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Molecular codes translate information written in one type of molecules into another molecular language. We introduce a simple model that treats molecular codes as noisy information channels. An optimal code is a channel that conveys…

Quantitative Methods · Quantitative Biology 2010-07-26 Tsvi Tlusty

Generative models in molecular design tend to be richly parameterized, data-hungry neural models, as they must create complex structured objects as outputs. Estimating such models from data may be challenging due to the lack of sufficient…

Machine Learning · Computer Science 2021-08-17 Kevin Yang , Wengong Jin , Kyle Swanson , Regina Barzilay , Tommi Jaakkola

Interactive coding allows two parties to conduct a distributed computation despite noise corrupting a certain fraction of their communication. Dani et al.\@ (Inf.\@ and Comp., 2018) suggested a novel setting in which the amount of noise is…

Data Structures and Algorithms · Computer Science 2024-07-15 Eden Fargion , Ran Gelles , Meghal Gupta

The inherent stochasticity of cellular processes leads to significant cell-to-cell variation in protein abundance. Although this noise has already been characterized and modeled, its broader implications and significance remain unclear. In…

Biological Physics · Physics 2023-07-10 Teresa W. Lo , Han Kyou James Choi , Dean Huang , Paul A. Wiggins

Cells regulate themselves via dizzyingly complex biochemical processes called signaling pathways. These are usually depicted as a network, where nodes represent proteins and edges indicate their influence on each other. In order to…

Molecular Networks · Quantitative Biology 2021-01-13 David Merrell , Anthony Gitter

In a recurrent setting, conventional approaches to neural architecture search find and fix a general model for all data samples and time steps. We propose a novel algorithm that can dynamically search for the structure of cells in a…

Machine Learning · Computer Science 2019-05-28 Xin Qian , Matthew Kennedy , Diego Klabjan

We consider a simple network, where a source and destination node are connected with a line of erasure channels. It is well known that in order to achieve the min-cut capacity, the intermediate nodes are required to process the information.…

Information Theory · Computer Science 2016-11-17 Payam Pakzad , Christina Fragouli , Amin Shokrollahi

In modern wireless networks, interference is no longer negligible since each cell becomes smaller to support high throughput. The reduced size of each cell forces to install many cells, and consequently causes to increase inter-cell…

Information Theory · Computer Science 2012-09-19 Hyukjoon Kwon , Jungwon Lee , Inyup Kang

Multimodal program synthesis, which leverages different types of user input to synthesize a desired program, is an attractive way to scale program synthesis to challenging settings; however, it requires integrating noisy signals from the…

Computation and Language · Computer Science 2021-09-16 Xi Ye , Qiaochu Chen , Isil Dillig , Greg Durrett

Artificial learning systems aspire to mimic human intelligence by continually learning from a stream of tasks without forgetting past knowledge. One way to enable such learning is to store past experiences in the form of input examples in…

Machine Learning · Computer Science 2022-10-13 Gobinda Saha , Kaushik Roy

Biological cells replicate their genomes in a well-planned manner. The DNA replication program of an organism determines the timing at which different genomic regions are replicated, with fundamental consequences for cell homeostasis and…

Subcellular Processes · Quantitative Biology 2024-05-28 Florian Pflug , Deepak Bhat , Simone Pigolotti

Many Neural Network Pruning approaches consist of several iterative training and pruning steps, seemingly losing a significant amount of their performance after pruning and then recovering it in the subsequent retraining phase. Recent works…

Machine Learning · Computer Science 2023-03-14 Max Zimmer , Christoph Spiegel , Sebastian Pokutta

Motivated by DNA-based storage applications, we study the problem of reconstructing a coded sequence from multiple traces. We consider the model where the traces are outputs of independent deletion channels, where each channel deletes each…

Information Theory · Computer Science 2022-07-13 Serge Kas Hanna

We consider hard-decision iterative decoders for product codes over the erasure channel, which employ repeated rounds of decoding rows and columns alternatingly. We derive the exact asymptotic probability of decoding failure as a function…

Information Theory · Computer Science 2007-07-16 Moshe Schwartz , Paul H. Siegel , Alexander Vardy

With the capacity of continual learning, humans can continuously acquire knowledge throughout their lifespan. However, computational systems are not, in general, capable of learning tasks sequentially. This long-standing challenge for deep…

Machine Learning · Computer Science 2022-08-05 Qihan Yang , Fan Feng , Rosa Chan

Deep learning has emerged as a powerful method for extracting valuable information from large volumes of data. However, when new training data arrives continuously (i.e., is not fully available from the beginning), incremental training…

Distributed, Parallel, and Cluster Computing · Computer Science 2024-06-06 Thomas Bouvier , Bogdan Nicolae , Hugo Chaugier , Alexandru Costan , Ian Foster , Gabriel Antoniu

Inspired by recent advances in deep learning, we propose a novel iterative BP-CNN architecture for channel decoding under correlated noise. This architecture concatenates a trained convolutional neural network (CNN) with a standard…

Machine Learning · Statistics 2018-03-14 Fei Liang , Cong Shen , Feng Wu

This paper summarizes our work on experimentally analyzing, exploiting, and addressing vulnerabilities in multi-level cell NAND flash memory programming, which was published in the industrial session of HPCA 2017, and examines the work's…

Hardware Architecture · Computer Science 2018-05-10 Yu Cai , Saugata Ghose , Yixin Luo , Ken Mai , Onur Mutlu , Erich F. Haratsch

Various spacecraft have sensors that repeatedly perform a prescribed scanning maneuver, and one may want high precision. Iterative Learning Control (ILC) records previous run tracking error, adjusts the next run command, aiming for zero…

Systems and Control · Electrical Eng. & Systems 2023-08-01 Richard W. Longman , Shuo Liu , Tarek A. Elsharhawy

Deep learning models have proven to be effective on medical datasets for accurate diagnostic predictions from images. However, medical datasets often contain noisy, mislabeled, or poorly generalizable images, particularly for edge cases and…

Computer Vision and Pattern Recognition · Computer Science 2025-07-08 Ruhaan Singh , Sreelekha Guggilam