Jeremy Zucker

According to our database, Jeremy Zucker authored at least 13 papers between 2006 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

A Deep Multimodal Representation Learning Framework for Accurate Molecular Properties Prediction.

Yuxin Yang, Zixu Wang, Pegah Ahadian, Abby Jerger, Jeremy Zucker, Song Feng, Feixiong Cheng, Qiang Guan

Proceedings of the Great Lakes Symposium on VLSI 2024, 2024

2023

Optimal adjustment sets for causal query estimation in partially observed biomolecular networks.

Sara Mohammad Taheri, Vartika Tewari, Rohan Kapre, Ehsan Rahiminasab, Karen Sachs, Charles Tapley Hoyt, Jeremy Zucker, Olga Vitek

Bioinform., 2023

2021

Leveraging Structured Biological Knowledge for Counterfactual Inference: A Case Study of Viral Pathogenesis.

Jeremy Zucker, Kaushal Paneri, Sara Mohammad Taheri, Somya Bhargava, Pallavi Kolambkar, Craig Bakker, Jeremy Teuton, Charles Tapley Hoyt, Kristie L. Oxford, Robert Osazuwa Ness, Olga Vitek

IEEE Trans. Big Data, 2021

Do-calculus enables causal reasoning with latent variable models.

Sara Mohammad Taheri, Robert Osazuwa Ness, Jeremy Zucker, Olga Vitek

CoRR, 2021

QLiG: Query Like a Graph For Subgraph Matching.

Sumit Purohit, Patrick Mackey, Jeremy D. Zucker, Ankur Bohra, Rahul D. Deshmukh, George Chin

Proceedings of the Fourth IEEE International Conference on Artificial Intelligence and Knowledge Engineering, 2021

2017

ATLAS (Automatic Tool for Local Assembly Structures) - a comprehensive infrastructure for assembly, annotation, and genomic binning of metagenomic and metatranscriptomic data.

Richard Allen White III, Joseph Brown, Sean Colby, Christopher C. Overall, Joon-Yong Lee, Jeremy Zucker, Kurt R. Glaesemann, Christer Jansson, Janet K. Jansson

PeerJ Prepr., 2017

2015

Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models.

Jonathan R. Karr, Alex H. Williams, Jeremy D. Zucker, Andreas Raue, Bernhard Steiert, Jens Timmer, Clemens Kreutz, Simon Wilkinson, Brandon A. Allgood, Brian M. Bot, Bruce R. Hoff, Michael R. Kellen, Markus W. Covert, Gustavo A. Stolovitzky, Pablo Meyer

PLoS Comput. Biol., 2015

2013

Reconstruction and Validation of a Genome-Scale Metabolic Model for the Filamentous Fungus <i>Neurospora crassa</i> Using FARM.

Jonathan M. Dreyfuss, Jeremy D. Zucker, Heather M. Hood, Linda R. Ocasio, Matthew S. Sachs, James E. Galagan

PLoS Comput. Biol., 2013

The <i>Mycobacterium tuberculosis</i> regulatory network and hypoxia.

James E. Galagan, Kyle J. Minch, Matthew Peterson, Anna Lyubetskaya, Elham Azizi, Linsday Sweet, Antonio Gomes, Tige R. Rustad, Gregory Dolganov, Irina Glotova, Thomas Abeel, Chris Mahwinney, Adam D. Kennedy, René Allard, William Brabant, Andrew Krueger, Suma Jaini, Brent Honda, Wen-Han Yu, Mark J. Hickey, Jeremy Zucker, Christopher Garay, Brian Weiner, Peter Sisk, Christian Stolte, Jessica K. Winkler, Yves Van de Peer, Paul Iazzetti, Diogo Camacho, Jonathan M. Dreyfuss, Yang Liu, Anca Dorhoi, Hans-Joachim Mollenkopf, Paul Drogaris, Julie Lamontagne, Yiyong Zhou, Julie Piquenot, Sang Tae Park, Sahadevan Raman, Stefan H. E. Kaufmann, Robert P. Mohney, Daniel Chelsky, D. Branch Moody, David R. Sherman, Gary K. Schoolnik

Nat., 2013

2012

Metabolic Reconstruction for Metagenomic Data and Its Application to the Human Microbiome.

Sahar Abubucker, Nicola Segata, Johannes Goll, Alyxandria M. Schubert, Jacques Izard, Brandi L. Cantarel, Beltran Rodriguez-Mueller, Jeremy Zucker, Mathangi Thiagarajan, Bernard Henrissat, Owen White, Scott T. Kelley, Barbara A. Methé, Patrick D. Schloss, Dirk Gevers, Makedonka Dautova Mitreva, Curtis Huttenhower

PLoS Comput. Biol., 2012

2009

Interpreting Expression Data with Metabolic Flux Models: Predicting <i>Mycobacterium tuberculosis</i> Mycolic Acid Production.

Caroline Colijn, Aaron Brandes, Jeremy Zucker, Desmond S. Lun, Brian Weiner, Maha R. Farhat, Tan-Yun Cheng, D. Branch Moody, Megan Murray, James E. Galagan

PLoS Comput. Biol., 2009

A fragile metabolic network adapted for cooperation in the symbiotic bacterium Buchnera aphidicola.

Gavin H. Thomas, Jeremy Zucker, Sandy J. Macdonald, Anatoly A. Sorokin, Igor Goryanin, Angela E. Douglas

BMC Syst. Biol., 2009

2006

What BioPAX Communicates and how to extend OWL to help it.

Alan Ruttenberg, Jonathan Rees, Jeremy Zucker

Proceedings of the OWLED*06 Workshop on OWL: Experiences and Directions, 2006