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Jia Ling

Publications and source records attributed to Jia Ling.

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H2Table: Hierarchical Hypergraph-Enhanced Large Language Models for Complex Table Reasoning

Tables are ubiquitous across diverse domains, yet reasoning over them remains a significant challenge for modern large language models (LLMs). Current approaches typically linearize tables into sequences, inherently overlooking their intrinsic two-dimensional and hierarchical structure. To address this, we propose H2Table (Hierarchical Hypergraph-Enhanced Table Reasoning), a novel framework that represents complex tables as hierarchical nested hypergraphs. To process this representation, we design a tailored hypergraph encoder to facilitate message passing between hyperedges (headers) and nodes (cells), thereby perceiving the semantic entailment relationships between them within complex tables. Furthermore, we introduce a set of learnable query vectors acting as a lightweight bridge to extract representative structural embeddings from the encoder into the LLM. Experimental results demonstrate that our approach effectively handles complex table question answering tasks with hierarchical nested headers. Notably, on the HiTab dataset, H2Table achieves an average improvement of 22.88% over state-of-the-art baselines on highly complex tables with a nesting depth of four. Our code is available at: https://github.com/lila120/h2table.

cs.AI

Transcription factor clusters as information transfer agents

Deciphering how genes interpret information from the concentration of transcription factors (TFs) within the cell nucleus remains a fundamental question in gene regulation. Recent advancements have unveiled the heterogeneous distribution of TF molecules in the nucleus, posing challenges to the precise decoding of concentration signals. To explore this phenomenon, we employ high-resolution single-cell imaging of a fluorescently tagged TF protein, Bicoid, in living fly embryos. We show that accumulation of Bicoid in submicron clusters preserves the spatial information of the maternal Bicoid gradient, and that cluster intensity, size, and frequency offer remarkably precise spatial cues. We further discover that various known gene targets of Bicoid activation colocalize with clusters and that for the target gene Hunchback, this colocalization is dependent on its enhancer binding affinity. Modeling information transfer through these clusters suggests that clustering offers a more rapid sensing mechanism for global nuclear concentrations than freely diffusing TF molecules detected by simple enhancers.

physics.bio-ph