相关论文: CytoITMprobe: a network information flow plugin fo…

Summary: Founded upon diffusion with damping, ITM Probe is an application for modeling information flow in protein interaction networks without prior restriction to the sub-network of interest. Given a context consisting of desired origins…

Motivation: Network visualizations of complex biological datasets usually result in 'hairball' images, which do not discriminate network modules. Results: We present the EntOptLayout Cytoscape plug-in based on a recently developed network…

Summary: CytoSaddleSum provides Cytoscape users with access to the functionality of SaddleSum, a functional enrichment tool based on sum-of-weight scores. It operates by querying SaddleSum locally (using the standalone version) or remotely…

Interactive Theorem Provers (ITPs) are an indispensable tool in the arsenal of formal method experts as a platform for construction and (formal) verification of proofs. The complexity of the proofs in conjunction with the level of expertise…

Many cytoskeletal systems are now sufficiently well known to permit their precise quantitative modelling. Microtubule and actin filaments are well characterized, and the associated proteins are often known, as well as their abundance and…

To facilitate the analysis of large-scale high-throughput capillary electrophoresis data, we previously proposed a suite of efficient analysis software named HiTRACE (High Throughput Robust Analysis of Capillary Electrophoresis). HiTRACE…

Background. Biological networks have growing importance for the interpretation of high-throughput "omics" data. Statistical and combinatorial methods allow to obtain mechanistic insights through the extraction of smaller subnetwork modules.…

This paper introduces ThoughtProbe, a novel inference time framework that leverages the hidden reasoning features of Large Language Models (LLMs) to improve their reasoning performance. Unlike previous works that manipulate the hidden…

Extracting MITRE ATT&CK techniques from cyber threat intelligence (CTI) reports is an open-set, multi-label problem requiring both high recall (not missing techniques) and high precision (not hallucinating unsupported ones). Existing…

The behavior of Internet applications is shaped by congestion dynamics at bottleneck links, yet data capturing application behavior across diverse bottleneck regimes remains scarce. Bridging this gap requires a data-generation substrate…

The last twenty years have seen the development and popularity of network measurement infrastructures. Internet measurement platforms have become common and have demonstrated their relevance in Internet understanding and security…

The successful operation of tokamak experiments requires accurate documentation, tracking, and visualization of diagnostic instruments, particularly electrical probes. Traditionally, this metadata is maintained manually through handwritten…

Prompts are the interface for eliciting the capabilities of large language models (LLMs). Understanding their structure and components is critical for analyzing LLM behavior and optimizing performance. However, the field lacks a…

Background: Biological networks have a growing importance for the interpretation of high-throughput omics data. Integrative network analysis makes use of statistical and combinatorial methods to extract smaller subnetwork modules, and…

Summary: The ModuLand plug-in provides Cytoscape users an algorithm for determining extensively overlapping network modules. Moreover, it identifies several hierarchical layers of modules, where meta-nodes of the higher hierarchical layer…

In the last few years the Web has progressively acquired the status of an infrastructure for social computation that allows researchers to coordinate the cognitive abilities of human agents in on-line communities so to steer the collective…

Interactive theorem provers (ITPs) are powerful tools for the formal verification of mathematical proofs down to the axiom level. However, their lack of a natural language interface remains a significant limitation. Recent advancements in…

We present Etymo (https://etymo.io), a discovery engine to facilitate artificial intelligence (AI) research and development. It aims to help readers navigate a large number of AI-related papers published every week by using a novel form of…

Large-scale network experiments is a challenging problem. Simulations, emulations, and real-world testbeds all have their advantages and disadvantages. In this paper we present LiteLab, a light-weight platform specialized for large-scale…

With the wide application of IoT and industrial IoT technologies, the network structure is becoming more and more complex, and the traffic scale is growing rapidly, which makes the traditional security protection mechanism face serious…