Wei Wu

Wei Wu, Qiuyi Li, Mingyang Li et al.

Advancements in DNA sequencing technologies have significantly improved our ability to decode genomic sequences. However, the prediction and interpretation of these sequences remain challenging due to the intricate nature of genetic material. Large language models (LLMs) have introduced new opportunities for biological sequence analysis. Recent developments in genomic language models have underscored the potential of LLMs in deciphering DNA sequences. Nonetheless, existing models often face limitations in robustness and application scope, primarily due to constraints in model structure and training data scale. To address these limitations, we present GENERator, a generative genomic foundation model featuring a context length of 98k base pairs (bp) and 1.2B parameters. Trained on an expansive dataset comprising 386B bp of eukaryotic DNA, the GENERator demonstrates state-of-the-art performance across both established and newly proposed benchmarks. The model adheres to the central dogma of molecular biology, accurately generating protein-coding sequences that translate into proteins structurally analogous to known families. It also shows significant promise in sequence optimization, particularly through the prompt-responsive generation of enhancer sequences with specific activity profiles. These capabilities position the GENERator as a pivotal tool for genomic research and biotechnological advancement, enhancing our ability to interpret and predict complex biological systems and enabling precise genomic interventions. Implementation details and supplementary resources are available at https://github.com/GenerTeam/GENERator.

Tianfu Wang, Liwei Deng, Xi Chen et al.

Resource allocation (RA) is critical to efficient service deployment in Network Function Virtualization (NFV), a transformative networking paradigm. Recently, deep Reinforcement Learning (RL)-based methods have been showing promising potential to address this complexity. However, the lack of a systematic benchmarking framework and thorough analysis hinders the exploration of emerging networks and the development of more robust algorithms while causing inconsistent evaluation. In this paper, we introduce Virne, a comprehensive benchmarking framework for the NFV-RA problem, with a focus on supporting deep RL-based methods. Virne provides customizable simulations for diverse network scenarios, including cloud, edge, and 5G environments. It also features a modular and extensible implementation pipeline that supports over 30 methods of various types, and includes practical evaluation perspectives beyond effectiveness, such as scalability, generalization, and scalability. Furthermore, we conduct in-depth analysis through extensive experiments to provide valuable insights into performance trade-offs for efficient implementation and offer actionable guidance for future research directions. Overall, with its diverse simulations, rich implementations, and extensive evaluation capabilities, Virne could serve as a comprehensive benchmark for advancing NFV-RA methods and deep RL applications. The code is publicly available at https://github.com/GeminiLight/virne.