Stephen A. Fisher

The paper introduces methods to scale up the Human Reference Atlas by aligning tissue datasets across reference systems and using millitomes for bulk registration.

The paper describes the HuBMAP framework for creating FAIR data through standardized metadata reporting across diverse assays and institutions.

This paper describes the construction and usage of the Human Reference Atlas (HRA) v2.0, which integrates multiscale data across 36 organs and provides tools for analysis and visualization.

The paper analyzes mtDNA SNVs in single mitochondria from mouse neurons and astrocytes, revealing cell-type-specific mutation patterns and purifying selection.

CHEX-seq identifies open-chromatin regions in fixed single cells, enabling spatial chromatin analysis in complex environments.

The paper introduces ORNASEQ, an ontology for capturing data provenance in RNA sequencing studies, and provides a sample dataset for developing provenance tools.

PIVOT provides an R-based application with a graphical interface to simplify transcriptomics data analysis for non-programmers by integrating multiple tools and enabling interactive exploration.

This study evaluates the performance of three scRNA-seq methods through controlled experiments, finding they reliably detect genes above 5-10 molecules with linear measurement transfer functions.