Time series data are integral to applications across domains such as finance, healthcare, transportation, and environmental science.While recent work has begun to explore time series question answering (QA), existing benchmarks still provide limited coverage of analytical capabilities under a standardized evaluation framework. We introduce TSAQA, a novel unified benchmark designed to broaden task coverage and evaluate diverse temporal analysis capabilities. TSAQA integrates 6 diverse tasks under a single framework ranging fromconventional analysis, including anomaly detection and classification, to advanced analysis, such as characterization, comparison, datatransformation, and temporal relationship analysis. Spanning 210k samples across 13 domains, the dataset employs diverse formats, including true-or-false (TF), multiple-choice (MC), and a novel puzzling (PZ), to comprehensively assess time series analysis. Zero-shotevaluation shows that TSAQA remains challenging for current Large Language Models (LLMs): best-performing commercial model,Gemini-2.5-Flash, achieves 65.08 average accuracy. Although instruction tuning improves open-source models’ performance: the best-performing model, LLaMA-3.1-8B, shows significant room for improvement. We further evaluate language-capable time series foundation models (TSFMs), showing that TSAQA extends beyond general-purpose LLMs. The data are available in https://huggingface.co/datasets/TSAQA/TSAQA-Benchmark.

Effective biomedical information retrieval requires modeling domain semantics and hierarchical relationships among biomedical texts. Existing biomedical generative retrievers built on coarse binary relevance signals, limiting their ability to capture semantic overlap. We propose BioHiCL - Biomedical Retrieval with Hierarchical Multi-Label Contrastive Learning, which leverages hierarchical MeSH annotations to provide structured supervision for multi-label contrastive learning. Our models, BioHiCL-Base (0.1B) and BioHiCL-Large (0.3B), achieve promising performance on biomedical retrieval, sentence similarity, and question answering tasks, while remaining computationally efficient for deployment.

While great success has been achieved in building vision models with Contrastive Language-Image Pre-training (CLIP) over Internet-scale image-text pairs, building transferable Graph Neural Networks (GNNs) with CLIP pipeline is challenging because of the scarcity of labeled data and text supervision, different levels of downstream tasks, and the conceptual gaps between domains. In this work, to address these issues, we propose a multi-modal prompt learning paradigm to effectively adapt pre-trained GNN to downstream tasks and data, given only a few semantically labeled samples, each with extremely weak text supervision. Our new paradigm embeds the graphs directly in the same space as the Large Language Models (LLMs) by learning both graph prompts and text prompts simultaneously. We demonstrate the superior performance of our paradigm in few-shot, multi-task-level, and cross-domain settings. Moreover, we build the first CLIP-style zero-shot classification prototype that can generalize GNNs to unseen classes with extremely weak text supervision.

Sequential sentence classification (SSC) in scientific publications is crucial for supporting downstream tasks such as fine-grained information retrieval and extractive summarization. However, current SSC methods are constrained by model size, sequence length, and single-label setting. To address these limitations, this paper proposes LLM-SSC, a large language model (LLM)-based framework for both single- and multi-label SSC tasks. Unlike previous approaches that employ small- or medium-sized language models, the proposed framework utilizes LLMs to generate SSC labels through designed prompts, which enhance task understanding by incorporating demonstrations and a query to describe the prediction target. We also present a multi-label contrastive learning loss with auto-weighting scheme, enabling the multi-label classification task. To support our multi-label SSC analysis, we introduce and release a new dataset, biorc800, which mainly contains unstructured abstracts in the biomedical domain with manual annotations. Experiments demonstrate LLM-SSC’s strong performance in SSC under both in-context learning and task-specific tuning settings. We release biorc800 and our code at: https://github.com/ScienceNLP-Lab/LLM-SSC.