Protein Functional Annotation and Databases

Providing the scientific community with a comprehensive, high-quality and freely accessible resource of protein sequence and functional information.

UniProt Consortium, supported by the National Human Genome Research Institute (NHGRI), National Institutes of Health, grant #U01 HG02712-04

Protein Ontology

Developing a Protein Ontology under the Open Biomedical Ontologies Foundry framework to capture knowledge representation of protein biology embedded in the scientific literature to facilitate pathway, network and disease modeling.

Protein Ontology Consortium, funded by the National Institute of General Medical Sciences (NIGMS), National Institutes of Health, grant #R01 GM080646-01

NECC Cyber-Enabled Research Project

Collaborative project to sequence the little skate, Leucoraja erinacea, genome. Project supports workforce development for next generation sequencing analysis and functional interpretation. This includes hosting bioinformatics workshops, where participants learn how to use common bioinformatics applications and gain experience completing hands-on exercises.

North East Cyberinfrastructure Consortium, Funded by NIH/NCRR, grant# 5 P20 RR016472.

Skate Genome Project


iProLink Text Mining Resource

The iProlink resource includes: BioThesaurus of gene/protein names that allows the identification of synonymous and ambiguous names and the RLIMS-P text mining system to extract phosphorylation information from Medline abstracts.

PIR team and Shanker

eGift: Extracting Genic Information From Text

Using natural language processing techniques to retrieve key terms relevant to a specific gene

Shanker and Schmidt

Omics Data Integration

iProClass and iProxpress provide rich protein annotation with data from over 100 molecular databases and the underlying data warehouse for gene/protein ID and name mapping and for functional profiling and pathway analysis of large-scale gene expression and proteomic data.

PIR team

Genome-Wide Association Studies in Chicken

Studying chicken genome-wide association using integrative genomics and systems biology approach

Chicken Obesity Gene Map

Cogburn and PIR team

VIROME: Viral Resource for Metagenome Exploration

An analysis pipeline and interactive web visualization environment for exploration of metagenomic data.

Wommack and Polson