We propose loss function week enforcement of the velocity relations between time-series points in the Kinematic-Informed artificial Neural Networks (KINN) for long-term stock prediction. Problems of the series volatility, Out-of-Distribution (OOD) test data, and outliers in training data are addressed by (Artificial Neural Networks) ANN's learning not only future points prediction but also by learning velocity relations between the points, such a way as avoiding unrealistic spurious predictions. The presented loss function penalizes not only errors between predictions and supervised label data, but also errors between the next point prediction and the previous point plus velocity prediction. The loss function is tested on the multiple popular and exotic AR ANN architectures, and around fifteen years of Dow Jones function demonstrated statistically meaningful improvement across the normalization-sensitive activation functions prone to spurious behaviour in the OOD data conditions. Results show that such architecture addresses the issue of the normalization in the auto-regressive models that break the data topology by weakly enforcing the data neighbourhood proximity (relation) preservation during the ANN transformation.

Type 2 Diabetes Mellitus (T2DM) is a chronic metabolic disease that affects millions of people worldwide. Early detection is crucial as it can alter pancreas function through morphological changes and increased deposition of ectopic fat, eventually leading to organ damage. While studies have shown an association between T2DM and pancreas volume and fat content, the role of increased pancreatic surface lobularity (PSL) in patients with T2DM has not been fully investigated. In this pilot work, we propose a fully automated approach to delineate the pancreas and other abdominal structures, derive CT imaging biomarkers, and opportunistically screen for T2DM. Four deep learning-based models were used to segment the pancreas in an internal dataset of 584 patients (297 males, 437 non-diabetic, age: 45$\pm$15 years). PSL was automatically detected and it was higher for diabetic patients (p=0.01) at 4.26 $\pm$ 8.32 compared to 3.19 $\pm$ 3.62 for non-diabetic patients. The PancAP model achieved the highest Dice score of 0.79 $\pm$ 0.17 and lowest ASSD error of 1.94 $\pm$ 2.63 mm (p$<$0.05). For predicting T2DM, a multivariate model trained with CT biomarkers attained 0.90 AUC, 66.7\% sensitivity, and 91.9\% specificity. Our results suggest that PSL is useful for T2DM screening and could potentially help predict the early onset of T2DM.

Protein structure determination has long been one of the primary challenges of structural biology, to which deep machine learning (ML)-based approaches have increasingly been applied. However, these ML models generally do not incorporate the experimental measurements directly, such as X-ray crystallographic diffraction data. To this end, we explore an approach that more tightly couples these traditional crystallographic and recent ML-based methods, by training a hybrid 3-d vision transformer and convolutional network on inputs from both domains. We make use of two distinct input constructs / Patterson maps, which are directly obtainable from crystallographic data, and "partial structure" template maps derived from predicted structures deposited in the AlphaFold Protein Structure Database with subsequently omitted residues. With these, we predict electron density maps that are then post-processed into atomic models through standard crystallographic refinement processes. Introducing an initial dataset of small protein fragments taken from Protein Data Bank entries and placing them in hypothetical crystal settings, we demonstrate that our method is effective at both improving the phases of the crystallographic structure factors and completing the regions missing from partial structure templates, as well as improving the agreement of the electron density maps with the ground truth atomic structures. This work has been accepted in Acta Crystallographic section D.

Deep Neural Networks (DNNs) rely on inherent fluctuations in their internal parameters (weights and biases) to effectively navigate the complex optimization landscape and achieve robust performance. While these fluctuations are recognized as crucial for escaping local minima and improving generalization, their precise relationship with fundamental hyperparameters remains underexplored. A significant knowledge gap exists concerning how the learning rate, a critical parameter governing the training process, directly influences the dynamics of these neural fluctuations. This study systematically investigates the impact of varying learning rates on the magnitude and character of weight and bias fluctuations within a neural network. We trained a model using distinct learning rates and analyzed the corresponding parameter fluctuations in conjunction with the network's final accuracy. Our findings aim to establish a clear link between the learning rate's value, the resulting fluctuation patterns, and overall model performance. By doing so, we provide deeper insights into the optimization process, shedding light on how the learning rate mediates the crucial exploration-exploitation trade-off during training. This work contributes to a more nuanced understanding of hyperparameter tuning and the underlying mechanics of deep learning.

In spite of the remarkable advancements in the field of Natural Language Processing, the task of Entity Linking (EL) remains challenging in the field of humanities due to complex document typologies, lack of domain-specific datasets and models, and long-tail entities, i.e., entities under-represented in Knowledge Bases (KBs). The goal of this paper is to address these issues with two main contributions. The first contribution is DELICATE, a novel neuro-symbolic method for EL on historical Italian which combines a BERT-based encoder with contextual information from Wikidata to select appropriate KB entities using temporal plausibility and entity type consistency. The second contribution is ENEIDE, a multi-domain EL corpus in historical Italian semi-automatically extracted from two annotated editions spanning from the 19th to the 20th century and including literary and political texts. Results show how DELICATE outperforms other EL models in historical Italian even if compared with larger architectures with billions of parameters. Moreover, further analyses reveal how DELICATE confidence scores and features sensitivity provide results which are more explainable and interpretable than purely neural methods.

Existing work investigates the reasoning capabilities of large language models (LLMs) to uncover their limitations, human-like biases and underlying processes. Such studies include evaluations of base LLMs (pre-trained on unlabeled corpora only) for this purpose. Our position paper argues that evaluating base LLMs' reasoning capabilities raises inherent methodological concerns that are overlooked in such existing studies. We highlight the fundamental mismatch between base LLMs' pretraining objective and normative qualities, such as correctness, by which reasoning is assessed. In particular, we show how base LLMs generate logically valid or invalid conclusions as coincidental byproducts of conforming to purely linguistic patterns of statistical plausibility. This fundamental mismatch challenges the assumptions that (a) base LLMs' outputs can be assessed as their bona fide attempts at correct answers or conclusions; and (b) conclusions about base LLMs' reasoning can generalize to post-trained LLMs optimized for successful instruction-following. We call for a critical re-examination of existing work that relies implicitly on these assumptions, and for future work to account for these methodological pitfalls.

Retrieval-Augmented Generation (RAG) has emerged as a powerful framework for enhancing the capabilities of Large Language Models (LLMs) by integrating retrieval-based methods with generative models. As external knowledge repositories continue to expand and the parametric knowledge within models becomes outdated, a critical challenge for RAG systems is resolving conflicts between retrieved external information and LLMs' internal knowledge, which can significantly compromise the accuracy and reliability of generated content. However, existing approaches to conflict resolution typically operate at the token or semantic level, often leading to fragmented and partial understanding of factual discrepancies between LLMs' knowledge and context, particularly in knowledge-intensive tasks. To address this limitation, we propose TruthfulRAG, the first framework that leverages Knowledge Graphs (KGs) to resolve factual-level knowledge conflicts in RAG systems. Specifically, TruthfulRAG constructs KGs by systematically extracting triples from retrieved content, utilizes query-based graph retrieval to identify relevant knowledge, and employs entropy-based filtering mechanisms to precisely locate conflicting elements and mitigate factual inconsistencies, thereby enabling LLMs to generate faithful and accurate responses. Extensive experiments reveal that TruthfulRAG outperforms existing methods, effectively alleviating knowledge conflicts and improving the robustness and trustworthiness of RAG systems.

Cultural Heritage texts contain rich knowledge that is difficult to query systematically due to the challenges of converting unstructured discourse into structured Knowledge Graphs (KGs). This paper introduces ATR4CH (Adaptive Text-to-RDF for Cultural Heritage), a systematic five-step methodology for Large Language Model-based Knowledge Extraction from Cultural Heritage documents. We validate the methodology through a case study on authenticity assessment debates. Methodology - ATR4CH combines annotation models, ontological frameworks, and LLM-based extraction through iterative development: foundational analysis, annotation schema development, pipeline architecture, integration refinement, and comprehensive evaluation. We demonstrate the approach using Wikipedia articles about disputed items (documents, artifacts...), implementing a sequential pipeline with three LLMs (Claude Sonnet 3.7, Llama 3.3 70B, GPT-4o-mini). Findings - The methodology successfully extracts complex Cultural Heritage knowledge: 0.96-0.99 F1 for metadata extraction, 0.7-0.8 F1 for entity recognition, 0.65-0.75 F1 for hypothesis extraction, 0.95-0.97 for evidence extraction, and 0.62 G-EVAL for discourse representation. Smaller models performed competitively, enabling cost-effective deployment. Originality - This is the first systematic methodology for coordinating LLM-based extraction with Cultural Heritage ontologies. ATR4CH provides a replicable framework adaptable across CH domains and institutional resources. Research Limitations - The produced KG is limited to Wikipedia articles. While the results are encouraging, human oversight is necessary during post-processing. Practical Implications - ATR4CH enables Cultural Heritage institutions to systematically convert textual knowledge into queryable KGs, supporting automated metadata enrichment and knowledge discovery.

The reliable DNN-based perception of pedestrians represents a crucial step towards automated driving systems. Currently applied metrics for a subset-based evaluation prohibit an application-oriented performance evaluation of DNNs for pedestrian detection. We argue that the current limitation in evaluation can be mitigated by the use of image segmentation. In this work, we leverage the instance and semantic segmentation of Cityscapes to describe a rule-based categorization of potential detection errors for CityPersons. Based on our systematic categorization, the filtered log-average miss rate as a new performance metric for pedestrian detection is introduced. Additionally, we derive and analyze a meaningful upper bound for the confidence threshold. We train and evaluate four backbones as part of a generic pedestrian detector and achieve state-of-the-art performance on CityPersons by using a rather simple architecture. Our results and comprehensible analysis show benefits of the newly proposed performance metrics.

Despite the remarkable success of the LLaVA architecture for vision-language tasks, its design inherently struggles to effectively integrate visual features due to the inherent mismatch between text and vision modalities. We tackle this issue from a novel perspective in which the LLM not only serves as a language model but also a powerful vision encoder. To this end, we present LLaViT - Large Language Models as extended Vision Transformers - which enables the LLM to simultaneously function as a vision encoder through three key modifications: (1) learning separate QKV projections for vision modality, (2) enabling bidirectional attention on visual tokens, and (3) incorporating both global and local visual representations. Through extensive controlled experiments on a wide range of LLMs, we demonstrate that LLaViT significantly outperforms the baseline LLaVA method on a multitude of benchmarks, even surpassing models with double its parameter count, establishing a more effective approach to vision-language modeling.