76 citations · 161 across the 17 of their papers we have counts for
20 papers
Ultrafast topological data analysis reveals pandemic-scale dynamics of convergent evolution
Michael Bleher, Lukas Hahn, Maximilian Neumann +6
Genome variants which re-occur independently across evolutionary lineages are key molecular signatures of adaptation. Inferring the dynamics of such genetic changes from pandemic-s…
MREC: a fast and versatile framework for aligning and matching point clouds with applications to single cell molecular data
Andrew J. Blumberg, Mathieu Carriere, Michael A. Mandell +2
Comparing and aligning large datasets is a pervasive problem occurring across many different knowledge domains. We introduce and study MREC, a recursive decomposition algorithm for…
Topological Data Analysis of Single-cell Hi-C Contact Maps
Mathieu Carriere, Raul Rabadan
In this article, we show how the recent statistical techniques developed in Topological Data Analysis for the Mapper algorithm can be extended and leveraged to formally define and…
Dose-response modeling in high-throughput cancer drug screenings: An end-to-end approach
Wesley Tansey, Kathy Li, Haoran Zhang +4
Personalized cancer treatments based on the molecular profile of a patient's tumor are an emerging and exciting class of treatments in oncology. As genomic tumor profiling is becom…
The Holdout Randomization Test for Feature Selection in Black Box Models
Wesley Tansey, Victor Veitch, Haoran Zhang +2
We propose the holdout randomization test (HRT), an approach to feature selection using black box predictive models. The HRT is a specialized version of the conditional randomizati…
Quasi-universality in single-cell sequencing data
Luis Aparicio, Mykola Bordyuh, Andrew J. Blumberg +1
The development of single-cell technologies provides the opportunity to identify new cellular states and reconstruct novel cell-to-cell relationships. Applications range from under…