Mansooreh Ahmadian

Large-scale automated detection reveals pervasive sex imbalance in biomedical research

This paper quantifies sex imbalance in biomedical research by analyzing transcriptome samples and study metadata, revealing male-skewed representation in many disease areas.

Annotating publicly-available samples and studies using interpretable modeling of unstructured metadata

This paper introduces txt2onto 2.0, a method for annotating biomedical metadata with disease and tissue terms using interpretable machine learning, showing improved performance over its predecessor.

FunSpace: A functional and spatial analytic approach to cell imaging data using entropy measures

The paper introduces FunSpace, a method using spatial entropy and functional principal component analysis to assess spatial heterogeneity in tumor microenvironments and its impact on survival.

A Platform-Independent Framework for Phenotyping of Multiplex Tissue Imaging Data

The paper introduces a platform-independent preprocessing framework for multiplex tissue imaging data to improve cross-platform consistency and reliability.

A Hybrid Stochastic Model of the Budding Yeast Cell Cycle

This paper develops a hybrid stochastic model to study noise effects on budding yeast cell cycle control, achieving efficient simulations matching experimental data.