Community science observational datasets are useful in epidemiology and ecology for modeling species distributions, but the heterogeneous nature of the data presents significant challenges for standardization, data quality assurance and control, and workflow management. In this paper, we present a data workflow for cleaning and harmonizing multiple community science datasets, which we implement in a case study using eBird, iNaturalist, GBIF, and other datasets to model the impact of highly pathogenic avian influenza in populations of birds in the subantarctic. We predict population sizes for several species where the demographics are not known, and we present novel estimates for potential mortality rates from HPAI for those species, based on a novel aggregated dataset of mortality rates in the subantarctic.

Understanding the structure of the homology embedding can thus disclose geometric or topological information from the data.

Despite growing research on bias in large language models (LLMs), most work has focused on gender and race, with little attention to religious identity. This paper explores how religion is internally represented in LLMs and how it intersects with concepts of violence and geography. Using mechanistic interpretability and Sparse Autoencoders (SAEs) via the Neuronpedia API, we analyze latent feature activations across five models. We measure overlap between religion- and violence-related prompts and probe semantic patterns in activation contexts. While all five religions show comparable internal cohesion, Islam is more frequently linked to features associated with violent language. In contrast, geographic associations largely reflect real-world religious demographics, revealing how models embed both factual distributions and cultural stereotypes. These findings highlight the value of structural analysis in auditing not just outputs but also internal representations that shape model behavior.

Understanding the structure of the homology embedding can thus disclose geometric or topological information from the data.

Retrieval-Augmented Generation (RAG) enhances the performance of Large Language Models (LLMs) by incorporating external knowledge. However, LLMs still encounter challenges in effectively utilizing the knowledge from retrieved documents, often being misled by irrelevant or noisy information. To address this issue, we introduce RankCoT, a knowledge refinement method that incorporates reranking signals in generating CoT-based summarization for knowledge refinement based on given query and all retrieval documents. During training, RankCoT prompts the LLM to generate Chain-of-Thought (CoT) candidates based on the query and individual documents. It then fine-tunes the LLM to directly reproduce the best CoT from these candidate outputs based on all retrieved documents, which requires LLM to filter out irrelevant documents during generating CoT-style summarization. Additionally, RankCoT incorporates a self-reflection mechanism that further refines the CoT outputs, resulting in higher-quality training data. Our experiments demonstrate the effectiveness of RankCoT, showing its superior performance over other knowledge refinement models. Further analysis reveals that RankCoT can provide shorter but effective refinement results, enabling the generator to produce more accurate answers. All code and data are available at https://github.com/NEUIR/RankCoT.

Marine heatwaves (MHWs), an extreme climate phenomenon, pose significant challenges to marine ecosystems and industries, with their frequency and intensity increasing due to climate change. This study introduces an integrated deep learning approach to forecast short-to-long-term MHWs on a global scale. The approach combines graph representation for modeling spatial properties in climate data, imbalanced regression to handle skewed data distributions, and temporal diffusion to enhance forecast accuracy across various lead times. To the best of our knowledge, this is the first study that synthesizes three spatiotemporal anomaly methodologies to predict MHWs. Additionally, we introduce a method for constructing graphs that avoids isolated nodes and provide a new publicly available sea surface temperature anomaly graph dataset. We examine the trade-offs in the selection of loss functions and evaluation metrics for MHWs. We analyze spatial patterns in global MHW predictability by focusing on historical hotspots, and our approach demonstrates better performance compared to traditional numerical models in regions such as the middle south Pacific, equatorial Atlantic near Africa, south Atlantic, and high-latitude Indian Ocean. We highlight the potential of temporal diffusion to replace the conventional sliding window approach for long-term forecasts, achieving improved prediction up to six months in advance. These insights not only establish benchmarks for machine learning applications in MHW forecasting but also enhance understanding of general climate forecasting methodologies.

Ocean dynamics plays a crucial role in driving global weather and climate patterns. Accurate and efficient modeling of ocean dynamics is essential for improved understanding of complex ocean circulation and processes, for predicting climate variations and their associated teleconnections, and for addressing the challenges of climate change. While great efforts have been made to improve numerical Ocean General Circulation Models (OGCMs), accurate forecasting of global oceanic variations for multi-year remains to be a long-standing challenge. Here, we introduce ORCA (Oceanic Reliable foreCAst), the first data-driven model predicting global ocean circulation from multi-year to decadal time scales. ORCA accurately simulates the three-dimensional circulations and dynamics of the global ocean with high physical consistency. Hindcasts of key oceanic variables demonstrate ORCA's remarkable prediction skills in predicting ocean variations compared with state-of-the-art numerical OGCMs and abilities in capturing occurrences of extreme events at the subsurface ocean and ENSO vertical patterns. These results demonstrate the potential of data-driven ocean models for providing cheap, efficient, and accurate global ocean modeling and prediction. Moreover, ORCA stably and faithfully emulates ocean dynamics at decadal timescales, demonstrating its potential even for climate projections. The model will be available at https://github.com/OpenEarthLab/ORCA.

Retrieval-augmented language models (RALMs) improve performance by accessing long-tail and up-to-date knowledge from external data stores, but are challenging to build. Existing approaches require either expensive retrieval-specific modifications to LM pre-training or use post-hoc integration of the data store that leads to suboptimal performance. We introduce Retrieval-Augmented Dual Instruction Tuning (RA-DIT), a lightweight fine-tuning methodology that provides a third option by retrofitting any LLM with retrieval capabilities. Our approach operates in two distinct fine-tuning steps: (1) one updates a pre-trained LM to better use retrieved information, while (2) the other updates the retriever to return more relevant results, as preferred by the LM. By fine-tuning over tasks that require both knowledge utilization and contextual awareness, we demonstrate that each stage yields significant performance improvements, and using both leads to additional gains. Our best model, RA-DIT 65B, achieves state-of-the-art performance across a range of knowledge-intensive zero- and few-shot learning benchmarks, significantly outperforming existing in-context RALM approaches by up to +8.9% in 0-shot setting and +1.4% in 5-shot setting on average.

The null space of the $k$-th order Laplacian $\mathbf{\mathcal L}_k$, known as the {\em $k$-th homology vector space}, encodes the non-trivial topology of a manifold or a network. Understanding the structure of the homology embedding can thus disclose geometric or topological information from the data. The study of the null space embedding of the graph Laplacian $\mathbf{\mathcal L}_0$ has spurred new research and applications, such as spectral clustering algorithms with theoretical guarantees and estimators of the Stochastic Block Model. In this work, we investigate the geometry of the $k$-th homology embedding and focus on cases reminiscent of spectral clustering. Namely, we analyze the {\em connected sum} of manifolds as a perturbation to the direct sum of their homology embeddings. We propose an algorithm to factorize the homology embedding into subspaces corresponding to a manifold's simplest topological components. The proposed framework is applied to the {\em shortest homologous loop detection} problem, a problem known to be NP-hard in general. Our spectral loop detection algorithm scales better than existing methods and is effective on diverse data such as point clouds and images.

End-to-end neural models have made significant progress in question answering, however recent studies show that these models implicitly assume that the answer and evidence appear close together in a single document. In this work, we propose the Coarse-grain Fine-grain Coattention Network (CFC), a new question answering model that combines information from evidence across multiple documents. The CFC consists of a coarse-grain module that interprets documents with respect to the query then finds a relevant answer, and a fine-grain module which scores each candidate answer by comparing its occurrences across all of the documents with the query. We design these modules using hierarchies of coattention and self-attention, which learn to emphasize different parts of the input. On the Qangaroo WikiHop multi-evidence question answering task, the CFC obtains a new state-of-the-art result of 70.6% on the blind test set, outperforming the previous best by 3% accuracy despite not using pretrained contextual encoders.