搜索结果：Interdisciplinary sciences, computational life sciences

Computing in the life sciences has undergone a transformative evolution, from early computational models in the 1950s to the applications of artificial intelligence (AI) and machine learning (ML) seen today. This paper highlights key milestones and technological advancements through the historical development of computing in the life sciences. The discussion includes the inception of computational models for biological processes, the advent of bioinformatics tools, and the integration of AI/ML in modern life sciences research. Attention is given to AI-enabled tools used in the life sciences, such as scientific large language models and bio-AI tools, examining their capabilities, limitations, and impact to biological risk. This paper seeks to clarify and establish essential terminology and concepts to ensure informed decision-making and effective communication across disciplines.

Disseminators of disinformation often seek to attract attention or evoke emotions - typically to gain influence or generate revenue - resulting in distinctive rhetorical patterns that can be exploited by machine learning models. In this study, we explore linguistic and rhetorical features as proxies for distinguishing disinformative texts from other health and life-science text genres, applying both large language models and classical machine learning classifiers. Given the limitations of existing datasets, which mainly focus on fact checking misinformation, we introduce Four Shades of Life Sciences (FSoLS): a novel, labeled corpus of 2,603 texts on 14 life-science topics, retrieved from 17 diverse sources and classified into four categories of life science publications. The source code for replicating, and updating the dataset is available on GitHub: https://github.com/EvaSeidlmayer/FourShadesofLifeSciences

Artificial intelligence (AI) has recently seen transformative breakthroughs in the life sciences, expanding possibilities for researchers to interpret biological information at an unprecedented capacity, with novel applications and advances being made almost daily. In order to maximise return on the growing investments in AI-based life science research and accelerate this progress, it has become urgent to address the exacerbation of long-standing research challenges arising from the rapid adoption of AI methods. We review the increased erosion of trust in AI research outputs, driven by the issues of poor reusability and reproducibility, and highlight their consequent impact on environmental sustainability. Furthermore, we discuss the fragmented components of the AI ecosystem and lack of guiding pathways to best support Open and Sustainable AI (OSAI) model development. In response, this perspective introduces a practical set of OSAI recommendations directly mapped to over 300 components of the AI ecosystem. Our work connects researchers with relevant AI resources, facilitating the implementation of sustainable, reusable and transparent AI. Built upon life science community consensus

Analysing historical patterns of artificial intelligence (AI) adoption can inform decisions about AI capability uplift, but research to date has provided a limited view of AI adoption across various fields of research. In this study we examine worldwide adoption of AI technology within 333 fields of research during 1960-2021. We do this by using bibliometric analysis with 137 million peer-reviewed publications captured in The Lens database. We define AI using a list of 214 phrases developed by expert working groups at the Organisation for Economic Cooperation and Development (OECD). We found that 3.1 million of the 137 million peer-reviewed research publications during the entire period were AI-related, with a surge in AI adoption across practically all research fields (physical science, natural science, life science, social science and the arts and humanities) in recent years. The diffusion of AI beyond computer science was early, rapid and widespread. In 1960 14% of 333 research fields were related to AI (many in computer science), but this increased to cover over half of all research fields by 1972, over 80% by 1986 and over 98% in current times. We note AI has experienced boom-

This vision paper introduces a pioneering data lake architecture designed to meet Life \& Earth sciences' burgeoning data management needs. As the data landscape evolves, the imperative to navigate and maximize scientific opportunities has never been greater. Our vision paper outlines a strategic approach to unify and integrate diverse datasets, aiming to cultivate a collaborative space conducive to scientific discovery.The core of the design and construction of a data lake is the development of formal and semi-automatic tools, enabling the meticulous curation of quantitative and qualitative data from experiments. Our unique ''research-in-the-loop'' methodology ensures that scientists across various disciplines are integrally involved in the curation process, combining automated, mathematical, and manual tasks to address complex problems, from seismic detection to biodiversity studies. By fostering reproducibility and applicability of research, our approach enhances the integrity and impact of scientific experiments. This initiative is set to improve data management practices, strengthening the capacity of Life \& Earth sciences to solve some of our time's most critical env

We investigate how well the Large Interferometer for Exoplanets (LIFE) mission concept can detect habitable conditions on exoplanets through the presence of atmospheric water vapor as a proxy for surface oceans. We model the atmosphere of a pre-biotic Earth-like planet across a range of water concentrations, from water-poor to water-rich, with surface partial pressures from 10$^{-7}$ to 1 bar of H$_2$O. We simulate LIFE-like noise at spectral resolutions R = 50 and 100 using LIFEsim and perform Bayesian atmospheric retrievals to determine the technical requirements for LIFE to confirm habitability. We model three vertical water distributions: a vertically constant profile, a Manabe-Wetherald based Earth-like profile, and a diffusion and photochemistry profile to test how the assumed vertical structure influences the retrieved abundances. Clouds are not modeled. We find the ability for LIFE to detect water strongly depends on the vertical profile assumed. LIFE is unable to constrain the highest water cases and provides upper limits on low water planets. For the highest water abundances, absorption features saturate and reduce sensitivity to characterize precise H$_2$O levels. Water

Symbolic regression (SR) has emerged as a powerful method for uncovering interpretable mathematical relationships from data, offering a novel route to both scientific discovery and efficient empirical modelling. This article introduces the Special Issue on Symbolic Regression for the Physical Sciences, motivated by the Royal Society discussion meeting held in April 2025. The contributions collected here span applications from automated equation discovery and emergent-phenomena modelling to the construction of compact emulators for computationally expensive simulations. The introductory review outlines the conceptual foundations of SR, contrasts it with conventional regression approaches, and surveys its main use cases in the physical sciences, including the derivation of effective theories, empirical functional forms and surrogate models. We summarise methodological considerations such as search-space design, operator selection, complexity control, feature selection, and integration with modern AI approaches. We also highlight ongoing challenges, including scalability, robustness to noise, overfitting and computational complexity. Finally we emphasise emerging directions, particula

Several interdisciplinary areas have appeared at the interface between biological and physical sciences. In this work, we suggest a complex network-based methodology for analyzing the interrelationships between some of these interdisciplinary areas, including Bioinformatics, Computational Biology, Biochemistry, among others. This approach has been applied over respective data derived from Wikipedia. Related reviews from the scientific literature are also considered as a reference, yielding a respective bipartite hypergraph which can be used to gain insights about the interrelationships underlying the considered interdisciplinary areas. Several interesting results are obtained, including greater interconnection between the considered interdisciplinary areas with biological than with physical sciences. A good agreement was also found between the network obtained from Wikipedia and the interrelationships revealed by the literature reviews. At the same time, the former network was found to exhibit more intricate relationships than in the hypergraph derived from the literature review.

Following the recommendations to NASA and ESA, the search for life on exoplanets will be a priority in the next decades. Two direct imaging space mission concepts are being developed: the Habitable Worlds Observatory (HWO) and the Large Interferometer for Exoplanets (LIFE). HWO focuses on reflected light spectra in the ultraviolet/visible/near-infrared (UV/VIS/NIR), while LIFE captures the mid-infrared (MIR) emission of temperate exoplanets. We assess the potential of HWO and LIFE in characterizing a cloud-free Earth twin orbiting a Sun-like star at 10 pc, both separately and synergistically, aiming to quantify the increase in information from joint atmospheric retrievals on a habitable planet. We perform Bayesian retrievals on simulated data from an HWO-like and a LIFE-like mission separately, then jointly, considering the baseline spectral resolutions currently assumed for these concepts and using two increasingly complex noise simulations. HWO would constrain H$_2$O, O$_2$, and O$_3$, in the atmosphere, with ~ 100 K uncertainty on the temperature profile. LIFE would constrain CO$_2$, H$_2$O, O$_3$ and provide constraints on the thermal atmospheric structure and surface temperatu

Energy is a complex idea that cuts across scientific disciplines. For life science students, an approach to energy that incorporates chemical bonds and chemical reactions is better equipped to meet the needs of life sciences students than a traditional introductory physics approach that focuses primarily on mechanical energy. We present a curricular sequence, or thread, designed to build up students' understanding of chemical energy in an introductory physics course for the life sciences. This thread is designed to connect ideas about energy from physics, biology, and chemistry. We describe the kinds of connections among energetic concepts that we intended to develop to build interdisciplinary coherence, and present some examples of curriculum materials and student data that illustrate our approach.

In recent decades, the relevance of polarimetry in planetary sciences and astronomy has increased rapidly. Polarization is a fundamental property of light and can be modified by any scattering event. As such, polarization yields additional information that cannot be obtained by only assessing light's scalar properties. For instance, the polarization state of starlight scattered by planetary surfaces can provide useful insights on the composition, size, morphology, and porosity of regolith particles and might even indicate the presence of life. Beside being useful for characterization, polarimetry can also greatly enhance the detection of exoplanets. Here, polarization can be harnessed to enhance the contrast between the bright light of a star, which can be considered to be fully unpolarized, and the very dim but polarized light reflected by an exoplanet. In this paper, we discuss and review the current developments and advances in optical polarimetry and polarimetric instrumentation in Switzerland within the framework of the National Centre of Competence in Research PlanetS. We focus on their implications for the vast range of science cases that polarimetry can address within the r

Machine learning is rapidly making its pathway across all of the natural sciences, including physical sciences. The rate at which ML is impacting non-scientific disciplines is incomparable to that in the physical sciences. This is partly due to the uninterpretable nature of deep neural networks. Symbolic machine learning stands as an equal and complementary partner to numerical machine learning in speeding up scientific discovery in physics. This perspective discusses the main differences between the ML and scientific approaches. It stresses the need to develop and apply symbolic machine learning to physics problems equally, in parallel to numerical machine learning, because of the dual nature of physics research.

We present the database of potential targets for the Large Interferometer For Exoplanets (LIFE), a space-based mid-infrared nulling interferometer mission proposed for the Voyage 2050 science program of the European Space Agency (ESA). The database features stars, their planets and disks, main astrophysical parameters, and ancillary observations. It allows users to create target lists based on various criteria to predict, for instance, exoplanet detection yields for the LIFE mission. As such, it enables mission design trade-offs, provides context for the analysis of data obtained by LIFE, and flags critical missing data. Work on the database is in progress, but given its relevance to LIFE and other space missions, including the Habitable Worlds Observatory (HWO), we present its main features here. A preliminary version of the LIFE database is publicly available on the German Astrophysical Virtual Observatory (GAVO).

Accurate measurement of institutional research productivity should account for the real contribution of the research staff to the output produced in collaboration with other organizations. In the framework of bibliometric measurement, this implies accounting for both the number of co-authors and each individual's real contribution to scientific publications. Common practice in the life sciences is to indicate such contribution through the order of author names in the byline. In this work, we measure the distortion introduced to university-level bibliometric productivity rankings when the number of co-authors or their position in the byline is ignored. The field of observation consists of all Italian universities active in the life sciences (Biology and Medicine). The analysis is based on the research output of the university staff over the period 2004-2008. Based on the results, we recommend against the use of bibliometric indicators that ignore co-authorship and real contribution of each author to research outputs.

This paper investigates the reproducibility of computational science research and identifies key challenges facing the community today. It is the result of the First Summer School on Experimental Methodology in Computational Science Research (https://blogs.cs.st-andrews.ac.uk/emcsr2014/). First, we consider how to reproduce experiments that involve human subjects, and in particular how to deal with different ethics requirements at different institutions. Second, we look at whether parallel and distributed computational experiments are more or less reproducible than serial ones. Third, we consider reproducible computational experiments from fields outside computer science. Our final case study looks at whether reproducibility for one researcher is the same as for another, by having an author attempt to have others reproduce their own, reproducible, paper. This paper is open, executable and reproducible: the whole process of writing this paper is captured in the source control repository hosting both the source of the paper, supplementary codes and data; we are providing setup for several experiments on which we were working; finally, we try to describe what we have achieved during t

The Large Interferometer For Exoplanets (LIFE) initiative aims to develop a space based mid-infrared (MIR) nulling interferometer to measure the thermal emission spectra of temperate terrestrial exoplanets. We investigate how well LIFE could characterize a cloudy Venus-twin exoplanet to: (1) test our retrieval routine on a realistic non-Earth-like MIR spectrum of a known planet, (2) investigate how clouds impact retrievals, (3) refine the LIFE requirements derived in previous Earth-centered studies. We run retrievals for simulated LIFE observations of a Venus-twin exoplanet orbiting a Sun-like star located 10 pc from the observer. By assuming different models (cloudy and cloud-free) we analyze the performance as a function of the quality of the LIFE observation. This allows us to determine how well atmosphere and clouds are characterizable depending on the quality of the spectrum. Our study shows that the current minimal resolution ($R=50$) and signal-to-noise ($S/N=10$ at $11.2μ$m) requirements for LIFE suffice to characterize the structure and composition of a Venus-like atmosphere above the cloud deck if an adequate model is chosen. However, we cannot infer cloud properties. The

Labeling or classifying time series is a persistent challenge in the physical sciences, where expert annotations are scarce, costly, and often inconsistent. Yet robust labeling is essential to enable machine learning models for understanding, prediction, and forecasting. We present the \textit{Clustering and Indexation Pipeline with Human Evaluation for Recognition} (CIPHER), a framework designed to accelerate large-scale labeling of complex time series in physics. CIPHER integrates \textit{indexable Symbolic Aggregate approXimation} (iSAX) for interpretable compression and indexing, density-based clustering (HDBSCAN) to group recurring phenomena, and a human-in-the-loop step for efficient expert validation. Representative samples are labeled by domain scientists, and these annotations are propagated across clusters to yield systematic, scalable classifications. We evaluate CIPHER on the task of classifying solar wind phenomena in OMNI data, a central challenge in space weather research, showing that the framework recovers meaningful phenomena such as coronal mass ejections and stream interaction regions. Beyond this case study, CIPHER highlights a general strategy for combining sy

Environment Agencies from Europe and the US are setting up a network of Linked Environment Data and are looking to crosslink it with Linked Data contributions from the life sciences.

Research in the Life Sciences depends on the integration of large, distributed and heterogeneous data sources and web services. The discovery of which of these resources are the most appropriate to solve a given task is a complex research question, since there is a large amount of plausible candidates and there is little, mostly unstructured, metadata to be able to decide among them.We contribute a semi-automatic approach,based on semantic techniques, to assist researchers in the discovery of the most appropriate web services to full a set of given requirements.