Search Results - "Hellerstein, Joseph"

An oscillating reaction network with an exact closed form solution in the time domain by Hellerstein, Joseph

“…Oscillatory behavior is critical to many life sustaining processes such as cell cycles, circadian rhythms, and notch signaling. Important biological functions…”
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Anna: A KVS for Any Scale by Wu, Chenggang, Faleiro, Jose M., Lin, Yihan, Hellerstein, Joseph M.

“…Modern cloud providers offer dense hardware with multiple cores and large memories, hosted in global platforms. This raises the challenge of implementing…”
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Isolating structural errors in reaction networks in systems biology by Shin, Woosub, Hellerstein, Joseph L

“…The growing complexity of reaction-based models necessitates early detection and resolution of model errors. Considerable work has been done on the detection…”
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Dynamic Service Placement in Geographically Distributed Clouds by Qi Zhang, Quanyan Zhu, Zhani, Mohamed Faten, Boutaba, Raouf, Hellerstein, Joseph L.

“…Large-scale online service providers have been increasingly relying on geographically distributed cloud infrastructures for service hosting and delivery. In…”
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An automated model annotation system (AMAS) for SBML models by Shin, Woosub, Gennari, John H, Hellerstein, Joseph L, Sauro, Herbert M

“…Abstract Motivation Annotations of biochemical models provide details of chemical species, documentation of chemical reactions, and other essential…”
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DIEL: Interactive Visualization Beyond the Here and Now by Wu, Yifan, Chang, Remco, Hellerstein, Joseph M., Satyanarayan, Arvind, Wu, Eugene

“…Interactive visualization design and research have primarily focused on local data and synchronous events. However, for more complex use cases-e.g., remote…”
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Enterprise Data Analysis and Visualization: An Interview Study by Kandel, S., Paepcke, A., Hellerstein, J. M., Heer, J.

“…Organizations rely on data analysts to model customer engagement, streamline operations, improve production, inform business decisions, and combat fraud…”
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Interactive checks for coordination avoidance by Whittaker, Michael, Hellerstein, Joseph M.

“…Strongly consistent distributed systems are easy to reason about but face fundamental limitations in availability and performance. Weakly consistent systems…”
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Autoscaling tiered cloud storage in Anna by Wu, Chenggang, Sreekanti, Vikram, Hellerstein, Joseph M.

“…In this paper, we describe how we extended a distributed key-value store called Anna into an autoscaling, multi-tier service for the cloud. In its extended…”
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Adapting modeling and simulation credibility standards to computational systems biology by Tatka, Lillian T, Smith, Lucian P, Hellerstein, Joseph L, Sauro, Herbert M

“…Computational models are increasingly used in high-impact decision making in science, engineering, and medicine. The National Aeronautics and Space…”
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VSCode-Antimony: a source editor for building, analyzing, and translating antimony models by Ma, Steve, Fan, Longxuan, Konanki, Sai Anish, Liu, Eva, Gennari, John H, Smith, Lucian P, Hellerstein, Joseph L, Sauro, Herbert M

“…Abstract Motivation Developing biochemical models in systems biology is a complex, knowledge-intensive activity. Some modelers (especially novices) benefit…”
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Cesium: A public database of evolved oscillatory reaction networks by Tatka, Lillian T., Luk, Wesley, Elston, Timothy C., Hellerstein, Joseph L., Sauro, Herbert M.

“…New tools and software in systems biology require testing and validation on reaction networks with desired characteristics such as number of reactions or…”
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Tellurium notebooks-An environment for reproducible dynamical modeling in systems biology by Medley, J Kyle, Choi, Kiri, König, Matthias, Smith, Lucian, Gu, Stanley, Hellerstein, Joseph, Sealfon, Stuart C, Sauro, Herbert M

“…The considerable difficulty encountered in reproducing the results of published dynamical models limits validation, exploration and reuse of this increasingly…”
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Recent advances in biomedical simulations: a manifesto for model engineering [version 1; peer review: 3 approved] by Hellerstein, Joseph L, Gu, Stanley, Choi, Kiri, Sauro, Herbert M

“…Biomedical simulations are widely used to understand disease, engineer cells, and model cellular processes. In this article, we explore how to improve the…”
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A compiler for biological networks on silicon chips by Medley, J. Kyle, Teo, Jonathan, Woo, Sung Sik, Hellerstein, Joseph, Sarpeshkar, Rahul, Sauro, Herbert M

“…The explosive growth in semiconductor integrated circuits was made possible in large part by design automation software. The design and/or analysis of…”
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Quantifying eventual consistency with PBS by Bailis, Peter, Venkataraman, Shivaram, Franklin, Michael J., Hellerstein, Joseph M., Stoica, Ion

“…Data store replication results in a fundamental trade-off between operation latency and data consistency. At the weak end of the consistency spectrum is…”
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Systematic analysis of challenge-driven improvements in molecular prognostic models for breast cancer by Margolin, Adam A, Bilal, Erhan, Huang, Erich, Norman, Thea C, Ottestad, Lars, Mecham, Brigham H, Sauerwine, Ben, Kellen, Michael R, Mangravite, Lara M, Furia, Matthew D, Vollan, Hans Kristian Moen, Rueda, Oscar M, Guinney, Justin, Deflaux, Nicole A, Hoff, Bruce, Schildwachter, Xavier, Russnes, Hege G, Park, Daehoon, Vang, Veronica O, Pirtle, Tyler, Youseff, Lamia, Citro, Craig, Curtis, Christina, Kristensen, Vessela N, Hellerstein, Joseph, Friend, Stephen H, Stolovitzky, Gustavo, Aparicio, Samuel, Caldas, Carlos, Børresen-Dale, Anne-Lise

“…Although molecular prognostics in breast cancer are among the most successful examples of translating genomic analysis to clinical applications, optimal…”
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Anna: A KVS for Any Scale by Chenggang Wu, Faleiro, Jose, Yihan Lin, Hellerstein, Joseph

“…Modern cloud providers offer dense hardware with multiple cores and large memories, hosted in global platforms. This raises the challenge of implementing…”
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Software Engineering Practices in Academia: Promoting the 3Rs—Readability, Resilience, and Reuse by Andrew Connolly, Joseph Hellerstein, Naomi Alterman, David Beck, Rob Fatland, Ed Lazowska, Vani Mandava, Sarah Stone

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Usher: Improving Data Quality with Dynamic Forms by Kuang Chen, Harr Chen, Conway, N., Hellerstein, J. M., Parikh, T. S.

“…Data quality is a critical problem in modern databases. data-entry forms present the first and arguably best opportunity for detecting and mitigating errors,…”
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