arXiv subjects

Lenore Cowen

Publications and source records attributed to Lenore Cowen.

7 recordsLinked to original sources

arXiv2026

MEDFORD in a Box: Improvements and Future Directions for a Metadata Description Language

Scientific research metadata is vital to ensure the validity, reusability, and cost-effectiveness of research efforts. The MEDFORD metadata language was previously introduced to simplify the process of writing and maintaining metadata for non-programmers. However, barriers to entry and usability remain, including limited automatic validation, difficulty of data transport, and user unfamiliarity with text file editing. To address these issues, we introduce MEDFORD-in-a-Box (MIAB), a documentation ecosystem to facilitate researcher adoption and earlier metadata capture. MIAB contains many improvements, including an updated MEDFORD parser with expanded validation routines and BagIt export capability. MIAB also includes an improved VS Code extension that supports these changes through a visual IDE. By simplifying metadata generation, this new tool supports the creation of correct, consistent, and reusable metadata, ultimately improving research reproducibility.

cs.DL↗

arXiv2025

Partial VOROS: A Cost-aware Performance Metric for Binary Classifiers with Precision and Capacity Constraints

The ROC curve is widely used to assess binary classifiers. Yet for some applications, such as alert systems for monitoring hospitalized patients, conventional ROC analysis cannot meet two key deployment needs: enforcing a constraint on precision to avoid false alarm fatigue and imposing an upper bound on the number of predicted positives to represent the capacity of hospital staff. The usual area under the curve metric also does not reflect asymmetric costs for false positives and false negatives. In this paper we address all three of these issues. First, we show how the subset of classifiers that meet precision and capacity constraints occupy a feasible region in ROC space. We establish the polygon-shaped geometry of this region. We then define the partial area of lesser classifiers, a performance metric that is monotonic with cost and only accounts for the feasible region. Averaging this area over a desired distribution for cost parameters results in the partial volume over the ROC surface, or partial VOROS. In experiments predicting mortality risk from vital sign history on several datasets, we show this cost-aware metric can outperform alternatives at ranking classifiers for in-hospital alerts.

cs.LG↗

arXiv2024

Quantifying Media Influence on Covid-19 Mask-Wearing Beliefs

How political beliefs change in accordance with media exposure is a complicated matter. Some studies have been able to demonstrate that groups with different media diets in the aggregate (e.g., U.S. media consumers ingesting partisan news) arrive at different beliefs about policy issues, but proving this from data at a granular level -- at the level of attitudes expressed in news stories -- remains difficult. In contrast to existing opinion formation models that describe granular detail but are not data-driven, or data-driven studies that rely on simple keyword detection and miss linguistic nuances, being able to identify complicated attitudes in news text and use this data to drive models would enable more nuanced empirical study of opinion formation from media messaging. This study contributes a dataset as well as an analysis that allows the mapping of attitudes from individual news stories to aggregate changes of opinion over time for an important public health topic where opinion differed in the U.S. by partisan media diet: Covid mask-wearing beliefs. By gathering a dataset of U.S. news media stories, from April 6 to June 8, 2020, annotated according to Howard 2020's Face Mask Perception Scale for their statements regarding Covid-19 mask-wearing, we demonstrate fine-grained correlations between media messaging and empirical opinion polling data from a Gallup survey conducted during the same period. We also demonstrate that the data can be used for quantitative analysis of pro- and anti-mask sentiment throughout the period, identifying major events that drove opinion changes. This dataset is made publicly available and can be used by other researchers seeking to evaluate how mask-wearing attitudes were driven by news media content. Additionally, we hope that its general method can be used to enable other media researchers to conduct more detailed analyses of media effects on opinion.

cs.SI↗

arXiv2024

The VOROS: Lifting ROC curves to 3D

While the area under the ROC curve is perhaps the most common measure that is used to rank the relative performance of different binary classifiers, longstanding field folklore has noted that it can be a measure that ill-captures the benefits of different classifiers when either the actual class values or misclassification costs are highly unbalanced between the two classes. We introduce a new ROC surface, and the VOROS, a volume over this ROC surface, as a natural way to capture these costs, by lifting the ROC curve to 3D. Compared to previous attempts to generalize the ROC curve, our formulation also provides a simple and intuitive way to model the scenario when only ranges, rather than exact values, are known for possible class imbalance and misclassification costs.

cs.LG↗

arXiv2023

Current and future directions in network biology

Network biology is an interdisciplinary field bridging computational and biological sciences that has proved pivotal in advancing the understanding of cellular functions and diseases across biological systems and scales. Although the field has been around for two decades, it remains nascent. It has witnessed rapid evolution, accompanied by emerging challenges. These challenges stem from various factors, notably the growing complexity and volume of data together with the increased diversity of data types describing different tiers of biological organization. We discuss prevailing research directions in network biology and highlight areas of inference and comparison of biological networks, multimodal data integration and heterogeneous networks, higher-order network analysis, machine learning on networks, and network-based personalized medicine. Following the overview of recent breakthroughs across these five areas, we offer a perspective on the future directions of network biology. Additionally, we offer insights into scientific communities, educational initiatives, and the importance of fostering diversity within the field. This paper establishes a roadmap for an immediate and long-term vision for network biology.

q-bio.MN↗

arXiv2021

Cognitive cascades: How to model (and potentially counter) the spread of fake news

Understanding the spread of false or dangerous beliefs through a population has never seemed so urgent. Network science researchers have often taken a page from epidemiologists, and modeled the spread of false beliefs as similar to how a disease spreads through a social network. However, absent from those disease-inspired models is an internal model of an individual's set of current beliefs, where cognitive science has increasingly documented how the interaction between mental models and incoming messages seems to be crucially important for their adoption or rejection. Some computational social science modelers analyze agent-based models where individuals do have simulated cognition, but they often lack the strengths of network science, namely in empirically-driven network structures. We introduce a cognitive cascade model that combines a network science belief cascade approach with an internal cognitive model of the individual agents as in opinion diffusion models as a public opinion diffusion (POD) model, adding media institutions as agents which begin opinion cascades. We conduct an analysis of the cognitive cascade model with our simple cognitive function across various graph topologies and institutional messaging patterns. We argue from our results that population-level aggregate outcomes of the model qualitatively match what has been reported in COVID-related public opinion polls, and that the model dynamics lend insights as to how to address the spread of problematic beliefs. The overall model sets up a framework with which social science misinformation researchers and computational opinion diffusion modelers can join forces to understand, and hopefully learn how to best counter, the spread of disinformation and "alternative facts."

cs.SI↗

arXiv2020

Diffusion State Distances: Multitemporal Analysis, Fast Algorithms, and Applications to Biological Networks

Data-dependent metrics are powerful tools for learning the underlying structure of high-dimensional data. This article develops and analyzes a data-dependent metric known as diffusion state distance (DSD), which compares points using a data-driven diffusion process. Unlike related diffusion methods, DSDs incorporate information across time scales, which allows for the intrinsic data structure to be inferred in a parameter-free manner. This article develops a theory for DSD based on the multitemporal emergence of mesoscopic equilibria in the underlying diffusion process. New algorithms for denoising and dimension reduction with DSD are also proposed and analyzed. These approaches are based on a weighted spectral decomposition of the underlying diffusion process, and experiments on synthetic datasets and real biological networks illustrate the efficacy of the proposed algorithms in terms of both speed and accuracy. Throughout, comparisons with related methods are made, in order to illustrate the distinct advantages of DSD for datasets exhibiting multiscale structure.

stat.ML↗