Precision medicine aims for personalized prognosis and therapeutics by utilizing recent genome-scale high-throughput profiling techniques, including next-generation sequencing (NGS). However, translating NGS data faces several challenges. First, NGS count data are often overdispersed, requiring appropriate modeling. Second, compared to the number of involved molecules and system complexity, the number of available samples for studying complex disease, such as cancer, is often limited, especially considering disease heterogeneity. The key question is whether we may integrate available data from all different sources or domains to achieve reproducible disease prognosis based on NGS count data. In this paper, we develop a Bayesian Multi-Domain Learning (BMDL) model that derives domain-dependent latent representations of overdispersed count data based on hierarchical negative binomial factorization for accurate cancer subtyping even if the number of samples for a specific cancer type is small. Experimental results from both our simulated and NGS datasets from The Cancer Genome Atlas (TCGA) demonstrate the promising potential of BMDL for effective multi-domain learning without ``negative transfer'' effects often seen in existing multi-task learning and transfer learning methods.

InMTL, there areDdifferent labeled domains where data are related and the goal is to improve the predictive power of all domains altogether.

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Multi-domain learning (MDL) aims to train a model with minimal average risk across multiple overlapping but non-identical domains. To tackle the challenges of dataset bias and domain domination, numerous MDL approaches have been proposed from the perspectives of seeking commonalities by aligning distributions to reduce domain gap or reserving differences by implementing domain-specific towers, gates, and even experts. MDL models are becoming more and more complex with sophisticated network architectures or loss functions, introducing extra parameters and enlarging computation costs. In this paper, we propose a frustratingly easy and hyperparameter-free multi-domain learning method named Decoupled Training(D-Train). D-Train is a tri-phase general-to-specific training strategy that first pre-trains on all domains to warm up a root model, then post-trains on each domain by splitting into multi heads, and finally fine-tunes the heads by fixing the backbone, enabling decouple training to achieve domain independence. Despite its extraordinary simplicity and efficiency, D-Train performs remarkably well in extensive evaluations of various datasets from standard benchmarks to applications of satellite imagery and recommender systems.

As an important and challenging problem, multi-domain learning (MDL) typically seeks for a set of effective lightweight domain-specific adapter modules plugged into a common domain-agnostic network. Usually, existing ways of adapter plugging and structure design are handcrafted and fixed for all domains before model learning, resulting in the learning inflexibility and computational intensiveness. With this motivation, we propose to learn a data-driven adapter plugging strategy with Neural Architecture Search (NAS), which automatically determines where to plug for those adapter modules. Furthermore, we propose a NAS-adapter module for adapter structure design in a NAS-driven learning scheme, which automatically discovers effective adapter module structures for different domains. Experimental results demonstrate the effectiveness of our MDL model against existing approaches under the conditions of comparable performance. We will release the code, baselines, and training statistics for all models to facilitate future research.

Deep learning approaches are highly specialized and require training separate models for different tasks. Multi-domain learning looks at ways to learn a multitude of different tasks, each coming from a different domain, at once. The most common approach in multi-domain learning is to form a domain agnostic model, the parameters of which are shared among all domains, and learn a small number of extra domain-specific parameters for each individual new domain. However, different domains come with different levels of difficulty; parameterizing the models of all domains using an augmented version of the domain agnostic model leads to unnecessarily inefficient solutions, especially for easy to solve tasks. We propose an adaptive parameterization approach to deep neural networks for multi-domain learning. The proposed approach performs on par with the original approach while reducing by far the number of parameters, leading to efficient multi-domain learning solutions.

Precision medicine aims for personalized prognosis and therapeutics by utilizing recent genome-scale high-throughput profiling techniques, including next-generation sequencing (NGS). However, translating NGS data faces several challenges. First, NGS count data are often overdispersed, requiring appropriate modeling. Second, compared to the number of involved molecules and system complexity, the number of available samples for studying complex disease, such as cancer, is often limited, especially considering disease heterogeneity. The key question is whether we may integrate available data from all different sources or domains to achieve reproducible disease prognosis based on NGS count data.

The prominence of deep learning, large amount of annotated data and increasingly powerful hardware made it possible to reach remarkable performance for supervised classification tasks, in many cases saturating the training sets. However, adapting the learned classification to new domains remains a hard problem due to at least three reasons: (1) the domains and the tasks might be drastically different; (2) there might be very limited amount of annotated data on the new domain and (3) full training of a new model for each new task is prohibitive in terms of memory, due to the shear number of parameter of deep networks. Instead, new tasks should be learned incrementally, building on prior knowledge from already learned tasks, and without catastrophic forgetting, i.e. without hurting performance on prior tasks. To our knowledge this paper presents the first method for multi-domain/task learning without catastrophic forgetting using a fully tensorized architecture. Our main contribution is a method for multi-domain learning which models groups of identically structured blocks within a CNN as a high-order tensor. We show that this joint modelling naturally leverages correlations across different layers and results in more compact representations for each new task/domain over previous methods which have focused on adapting each layer separately. We apply the proposed method to 10 datasets of the Visual Decathlon Challenge and show that our method offers on average about 7.5x reduction in number of parameters and superior performance in terms of both classification accuracy and Decathlon score. In particular, our method outperforms all prior work on the Visual Decathlon Challenge.

Precision medicine aims for personalized prognosis and therapeutics by utilizing recent genome-scale high-throughput profiling techniques, including next-generation sequencing (NGS). However, translating NGS data faces several challenges. First, NGS count data are often overdispersed, requiring appropriate modeling. Second, compared to the number of involved molecules and system complexity, the number of available samples for studying complex disease, such as cancer, is often limited, especially considering disease heterogeneity. The key question is whether we may integrate available data from all different sources or domains to achieve reproducible disease prognosis based on NGS count data. In this paper, we develop a Bayesian Multi-Domain Learning (BMDL) model that derives domain-dependent latent representations of overdispersed count data based on hierarchical negative binomial factorization for accurate cancer subtyping even if the number of samples for a specific cancer type is small. Experimental results from both our simulated and NGS datasets from The Cancer Genome Atlas (TCGA) demonstrate the promising potential of BMDL for effective multi-domain learning without ``negative transfer'' effects often seen in existing multi-task learning and transfer learning methods.

Precision medicine aims for personalized prognosis and therapeutics by utilizing recent genome-scale high-throughput profiling techniques, including next-generation sequencing (NGS). However, translating NGS data faces several challenges. First, NGS count data are often overdispersed, requiring appropriate modeling. Second, compared to the number of involved molecules and system complexity, the number of available samples for studying complex disease, such as cancer, is often limited, especially considering disease heterogeneity. The key question is whether we may integrate available data from all different sources or domains to achieve reproducible disease prognosis based on NGS count data. In this paper, we develop a Bayesian Multi-Domain Learning (BMDL) model that derives domain-dependent latent representations of overdispersed count data based on hierarchical negative binomial factorization for accurate cancer subtyping even if the number of samples for a specific cancer type is small. Experimental results from both our simulated and NGS datasets from The Cancer Genome Atlas (TCGA) demonstrate the promising potential of BMDL for effective multi-domain learning without ``negative transfer'' effects often seen in existing multi-task learning and transfer learning methods.