Ben Lengerich

Research Interests: Motivated by the promise of precision medicine and focused on methodology for uncovering meaningful patterns from complex data, which often contain heterogeneous samples with conflicting patterns. Currently, I'm working on designing methods to interpret medical models and to allow model parameters to change between samples.

List of Publications

Possibly more updated lists can be found on Google Scholar, Semantic Scholar, or DBLP.

Journal Article and Conference Proceedings

Purifying Interaction Effects with the Functional ANOVA: An Efficient Algorithm for Recovering Identifiable Additive Models
Benjamin J. Lengerich, Sarah Tan, Chun-Hao Chang, Giles Hooker, Rich Caruana
Abstract Pre-print Paper Cite
AISTATS 2020
Learning Sample-Specific Models with Low-Rank Personalized Regression
Benjamin J. Lengerich, Bryon Aragam, Eric P. Xing
Abstract Pre-print Paper Poster Code Cite
NeurIPS 2019
Precision Lasso: Accounting for Correlations and Linear Dependencies in High-Dimensional Genomic Data
Haohan Wang, Benjamin J. Lengerich, Bryon Aragam, Eric P. Xing
Abstract Paper Code Cite
Bioinformatics 2018
Retrofitting Distributional Embeddings to Knowledge Graphs with Functional Relations
Benjamin J. Lengerich, Andrew L. Maas, Christopher Potts
Abstract Paper Pre-print Code
COLING 2018
Personalized Regression Enables Sample-Specific Pan-Cancer Analysis
Benjamin J. Lengerich, Bryon Aragam, Eric P. Xing
Abstract Paper Pre-print Slides Video Code Cite
ISMB 2018
Opportunities And Obstacles For Deep Learning In Biology And Medicine
Ching et al.
Abstract Paper Pre-print Press
Journal of the Royal Society Interface, 2018
Experimental and Computational Mutagenesis To Investigate the Positioning of a General Base within an Enzyme Active Site
Jason P. Schwans, Philip Hanoian, Benjamin J. Lengerich, Fanny Sunden, Ana Gonzalez, Yingssu Tsai, Sharon Hammes-Schiffer, Daniel Herschlag
Abstract Paper
Biochemistry, 2014

Working Pre-Prints

Disentangling Increased Testing from Covid-19 Epidemic Spread
Benjamin J. Lengerich, Willie Neiswanger, Eugene J. Lengerich, Eric P. Xing
Abstract Pre-print
Medrxiv 2020
On Dropout, Overfitting, and Interaction Effects in Deep Neural Networks
Benjamin J. Lengerich, Eric P. Xing, Rich Caruana
Abstract Pre-print
Arxiv 2020
Discriminative Subtyping of Lung Cancers from Histopathology Images via Contextual Deep Learning
Benjamin J. Lengerich*, Maruan Al-Shedivat, Amir Alavi, Jennifer Williams, Sami Labbaki, Eric P. Xing
Abstract Pre-print
Medrxiv 2020
How Interpretable and Trustworthy are GAMs?
Chun-Hao Chang, Sarah Tan, Ben Lengerich, Anna Goldenberg, Rich Caruana
Abstract Pre-print
Arxiv 2020

Archived Works

Differential Principal Components reveal patterns of differentiation in case/control studies
Benjamin J. Lengerich, Eric P. Xing
Abstract Paper Code Cite
BioRxiv 2019
Hybrid Subspace Learning for High-Dimensional Genomic Data
Micol Marchetti-Bowick, Benjamin J. Lengerich, Ankur Parikh, Eric P. Xing
Abstract Pre-print
Arxiv 2018