Community Tools

Genitourinary Development

Tools and Plugins:

• Void Whizzard: This FIJI plugin facilitates consistently and rapidly analysis of images from the Void Spot Assay (VSA). (Developed by the Vezina group.)

Cellular Atlases and Exploration Tools:

• Atlas of healthy and injured cell states and niches in the human kidney: Single-cell and single-nucleus assays for a broad spectrum of healthy reference and disease kidneys.

• Azimuth :: Human Kidney Reference: Web app for reference-based single-cell analysis from the Human BioMolecular Atlas Program (HuBMAP).

• Kidney Cell Explorer: A shiny app to explore an adult mouse kidney single cell dataset. From the McMahon Lab (USC Stem Cell, University of Southern California).

• Kidney Interactive Transcriptomics: Searchable web tool for gene expression across human kidney samples. From the Humphreys Lab (Washington University in St. Louis).

• Kidney Tissue Atlas Explorer: Search tool for ‘omics’ technologies data from the Kidney Precision Medicine Project (KPMP).

• PIVOT: Platform for interactive RNA-Seq data analysis and visualization. From the Kim Lab (University of Pennsylvania).

Genitourinary Disease

Research and Education:

• NIDDK - Kidney Disease Research: Description of the scientific areas in which NIDDK funds research on kidney disease.

• National Kidney Disease Education Program (NKDEP): Initiative of the NIDDK to educate about kidney disease.

• The GATACA GUDMAP Gene Explorer at Cincinnati Children’s Hospital Medical Center: A tool for the identification and analysis of genes responsible for functions and diseases of the genitourinary system.

Organizations and Foundations:

• National Kidney Foundation: Organization dedicated to preventing kidney disease and improving the health of those affected by it.

• UK National Kidney Federation: Charity in the UK promoting renal medical practice and supporting kidney patients.

• Polycystic Kidney Disease Foundation: Organization dedicated to fighting PKD and improving the lives of those affected.

Gene Expression

Gene Expression Repositories and Tools:

• GenePaint: A digital atlas of gene expression patterns in the mouse.

• Gene Expression Omnibus (GEO): Gene expression/molecular abundance repository supporting MIAME-compliant data.

• Gene Expression Database (GXD): Community resource for gene expression information from the mouse.

• ToppGene Suite at Cincinnati Children’s Hospital Medical Center: Portal for gene list enrichment analysis.

• Kidney-Omics Databases: Links to transcriptomic and proteomic databases for renal tubule epithelia. From Mark Knepper (Epithelial Systems Biology Laboratory, NHLBI).