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We present two deep generative models based on Variational Autoencoders to improve the accuracy of drug response prediction. Our models, Perturbation Variational Autoencoder and its semi-supervised extension, Drug Response Variational…

Machine Learning · Statistics 2017-07-07 Ladislav Rampasek , Daniel Hidru , Petr Smirnov , Benjamin Haibe-Kains , Anna Goldenberg

Variational auto-encoders (VAEs) are deep generative latent variable models that can be used for learning the distribution of complex data. VAEs have been successfully used to learn a probabilistic prior over speech signals, which is then…

Sound · Computer Science 2020-12-18 Mostafa Sadeghi , Simon Leglaive , Xavier Alameda-PIneda , Laurent Girin , Radu Horaud

Recently, a generative variational autoencoder (VAE) has been proposed for speech enhancement to model speech statistics. However, this approach only uses clean speech in the training phase, making the estimation particularly sensitive to…

Audio and Speech Processing · Electrical Eng. & Systems 2021-05-18 Huajian Fang , Guillaume Carbajal , Stefan Wermter , Timo Gerkmann

We present a conditional variational auto-encoder (VAE) which, to avoid the substantial cost of training from scratch, uses an architecture and training objective capable of leveraging a foundation model in the form of a pretrained…

Computer Vision and Pattern Recognition · Computer Science 2022-05-31 William Harvey , Saeid Naderiparizi , Frank Wood

Deep probabilistic generative models have achieved incredible success in many fields of application. Among such models, variational autoencoders (VAEs) have proved their ability in modeling a generative process by learning a latent…

Machine Learning · Computer Science 2022-12-16 Eleonora Grassucci , Danilo Comminiello , Aurelio Uncini

Given the notably increasing complexity of mathematical models to study realistic systems and their coupling to their environment that constrains their dynamics, both analytical approaches and numerical methods that build on these models,…

Quantum Physics · Physics 2019-11-11 I. Luchnikov , A. Ryzhov , P. -J. C. Stas , S. N. Filippov , H. Ouerdane

This paper introduces a modified variational autoencoder (VAEs) that contains an additional neural network branch. The resulting branched VAE (BVAE) contributes a classification component based on the class labels to the total loss and…

Machine Learning · Computer Science 2024-01-08 Ahmed Salah , David Yevick

Deep generative models are attracting great attention as a new promising approach for molecular design. All models reported so far are based on either variational autoencoder (VAE) or generative adversarial network (GAN). Here we propose a…

Chemical Physics · Physics 2019-12-13 Seung Hwan Hong , Jaechang Lim , Seongok Ryu , Woo Youn Kim

Variational autoencoders (VAEs) are powerful tools for learning latent representations of data used in a wide range of applications. In practice, VAEs usually require multiple training rounds to choose the amount of information the latent…

Machine Learning · Computer Science 2023-08-21 Juhan Bae , Michael R. Zhang , Michael Ruan , Eric Wang , So Hasegawa , Jimmy Ba , Roger Grosse

Inference models are a key component in scaling variational inference to deep latent variable models, most notably as encoder networks in variational auto-encoders (VAEs). By replacing conventional optimization-based inference with a…

Machine Learning · Computer Science 2018-07-26 Joseph Marino , Yisong Yue , Stephan Mandt

An important property for deep neural networks is the ability to perform robust out-of-distribution detection on previously unseen data. This property is essential for safety purposes when deploying models for real world applications.…

Machine Learning · Computer Science 2022-04-14 Griffin Floto , Stefan Kremer , Mihai Nica

Learning interpretable and disentangled representations of data is a key topic in machine learning research. Variational Autoencoder (VAE) is a scalable method for learning directed latent variable models of complex data. It employs a clear…

Machine Learning · Computer Science 2020-06-04 Andriy Serdega , Dae-Shik Kim

Variational Auto-Encoder (VAE) has been widely applied as a fundamental generative model in machine learning. For complex samples like imagery objects or scenes, however, VAE suffers from the dimensional dilemma between reconstruction…

Machine Learning · Computer Science 2020-02-18 Deli Zhao , Jiapeng Zhu , Bo Zhang

The variational autoencoder (VAE) is a generative model with continuous latent variables where a pair of probabilistic encoder (bottom-up) and decoder (top-down) is jointly learned by stochastic gradient variational Bayes. We first…

Machine Learning · Statistics 2016-04-19 Suwon Suh , Seungjin Choi

Variational Auto-Encoders (VAEs) have become very popular techniques to perform inference and learning in latent variable models as they allow us to leverage the rich representational power of neural networks to obtain flexible…

Machine Learning · Computer Science 2018-11-26 Anthony L. Caterini , Arnaud Doucet , Dino Sejdinovic

Popular (ensemble) Kalman filter data assimilation (DA) approaches assume that the errors in both the a priori estimate of the state and those in the observations are Gaussian. For constrained variables, e.g. sea ice concentration or…

Machine Learning · Computer Science 2025-02-19 Ivo Pasmans , Yumeng Chen , Tobias Sebastian Finn , Marc Bocquet , Alberto Carrassi

The variational autoencoder (VAE) is a powerful generative model that can estimate the probability of a data point by using latent variables. In the VAE, the posterior of the latent variable given the data point is regularized by the prior…

Machine Learning · Statistics 2019-12-30 Hiroshi Takahashi , Tomoharu Iwata , Yuki Yamanaka , Masanori Yamada , Satoshi Yagi

Estimation of uncertainty in deep learning models is of vital importance, especially in medical imaging, where reliance on inference without taking into account uncertainty could lead to misdiagnosis. Recently, the probabilistic Variational…

Machine Learning · Computer Science 2020-10-20 Haleh Akrami , Anand A. Joshi , Sergul Aydore , Richard M. Leahy

We present VAEL, a neuro-symbolic generative model integrating variational autoencoders (VAE) with the reasoning capabilities of probabilistic logic (L) programming. Besides standard latent subsymbolic variables, our model exploits a…

Programming Languages · Computer Science 2022-05-26 Eleonora Misino , Giuseppe Marra , Emanuele Sansone

The Variational Auto-Encoder (VAE) is one of the most used unsupervised machine learning models. But although the default choice of a Gaussian distribution for both the prior and posterior represents a mathematically convenient distribution…

Machine Learning · Statistics 2022-09-28 Tim R. Davidson , Luca Falorsi , Nicola De Cao , Thomas Kipf , Jakub M. Tomczak
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