Author
University of California, San Francisco
Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.
3 papers
Recent·Most cited
Ali Poursina, Shayan Hajhashemi, Ali Saberi…·Hamed Shateri Najafabadi
This paper introduces scLSD, a thermodynamics-inspired model for cell differentiation that reconstructs differentiation trajectories and predicts fate commitment, outperforming existing methods.
Ali Saberi, Man Hung Choi, Shaopu Zhou…·Hani Goodarzi
The paper introduces Mach-1, an RNA foundation model that predicts transcriptome architecture from DNA sequence, validated through experimental perturbations and CRISPR editing.
Michael J. Apostolides, Jichen Wang, Ali Saberi…·Hamed Shateri Najafabadi
This paper introduces MPAQT, a framework that improves isoform quantification in bulk and single-cell RNA-seq by integrating short- and long-read data and using sequence-to-expression models.