (0)
The Bioregistry: Unifying the Identification of Biomedical Entities through an Integrative, Open, Community-driven Metaregistry (2022) (0)
obo-relations: 2016-09-02 release (2016) (0)
The Ontology of Biological Attributes (OBA)-computational traits for the life sciences. (2023) (0)
The Gene Ontology knowledgebase in 2023 (2023) (0)
A free NCRR resource for finding and using human disease models (65.46) (2011) (0)
obo-relations: 2016-02-24 release (2016) (0)
Aberystwyth University Integrating phenotype ontologies across multiple species (2010) (0)
From baleen to cleft palate: an ontological exploration of evolution and disease (2014) (0)
Integrating neuroanatomies with Uberon (2014) (0)
sdgio: 2015-12-11 release (2015) (0)
Gene Ontology Signatures for Immune Cell-Types Inferred by Gene Expression Analysis (2011) (0)
KG-Hub - Building and Exchanging Biological Knowledge Graphs (2023) (0)
Welcome to our new website (2014) (0)
Lawrence Berkeley National Laboratory Recent Work Title Ontobee : A linked ontology data server to support ontology term dereferencing , linkage , query and integration Permalink (2016) (0)
Planteome Gene Annotation Enrichment Analysis (2016) (0)
Lawrence Berkeley National Laboratory Recent Work Title Gene Ontology Causal Activity (2019) (0)
ONTOLOGIES AS INTEGRATIVE TOOLS FOR PLANT SCIENCE 1 (2012) (0)
protege-tutorial v1.0 (2015) (0)
Querying Drosophila In-Situ Expression Data using SPARQL and D2RQ (2011) (0)
High-performance web services for querying gene and variant annotation (2016) (0)
evidenceontology: 2015-11-24 (2015) (0)
TermGenie – a web-application for pattern-based ontology class generation (2014) (0)
Phenopackets: An Ontology-Based Expressive Exchange Format for Phenotype and Trait Data (2017) (0)
Structuring phenotype data for invertebrate genomes (2015) (0)
Toward a minimal information reporting standard about new cell types (0)
cell-ontology: 2015-10-29 release (2015) (0)
Classifying Animal Breeds with the Vertebrate Breed Ontology (VBO) (0)
Use of Uberon within the ENCODE project (2015) (0)
Graph Chado Database (2017) (0)
/releases/2014-03-28/uberon (2014) (0)
An expectation–maximization framework for comprehensive prediction of isoform-specific functions (2023) (0)
sibo: 2015-06-15 release (2015) (0)
The Monarch Initiative: Semantic data integration across species and sources for disease discovery (2017) (0)
Tools for exploring mouse models of human disease (2016) (0)
/releases/2014-05-16/uberon (2014) (0)
TopAnat: GO-like enrichment of anatomy from expression patterns (2015) (0)
environmental-conditions v2016-05-11 (2016) (0)
evidenceontology: 2015-12-04 (2015) (0)
environmental-conditions: 2016-08-21 release (2016) (0)
Reclassification of Infectious Disease in the Mondo Disease Ontology (2021) (0)
GOATOOLS: A Python library for Gene Ontology analyses (2018) (0)
/releases/2017-02-05/uberon.owl (2017) (0)
envo: 2015-08-31 release (2015) (0)
The Ontology of Biological Attributes (OBA) - Computational Traits for the Life Sciences (2023) (0)
Proceedings of the Workshop on Bio-Ontologies, ISMB, Boston, July, 2010 (2010) (0)
Extension of Roles in the ChEBI Ontology (2020) (0)
environmental-conditions: 2016-08-08 release (2016) (0)
fungal-anatomy-ontology: 2016-08-24 release (2016) (0)
obo-relations: 2016-08-24 release (2016) (0)
WTFgenes: What's The Function of these genes? Static sites for model-based gene set analysis (2017) (0)
/releases/2014-04-10/uberon (2014) (0)
SvAnna: efficient and accurate pathogenicity prediction of coding and regulatory structural variants in long-read genome sequencing (2022) (0)
Knowledge Beacons: Web Service Workflow for FAIR Data Harvesting of Distributed Biomedical Knowledge (2020) (0)
2017-10-28 release: thagomizer (2017) (0)
Lawrence Berkeley National Laboratory Recent Work Title The Planteome database : An integrated resource for reference ontologies , plant genomics and phenomics Permalink (2017) (0)
cell-ontology: 2016-09-02 release (2016) (0)
A simple standard for ontological mappings 2022: updates of data model and outlook (2022) (0)
bio-attribute-ontology: 2016-03-05 release (2016) (0)
Monarch-Initiative/Mondo-Build: 2017-12-15 Release (2017) (0)
A Semantic Model Leveraging Pattern-based Ontology Terms to Bridge Environmental Exposures and Health Outcomes (2021) (0)
envo: 2015-12-18 release (2015) (0)
Decision letter: Wikidata as a knowledge graph for the life sciences (2019) (0)
Bgee release 13, including gene expression calls from 17 species (2014) (0)
Gene Ontology Causal Activity Modeling (GO-CAM) moves beyond GO annotations to structured descriptions of biological functions and systems (2019) (0)
Disease insights through cross-species phenotype comparisons (2015) (0)
Review for "A pipeline-friendly software tool for genome diagnostics to prioritize genes by matching patient symptoms to literature" (2019) (0)
Mondo: The world's disease concepts, unified (2020) (0)
A semantic framework leveraging pattern-based ontology terms to bridge environmental exposures and health outcomes (2021) (0)
goatools: GOATOOLS v0.6.4 (2016) (0)
Author Correction: Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network (2022) (0)
bio-attribute-ontology: 2015-09-15 release (2015) (0)
Ga4Gh/Mme-Apis: Matchmaker Exchange Api V1.1 (2017) (0)
plant-ontology: Plant Ontology Release August 30, 2016 (2016) (0)
obo-relations: 2016-06-15 release (2016) (0)
releases/2014-04-23/uberon (2014) (0)
oborel/obo-relations: release 2021-08-25 (2021) (0)
Plain-language medical vocabulary for precision diagnosis (2018) (0)
porifera-ontology: 2015-08-08 release (2015) (0)
Globalbioticinteractions/Jsonld-Template-Dataset: Prepare For Publication To Zenodo (2017) (0)
ascomycete-phenotype-ontology: v0.1 (2015) (0)
Perspective Finding Our Way through Phenotypes (2014) (0)
Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology (2014) (0)
Guidelines for reporting cell types: the MIRACL standard (2022) (0)
evidenceontology: 2016-04-06 release (2016) (0)
Node-degree aware edge sampling mitigates inflated classification performance in biomedical graph representation learning (2022) (0)
Monarch-Initiative/Mondo-Build: 2017-11-10 1.0 Release (2017) (0)
Using ontologies to define the relation between neurodegenerative disease and associated animal model phenotypes (1970) (0)
Planteome: ontology-based services for querying and mining plant genomic and phenomic data (2017) (0)
Uberon, An Integrative Gross Anatomy Ontology For Animals (2013) (0)
VO Modeling and Comparison of Vaccines (2009) (0)
Databases and ontologies Reactome and the Gene Ontology: Digital con-vergence of data resources (2021) (0)
MIRO: guidelines for minimum information for the reporting of an ontology (2018) (0)
obo-relations: 2015-10-28 release (2015) (0)
Organism System Database The Generic Genome Browser: A Building Block for a Model (2006) (0)
bio-attribute-ontology: 2016-03-07 release (2016) (0)
ROBOT: A Tool for Automating Ontology Workflows (2019) (0)
Author Correction: Brain Data Standards - A method for building data-driven cell-type ontologies (2023) (0)
Gene Ontology Data Reference (2018) (0)

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