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Zahra Ahmadi

Publications and source records attributed to Zahra Ahmadi.

At least 19 recordsLinked to original sources
arXiv2026

From Literature to Hypotheses: An AI Co-Scientist System for Biomarker-Guided Drug Combination Hypothesis Generation

The rapid growth of biomedical evidence makes it difficult to translate biomarker mechanisms into actionable drug combination hypotheses. We present CoDHy, an interactive AI co-scientist for biomarker-guided hypothesis generation in oncology. CoDHy constructs task-specific knowledge graphs from curated databases and biomedical literature, then combines graph embeddings with agent-based reasoning to generate, validate, and rank evidence-grounded drug combinations. Through a web interface, researchers specify the biomarker, cancer context, and literature scope; inspect supporting evidence and intermediate results; and iteratively refine the generated hypotheses. The demonstration presents CoDHy's end-to-end workflow and shows how researchers can interactively explore and compare mechanistically supported drug combinations while remaining in control of hypothesis prioritization.

cs.CL↗
arXiv2026

Deviations from Gaussian White Noise in Stochastic Inflation

Stochastic inflation is widely used as a framework to study scalar field perturbations on an inflationary spacetime in a classical manner. In Starobinsky's seminal work and most of the subsequent literature, stochastic inflation is driven by a white noise. This is a consequence of a number of assumptions about the background metric, the window function, and the initial state. Given that noise is the central object in this approach, it is worthwhile to investigate how the noise is modified upon relaxing some of these assumptions. We show that while deviation from an exact de Sitter background maintains the white character of the noise (only with a time-dependent amplitude), deviation from the Heaviside window function or the Bunch-Davies initial state can produce colored noise. We calculate the power spectrum and the memory of the noise for a toy model with a piecewise linear window function. We also show that, in order to produce a colored noise, the deviation from the Bunch-Davies vacuum should essentially be a sum of two-particle states. The resulting noise is non-stationary and we find its instantaneous power spectrum in a concrete example. Furthermore, while deviations from de Sitter background and sharp cutoff do not affect Gaussianity, changing the initial state yields a non-Gaussian noise.

gr-qc↗
arXiv2026

LLM-Based Scientific Peer Review: Methods, Benchmarks, and Reliability Challenges

The rapid growth of scientific submissions has pushed traditional peer review toward its scalability limits, motivating the exploration of large language models (LLMs) as intelligent automated evaluation assistants. Although recent studies show that LLMs can generate fluent critiques and approximate reviewer scores, their reliability, robustness, and security as decision-support systems remain insufficiently understood. This survey offers a systems-level analysis of LLM-based scientific peer review, focusing on two core evaluative functions: critique generation and score prediction. We present a structured taxonomy of modeling approaches (including prompt-based, supervised, retrieval-augmented, and alignment-optimized approaches), and synthesize empirical findings across existing benchmarks. We analyze dataset constraints, evaluation shortcomings, and domain concentration biases that limit current assessment practices. Beyond performance metrics, we identify emerging robustness risks, including prompt injection, data poisoning, retrieval vulnerabilities, and reward hacking, which expose automated review pipelines to strategic manipulation. From a data mining perspective, we outline key open challenges in modeling subjective disagreement and cross-domain generalization. By reframing automated peer review as a high-stakes, multi-objective decision problem, this survey provides a roadmap for developing robust, transparent, and trustworthy AI-assisted scientific evaluation systems.

cs.CL↗
arXiv2026

Are We Truly Innovating? A Qualitative and Quantitative Study of Originality in AI Research Papers

Assessing originality in AI research is arguably the most consequential yet least reliable step in peer review. Reviewer judgments of originality remain opaque, inconsistent, and dependent on comparisons to prior work that are often incomplete. In this paper, we present a large-scale, data-driven qualitative and quantitative analysis of research originality based on over 100,000 peer-review reports from leading AI venues, spanning a period of rapid growth in the field. Leveraging structured, semantically retrieved prior work and signals embedded in expert reviewer assessments, we systematically characterize how originality is perceived in practice and identify the key dimensions that most strongly influence novelty judgments. Our analysis yields a fine-grained, evidence-based framework that equips both authors and reviewers with actionable insights into how originality is evaluated. In addition, we evaluate the reliability of current large language model (LLM) agents in assessing originality. We find that these models tend to systematically overestimate novelty and struggle to detect conceptual plagiarism, particularly in the presence of paraphrasing. We release our dataset, trained models, and code at: https://anonymous.4open.science/r/Novelty-Reviewer-365C/.

cs.CL↗
arXiv2026

Cross-Modal-Domain Generalization Through Semantically Aligned Discrete Representations

Multimodal learning seeks to integrate information across diverse sensory sources, yet current approaches struggle to balance cross-modal generalizability with modality-specific structure. Continuous (implicit) methods preserve fine-grained priors but render generalization challenging, while discrete (explicit) approaches enforce shared prototypes at the expense of modality specificity. We introduce CoDAAR (Cross-modal Discrete Alignment And Reconstruction), a novel framework that resolves this long-standing trade-off by establishing semantic consensus across modality-specific codebooks through index-level alignment. This design uniquely allows CoDAAR to preserve modality-unique structures while achieving generalizable cross-modal representations within a unified discrete space. CoDAAR combines two complementary mechanisms: Discrete Temporal Alignment (DTA), which enables fine-grained temporal quantization, and Cascading Semantic Alignment (CSA), which promotes progressive cross-modal semantic agreement. Together, they establish a competition-free unified representation space. Trained with self-supervised reconstruction objectives on paired multimodal sequences, CoDAAR demonstrates robust cross-modal and cross-domain generalization. Across Cross-Modal Generalization benchmarks, including event classification, localization, video segmentation, and cross-dataset transfer, CoDAAR achieves state-of-the-art performance, establishing a new paradigm for discrete and generalizable multimodal representation learning.

cs.CV↗
arXiv2026

Dynamic Sheaf Diffusion Networks with Adaptive Local Structure for Heterogeneous Spatio-Temporal Graph Learning

Spatio-temporal processes often exhibit highly heterogeneous and non-intuitive responses to localized disruptions, limiting the effectiveness of conventional message passing approaches in modeling local heterogeneity. We reformulate spatio-temporal forecasting as the problem of learning information flow over locally structured spaces, rather than propagating globally aligned node representations. To this end, we introduce a spatio-temporal sheaf diffusion graph neural network (ST-Sheaf GNN) that embeds graph topology into sheaf-based vector spaces connected by learned linear restriction maps. Unlike prior approaches relying on static or globally shared transformations, our model learns dynamic restriction maps that evolve over time and adapt to local spatio-temporal patterns, enabling more expressive interactions. The proposed framework both theoretically guarantees and empirically demonstrates evidence that the proposed diffusion mechanism mitigates oversmoothing, preserving discriminative node representations even with increasing diffusion layer depth. Experiments on diverse real-world spatio-temporal forecasting benchmarks across multiple domains demonstrate state-of-the-art performance, highlighting the effectiveness of sheaf topological representations as a principled foundation for spatio-temporal graph learning. The code is available at: https://anonymous.4open.science/r/ST-SheafGNN-6523/.

cs.LG↗
arXiv2026

Orthogonalized Multimodal Contrastive Learning with Asymmetric Masking for Structured Representations

Multimodal learning seeks to integrate information from heterogeneous sources, where signals may be shared across modalities, specific to individual modalities, or emerge only through their interaction. While self-supervised multimodal contrastive learning has achieved remarkable progress, most existing methods predominantly capture redundant cross-modal signals, often neglecting modality-specific (unique) and interaction-driven (synergistic) information. Recent extensions broaden this perspective, yet they either fail to explicitly model synergistic interactions or learn different information components in an entangled manner, leading to incomplete representations and potential information leakage. We introduce \textbf{COrAL}, a principled framework that explicitly and simultaneously preserves redundant, unique, and synergistic information within multimodal representations. COrAL employs a dual-path architecture with orthogonality constraints to disentangle shared and modality-specific features, ensuring a clean separation of information components. To promote synergy modeling, we introduce asymmetric masking with complementary view-specific patterns, compelling the model to infer cross-modal dependencies rather than rely solely on redundant cues. Extensive experiments on synthetic benchmarks and diverse MultiBench datasets demonstrate that COrAL consistently matches or outperforms state-of-the-art methods while exhibiting low performance variance across runs. These results indicate that explicitly modeling the full spectrum of multimodal information yields more stable, reliable, and comprehensive embeddings.

cs.LG↗
arXiv2026

Cross-Modal Binary Attention: An Energy-Efficient Fusion Framework for Audio-Visual Learning

Effective multimodal fusion requires mechanisms that can capture complex cross-modal dependencies while remaining computationally scalable for real-world deployment. Existing audio-visual fusion approaches face a fundamental trade-off: attention-based methods effectively model cross-modal relationships but incur quadratic computational complexity that prevents hierarchical, multi-scale architectures, while efficient fusion strategies rely on simplistic concatenation that fails to extract complementary cross-modal information. We introduce CMQKA, a novel cross-modal fusion mechanism that achieves linear O(N) complexity through efficient binary operations, enabling scalable hierarchical fusion previously infeasible with conventional attention. CMQKA employs bidirectional cross-modal Query-Key attention to extract complementary spatiotemporal features and uses learnable residual fusion to preserve modality-specific characteristics while enriching representations with cross-modal information. Building upon CMQKA, we present SNNergy, an energy-efficient multimodal fusion framework with a hierarchical architecture that processes inputs through progressively decreasing spatial resolutions and increasing semantic abstraction. This multi-scale fusion capability allows the framework to capture both local patterns and global context across modalities. Implemented with event-driven binary spike operations, SNNergy achieves remarkable energy efficiency while maintaining fusion effectiveness and establishing new state-of-the-art results on challenging audio-visual benchmarks, including CREMA-D, AVE, and UrbanSound8K-AV, significantly outperforming existing multimodal fusion baselines. Our framework advances multimodal fusion by introducing a scalable fusion mechanism that enables hierarchical cross-modal integration with practical energy efficiency for real-world audio-visual intelligence systems.

cs.MM↗
arXiv2025

CubeletWorld: A New Abstraction for Scalable 3D Modeling

Modern cities produce vast streams of heterogeneous data, from infrastructure maps to mobility logs and satellite imagery. However, integrating these sources into coherent spatial models for planning and prediction remains a major challenge. Existing agent-centric methods often rely on direct environmental sensing, limiting scalability and raising privacy concerns. This paper introduces CubeletWorld, a novel framework for representing and analyzing urban environments through a discretized 3D grid of spatial units called cubelets. This abstraction enables privacy-preserving modeling by embedding diverse data signals, such as infrastructure, movement, or environmental indicators, into localized cubelet states. CubeletWorld supports downstream tasks such as planning, navigation, and occupancy prediction without requiring agent-driven sensing. To evaluate this paradigm, we propose the CubeletWorld State Prediction task, which involves predicting the cubelet state using a realistic dataset containing various urban elements like streets and buildings through this discretized representation. We explore a range of modified core models suitable for our setting and analyze challenges posed by increasing spatial granularity, specifically the issue of sparsity in representation and scalability of baselines. In contrast to existing 3D occupancy prediction models, our cubelet-centric approach focuses on inferring state at the spatial unit level, enabling greater generalizability across regions and improved privacy compliance. Our results demonstrate that CubeletWorld offers a flexible and extensible framework for learning from complex urban data, and it opens up new possibilities for scalable simulation and decision support in domains such as socio-demographic modeling, environmental monitoring, and emergency response. The code and datasets can be downloaded from here.

cs.LG↗
arXiv2025

Learning from the Right Patches: A Two-Stage Wavelet-Driven Masked Autoencoder for Histopathology Representation Learning

Whole-slide images are central to digital pathology, yet their extreme size and scarce annotations make self-supervised learning essential. Masked Autoencoders (MAEs) with Vision Transformer backbones have recently shown strong potential for histopathology representation learning. However, conventional random patch sampling during MAE pretraining often includes irrelevant or noisy regions, limiting the model's ability to capture meaningful tissue patterns. In this paper, we present a lightweight and domain-adapted framework that brings structure and biological relevance into MAE-based learning through a wavelet-informed patch selection strategy. WISE-MAE applies a two-step coarse-to-fine process: wavelet-based screening at low magnification to locate structurally rich regions, followed by high-resolution extraction for detailed modeling. This approach mirrors the diagnostic workflow of pathologists and improves the quality of learned representations. Evaluations across multiple cancer datasets, including lung, renal, and colorectal tissues, show that WISE-MAE achieves competitive representation quality and downstream classification performance while maintaining efficiency under weak supervision.

cs.CV↗
arXiv2025

OpenReviewer: A Specialized Large Language Model for Generating Critical Scientific Paper Reviews

We present OpenReviewer, an open-source system for generating high-quality peer reviews of machine learning and AI conference papers. At its core is Llama-OpenReviewer-8B, an 8B parameter language model specifically fine-tuned on 79,000 expert reviews from top conferences. Given a PDF paper submission and review template as input, OpenReviewer extracts the full text, including technical content like equations and tables, and generates a structured review following conference-specific guidelines. Our evaluation on 400 test papers shows that OpenReviewer produces considerably more critical and realistic reviews compared to general-purpose LLMs like GPT-4 and Claude-3.5. While other LLMs tend toward overly positive assessments, OpenReviewer's recommendations closely match the distribution of human reviewer ratings. The system provides authors with rapid, constructive feedback to improve their manuscripts before submission, though it is not intended to replace human peer review. OpenReviewer is available as an online demo and open-source tool.

cs.AI↗
arXiv2024

DAMMI:Daily Activities in a Psychologically Annotated Multi-Modal IoT dataset

The growth in the elderly population and the shift in the age pyramid have increased the demand for healthcare and well-being services. To address this concern, alongside the rising cost of medical care, the concept of ageing at home has emerged, driven by recent advances in medical and technological solutions. Experts in computer science, communication technology, and healthcare have collaborated to develop affordable health solutions by employing sensors in living environments, wearable devices, and smartphones, in association with advanced data mining and intelligent systems with learning capabilities, to monitor, analyze, and predict the health status of elderly individuals. However, implementing intelligent healthcare systems and developing analytical techniques requires testing and evaluating algorithms on real-world data. Despite the need, there is a shortage of publicly available datasets that meet these requirements. To address this gap, we present the DAMMI dataset in this work, designed to support researchers in the field. The dataset includes daily activity data of an elderly individual collected via home-installed sensors, smartphone data, and a wristband over 146 days. It also contains daily psychological reports provided by a team of psychologists. Furthermore, the data collection spans significant events such as the COVID-19 pandemic, New Year's holidays, and the religious month of Ramadan, offering additional opportunities for analysis. In this paper, we outline detailed information about the data collection system, the types of data recorded, and pre-processed event logs. This dataset is intended to assist professionals in IoT and data mining in evaluating and implementing their research ideas.

cs.AI↗
arXiv2024

LLM-based event abstraction and integration for IoT-sourced logs

The continuous flow of data collected by Internet of Things (IoT) devices, has revolutionised our ability to understand and interact with the world across various applications. However, this data must be prepared and transformed into event data before analysis can begin. In this paper, we shed light on the potential of leveraging Large Language Models (LLMs) in event abstraction and integration. Our approach aims to create event records from raw sensor readings and merge the logs from multiple IoT sources into a single event log suitable for further Process Mining applications. We demonstrate the capabilities of LLMs in event abstraction considering a case study for IoT application in elderly care and longitudinal health monitoring. The results, showing on average an accuracy of 90% in detecting high-level activities. These results highlight LLMs' promising potential in addressing event abstraction and integration challenges, effectively bridging the existing gap.

cs.DB↗
arXiv2024

Reporting Risks in AI-based Assistive Technology Research: A Systematic Review

Artificial Intelligence (AI) is increasingly employed to enhance assistive technologies, yet it can fail in various ways. We conducted a systematic literature review of research into AI-based assistive technology for persons with visual impairments. Our study shows that most proposed technologies with a testable prototype have not been evaluated in a human study with members of the sight-loss community. Furthermore, many studies did not consider or report failure cases or possible risks. These findings highlight the importance of inclusive system evaluations and the necessity of standardizing methods for presenting and analyzing failure cases and threats when developing AI-based assistive technologies.

cs.HC↗
arXiv2024

Towards Precision Healthcare: Robust Fusion of Time Series and Image Data

With the increasing availability of diverse data types, particularly images and time series data from medical experiments, there is a growing demand for techniques designed to combine various modalities of data effectively. Our motivation comes from the important areas of predicting mortality and phenotyping where using different modalities of data could significantly improve our ability to predict. To tackle this challenge, we introduce a new method that uses two separate encoders, one for each type of data, allowing the model to understand complex patterns in both visual and time-based information. Apart from the technical challenges, our goal is to make the predictive model more robust in noisy conditions and perform better than current methods. We also deal with imbalanced datasets and use an uncertainty loss function, yielding improved results while simultaneously providing a principled means of modeling uncertainty. Additionally, we include attention mechanisms to fuse different modalities, allowing the model to focus on what's important for each task. We tested our approach using the comprehensive multimodal MIMIC dataset, combining MIMIC-IV and MIMIC-CXR datasets. Our experiments show that our method is effective in improving multimodal deep learning for clinical applications. The code will be made available online.

eess.IV↗
arXiv2024

A process mining-based error correction approach to improve data quality of an IoT-sourced event log

Internet of Things (IoT) systems are vulnerable to data collection errors and these errors can significantly degrade the quality of collected data, impact data analysis and lead to inaccurate or distorted results. This article emphasizes the importance of evaluating data quality and errors before proceeding with analysis and considering the effectiveness of error correction methods for a smart home use case.

cs.DB↗
arXiv2023

MTS2Graph: Interpretable Multivariate Time Series Classification with Temporal Evolving Graphs

Conventional time series classification approaches based on bags of patterns or shapelets face significant challenges in dealing with a vast amount of feature candidates from high-dimensional multivariate data. In contrast, deep neural networks can learn low-dimensional features efficiently, and in particular, Convolutional Neural Networks (CNN) have shown promising results in classifying Multivariate Time Series (MTS) data. A key factor in the success of deep neural networks is this astonishing expressive power. However, this power comes at the cost of complex, black-boxed models, conflicting with the goals of building reliable and human-understandable models. An essential criterion in understanding such predictive deep models involves quantifying the contribution of time-varying input variables to the classification. Hence, in this work, we introduce a new framework for interpreting multivariate time series data by extracting and clustering the input representative patterns that highly activate CNN neurons. This way, we identify each signal's role and dependencies, considering all possible combinations of signals in the MTS input. Then, we construct a graph that captures the temporal relationship between the extracted patterns for each layer. An effective graph merging strategy finds the connection of each node to the previous layer's nodes. Finally, a graph embedding algorithm generates new representations of the created interpretable time-series features. To evaluate the performance of our proposed framework, we run extensive experiments on eight datasets of the UCR/UEA archive, along with HAR and PAM datasets. The experiments indicate the benefit of our time-aware graph-based representation in MTS classification while enriching them with more interpretability.

cs.LG↗