Our Team
Our computational lab combines expertise in computational biology, machine learning, and cell biology to push the boundaries of image-based drug discovery, in collaboration with biologists who create samples, images, and other omics data.
Anne E. Carpenter
Principal InvestigatorProfessor, Biological Sciences and Computer Science
Leading the JUMP, OASIS, and VISTA consortia and the Cells to Cures Engine at Purdue University, coordinating large-scale collaborative research efforts across institutions and industry partners to harness image-based profiling for accelerating drug discovery.
Runxi Shen
Co-Principal InvestigatorResearch Assistant Professor, Biological Sciences
Developing computational methods for extracting meaningful features from cell images and multi-omics datasets, and applying them to biological discoveries, spanning representation learning, deep learning, and large-scale morphological profiling.
Shantanu Singh
AdvisorPrincipal Investigator, Broad Institute
I led the Carpenter-Singh Lab at the Broad Institute and am now an advisor to the Carpenter-Shen Lab.
Alán Fernando Muñoz González
Research ScientistCarpenter-Shen Lab
My interests lie in the interface of computer science, math, image analysis, and biology. I aim to develop tools and workflows to process high throughput imaging datasets, with special interest on applying computational methods on live microscopy data. I am also keen on extracting biological insights from high content microscopy, even when using deep learning tools.
Jonne Rietdijk
Postdoctoral FellowCo-mentored w/ Ewald Lab, EMBL-EBI
My interests span computational biology, toxicology, and pharmacology. I focus on using Cell Painting and multi-omics integration to predict toxicity endpoints and elucidate the molecular mechanisms underlying diverse toxic responses.
Johan Fredin Haslum
Postdoctoral FellowCarpenter-Shen Lab
I am interested in applying and developing machine learning methods for analyzing and representing the rich information captured in high throughput imaging datasets.
Kazumasa Shimofuruta
Visiting ScientistCarpenter-Shen Lab & ONO Pharma
My interest is in identifying drug discovery targets by combining various omics technologies, including imaging, with AI. I am in charge of analysis for the VISTA Consortium, exploring approaches to rare diseases using image analysis.
Yiran Tao
PhD StudentTegtmeyer & Carpenter-Shen Lab
My research interests lie at the intersection of neurodevelopment, stem cell biology, and image-based profiling. I use human iPSC-derived neuronal models and Cell Painting to study morphological variation across neuronal identities and developmental states, with the long-term goal of building a reference framework for interpreting morphological phenotypes in human neural models.
Salwa Saleem
Research Operations AdministratorCarpenter-Shen Lab
I keep the lab's operations running smoothly so researchers can focus on their science. My background spans administrative operations, financial management, and cross-functional coordination across academia, healthcare, e-commerce. I hold an MSc in International Business Administration (Information and Operations Management) and an MBA in Finance. Outside of work, you'll find me baking or out on a walk/run.
Bryan Lye
Visiting ScholarCarpenter-Shen Lab
My research focuses on developing multimodal machine learning approaches for predicting synergistic cancer drug combinations. My work explores how chemical structure, gene expression, and high-content image-based profiling can be combined to better understand drug response, with a particular focus on whether treatment-induced cellular morphology captures complementary biological information that can support more robust and interpretable predictions of drug synergy.