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检索条件"机构=MIT PhD Program in Computational and Systems Biology"
65 条 记 录,以下是11-20 订阅
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Dish-Trend: Intervention Modeling Simulator That Accounts for Trend Influences
Dish-Trend: Intervention Modeling Simulator That Accounts fo...
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Simulation Winter Conference
作者: Stefan Andjelkovic Natasa Miskov-Zivanov Computational and Systems Biology Joint Carnegie Mellon University and University of Pittsburgh Computational Biology PhD Program University of Pittsburgh Pittsburgh PA USA Electrical and Computer Engineering Bioengineering Computational and Systems Biology University of Pittsburgh Pittsburgh PA USA
Simulation on directed graphs is an important method for understanding the dynamics in the systems where connectivity graphs contain cycles. Discrete Stochastic Heterogeneous Simulator (DiSH) is one of the simulation ... 详细信息
来源: 评论
Dish-trend: Intervention modeling simulator that accounts for trend influences
arXiv
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arXiv 2021年
作者: Andjelkovic, Stefan Miskov-Zivanov, Natasa Computational and Systems Biology Joint Carnegie Mellon University University of Pittsburgh Computational Biology PhD Program University of Pittsburgh 4420 Bayard St PittsburghPA15213 United States Electrical and Computer Engineering Bioengineering Computational and Systems Biology University of Pittsburgh 4420 Bayard St PittsburghPA15213 United States
Simulation on directed graphs is an important method for understanding the dynamics in the systems where connectivity graphs contain cycles. Discrete Stochastic Heterogeneous Simulator (DiSH) is one of the simulation ... 详细信息
来源: 评论
COULD DROPPING A FEW CELLS CHANGE THE TAKEAWAYS FROM DIFFERENTIAL EXPRESSION?
arXiv
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arXiv 2023年
作者: Shiffman, Miriam Giordano, Ryan Broderick, Tamara MIT Computational & Systems Biology Program United States MIT Dept. of Electrical Engineering & Computer Science United States UC Berkeley Dept. of Statistics United States
Analysis of differential gene expression plays a fundamental role in biology toward illuminating the molecular mechanisms driving a difference between groups (e.g., due to treatment or disease). While any analysis is ... 详细信息
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COEM: Cross-Modal Embedding for MetaCell Identification
arXiv
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arXiv 2022年
作者: Mao, Haiyi Jia, Minxue Dou, Jason Xiaotian Zhang, Haotian Benos, Panayiotis V. Department of Computational and Systems Biology University of Pittsburgh PA United States Joint Carnegie Mellon University University of Pittsburgh PhD Program in Computational Biology United States Department of Electrical and Computer Engineering University of Pittsburgh PA United States
Metacells are disjoint and homogeneous groups of single-cell profiles, representing discrete and highly granular cell states. Existing metacell algorithms tend to use only one modality to infer metacells, even though ... 详细信息
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The dynamic immune behavior of primary and metastatic ovarian carcinoma
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npj Precision Oncology 2025年 第1期9卷 1-12页
作者: Stur, Elaine Peng, Fuduan Teng, Pang-Ning Bayraktar, Emine Hu, Min Corvigno, Sara Brown, David J. Lee, Sanghoon Moore, Kathleen N. Bateman, Nicholas W. Darcy, Kathleen M. Maxwell, George L. P. Conrads, Thomas Sahni, Nidhi Vázquez-García, Ignacio Shah, Sohrab P. Celestino, Joseph D. Fleming, Nicole Navin, Nicholas E. Wang, Linghua Sood, Anil K. Department of Gynecologic Oncology and Reproductive Medicine The University of Texas MD Anderson Cancer Center Houston TX United States Department of Genomic Medicine The University of Texas MD Anderson Cancer Center Houston TX United States Gynecologic Cancer Center of Excellence The Henry M. Jackson Foundation for the Advancement of Military Medicine Inc. Walter Reed National Military Medical Center Bethesda 20889 MD United States Department of Gynecologic Surgery and Obstetrics Uniformed Services University of the Health Sciences Walter Reed National Military Medical Center Bethesda MD United States Department of Genetics The University of Texas MD Anderson Cancer Center Houston TX United States Obstetrics and Gynecology Stephenson Cancer Center Stephenson Cancer Center at the University of Oklahoma Health Sciences Center/Sarah Cannon Research Institute Oklahoma City OK United States Women’s Health Integrated Research Center Women’s Service Line Inova Health System Falls Church VA United States Department of Epigenetics and Molecular Carcinogenesis The University of Texas MD Anderson Cancer Center Baylor College of Medicine Houston TX United States Department of Bioinformatics and Computational Biology The University of Texas MD Anderson Cancer Center Houston TX United States Quantitative and Computational Biosciences Program Baylor College of Medicine Houston TX United States Computational Oncology Department of Epidemiology and Biostatistics Memorial Sloan Kettering Cancer Center New York NY United States The Halvorsen Center for Computational Oncology Memorial Sloan Kettering Cancer Center Boston MA United States Irving Institute for Cancer Dynamics Columbia University Cambridge 10027 MA United States Department of Systems Biology The University of Texas MD Anderson Cancer Center Houston MA United States The James P. Allison Institute The University of Texas MD Anderson Cancer Center Houston 77030 TX United States The Institute for Data Sc
Patients with high-grade serous ovarian carcinoma (HGSC) are usually diagnosed with advanced-stage disease, and the tumors often have immunosuppressive characteristics. Together, these factors are important for diseas...
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Mixed graphical models for causal analysis of multi-modal variables
arXiv
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arXiv 2017年
作者: Sedgewick, Andrew J. Ramsey, Joseph D. Spirtes, Peter Glymour, Clark Benos, Panayiotis V. Department of Computational and Systems Biology University of Pittsburgh School of Medicine PittsburghPA United States Joint Carnegie Mellon University University of Pittsburgh PhD Program in Computational Biology PittsburghPA United States Department of Bioengineering University of Pittsburgh PittsburghPA United States Department of Philosophy Carnegie Mellon University PittsburghPA United States
Graphical causal models are an important tool for knowledge discovery because they can represent both the causal relations between variables and the multivariate probability distributions over the data. Once learned, ... 详细信息
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Adversarial attacks against medical deep learning systems
arXiv
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arXiv 2018年
作者: Finlayson, Samuel G. Chung, Hyung Won Kohane, Isaac S. Beam, Andrew L. Department of Systems Biology and MD-PhD program Harvard Medical School MIT BostonMA Massachusetts Institute of Technology CambridgeMA United States Department of Biomedical Informatics Harvard Medical School BostonMA United States
The discovery of adversarial examples has raised concerns about the practical deployment of deep learning systems. In this paper, we demonstrate that adversarial examples are capable of manipulating deep learning syst... 详细信息
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End-to-End Differentiable Molecular Mechanics Force Field Construction
arXiv
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arXiv 2020年
作者: Wang, Yuanqing Fass, Josh Kaminow, Benjamin Herr, John E. Rufa, Dominic Zhang, Ivy Pulido, Iván Henry, Mike Chodera, John D. Computational and Systems Biology Program Sloan Kettering Institute Memorial Sloan Kettering Cancer Center New YorkNY10065 United States Tri-Institutional PhD Program in Computational Biology and Medicine Weill Cornell Medical College Cornell University New YorkNY10065 United States Physiology Biophysics and System Biology Ph.D. Program Weill Cornell Medical College Cornell University New YorkNY10065 United States Program in Creative Writing Division of Humanities and Arts The City College of New York The City University of New York New YorkNY10031 United States
Molecular mechanics (MM) potentials have long been a workhorse of computational chemistry. Leveraging accuracy and speed, these functional forms find use in a wide variety of applications in biomolecular modeling and ... 详细信息
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Mutually beneficial confluence of structure-based modeling of protein dynamics and machine learning methods
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Current Opinion in Structural biology 2023年 78卷 102517页
作者: Banerjee, Anupam Saha, Satyaki Tvedt, Nathan C. Yang, Lee-Wei Bahar, Ivet Computational and Systems Biology University of Pittsburgh School of Medicine Pittsburgh 15261 PA United States Computational and Applied Mathematics and Statistics The College of William and Mary Williamsburg 23185 VA United States Institute of Bioinformatics and Structural Biology and PhD Program in Biomedical Artificial Intelligence National Tsing Hua University Hsinchu 300044 Taiwan Physics Division National Center for Theoretical Sciences Taipei 106319 Taiwan
Proteins sample an ensemble of conformers under physiological conditions, having access to a spectrum of modes of motions, also called intrinsic dynamics. These motions ensure the adaptation to various interactions in...
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Helicase-assisted continuous editing for programmable mutagenesis of endogenous genomes
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四川生理科学杂志 2024年 第10期46卷 2326-2326页
作者: Xi Dawn Chen Gene Regulation Observatory Broad Institute of MIT and Harvard Cambridge MA 02142 USA. Department of Stem Cell and Regenerative Biology Harvard University Cambridge MA 02138 USA. Systems Synthetic and Quantitative Biology PhD Program Harvard University Cambridge MA 02138 USA. Department of Cancer Biology Dana-Farber Cancer Institute Boston MA 02215 USA. Department of Cell Biology and Pathology Harvard Medical School Boston MA 02115 USA. Department of Cancer Biology Dana-Farber Cancer Institute Boston MA 02215 USA. Department of Chemistry and Chemical Biology Harvard University Cambridge MA 02138 USA. Cancer Program Broad Institute of MIT and Harvard Cambridge MA 02142 USA. Systems Synthetic and Quantitative Biology PhD Program Harvard University Cambridge MA 02138 USA. Cecil H. and Ida Green Center for Reproductive Biology Sciences University of Texas Southwestern Medical Center Dallas TX 75390 USA. Department of Obstetrics and Gynecology University of Texas Southwestern Medical Center Dallas TX 75390 USA. The Novo Nordisk Foundation Center for Genomic Mechanisms of Disease Broad Institute of MIT and Harvard Cambridge MA 02142 USA.
Deciphering the context-specific relationship between sequence and function is a major challenge in *** tools for inducing locus-specific hypermutation and evolution in the native genome context are *** we present a p... 详细信息
来源: 评论