Related papers: Language-Enhanced Representation Learning for Sing…

Single-cell RNA-seq (scRNA-seq) enables atlas-scale profiling of complex tissues, revealing rare lineages and transient states. Yet, assigning biologically valid cell identities remains a bottleneck because markers are tissue- and…

Large Language Models (LLMs) are advanced deep-learning models designed to understand and generate human language. They work together with models that process data like images, enabling cross-modal understanding. However, existing…

Speech separation (SS) has advanced significantly with neural network-based methods, showing improved performance on signal-level metrics. However, these methods often struggle to maintain speech intelligibility in the separated signals,…

Since its selection as the method of the year in 2013, single-cell technologies have become mature enough to provide answers to complex research questions. With the growth of single-cell profiling technologies, there has also been a…

Span-extraction reading comprehension models have made tremendous advances enabled by the availability of large-scale, high-quality training datasets. Despite such rapid progress and widespread application, extractive reading comprehension…

Single-cell RNA sequencing (scRNA-seq) allows transcriptional profiling, and cell-type annotation of individual cells. However, sample preparation in typical scRNA-seq experiments often homogenizes the samples, thus spatial locations of…

Spatial transcriptomics enables gene expression profiling with spatial context, offering unprecedented insights into the tissue microenvironment. However, most computational models treat genes as isolated numerical features, ignoring the…

Single-cell RNA sequencing (scRNA-seq), especially temporally resolved datasets, enables genome-wide profiling of gene expression dynamics at single-cell resolution across discrete time points. However, current technologies provide only…

Large language models (LLMs) have achieved remarkable progress in reasoning tasks, yet the optimal integration of Supervised Fine-Tuning (SFT) and Reinforcement Learning (RL) remains a fundamental challenge. Through comprehensive analysis…

Machine learning for tabular data remains constrained by poor schema generalization, a challenge rooted in the lack of semantic understanding of structured variables. This challenge is particularly acute in domains like clinical medicine,…

Inspired by the success of large language models (LLM) for DNA and proteins, several LLM for RNA have been developed recently. RNA-LLM uses large datasets of RNA sequences to learn, in a self-supervised way, how to represent each RNA base…

Multimodal signals, including text, audio, image, and video, can be integrated into Semantic Communication (SC) systems to provide an immersive experience with low latency and high quality at the semantic level. However, the multimodal SC…

Molecular property optimization is central to drug discovery, yet many deep learning methods rely on black-box scoring and offer limited control over scaffold preservation, often producing unstable or biologically implausible edits. While…

Integrating histopathology with spatial transcriptomics (ST) provides a powerful opportunity to link tissue morphology with molecular function. Yet most existing multimodal approaches rely on a small set of highly variable genes, which…

Semantic segmentation with limited annotations, such as weakly supervised semantic segmentation (WSSS) and semi-supervised semantic segmentation (SSSS), is a challenging task that has attracted much attention recently. Most leading WSSS…

Interpretation is critical for disease diagnosis, but existing models struggle to balance predictive accuracy with human-understandable rationales. While large language models (LLMs) offer strong reasoning abilities, their clinical use is…

Large language models (LLMs) have been widely adopted due to their remarkable performance across various applications, driving the accelerated development of a large number of diverse models. However, these individual LLMs show limitations…

Single-cell RNA sequencing (scRNA-seq) data simulation is limited by classical methods that rely on linear correlations, failing to capture the intrinsic, nonlinear dependencies. No existing simulator jointly models gene-gene and cell-cell…

Large Language Models (LLMs) excel in various natural language processing tasks, but leveraging them for dense passage embedding remains challenging. This is due to their causal attention mechanism and the misalignment between their…

Induced pluripotent stem cells (iPSCs) provide a great model to study the process of reprogramming and differentiation of stem cells. Single-cell RNA sequencing (scRNA-seq) enables us to investigate the reprogramming process at single-cell…