bluuebunny/crossref_metadata_2025_split huggingface dataset:
A scoping review of robustness concepts for machine learning in healthcare
Authors: Balendran Alan , Beji Céline , Bouvier Florie , Khalifa Ottavio , Evgeniou Theodoros , Ravaud Philippe , Porcher Raphaël 
Published: January 2025

Abstract
While machine learning (ML)-based solutions—often referred to as artificial intelligence (AI) solutions—have demonstrated comparable or superior performance to human experts across various healthcare applications, their vulnerability to perturbations and stability to variations due to new environments—essentially, their robustness—remains ambiguous and often overlooked. In this review, we aimed to identify the types of robustness addressed in the literature for ML models in healthcare. A total of 274 eligible records were retrieved from PubMed, Web of Science, IEEE Xplore, and additional sources. Eight general concepts of robustness emerged. Furthermore, an analysis of those concepts across types of data and types of predictive models revealed that the concepts were differently addressed. Our findings offer valuable insights for stakeholders seeking to understand and navigate the robustness of machine learning models during their development, validation, and deployment in healthcare settings, where interpretation of robustness may vary.
A multi-molecular beam/infrared reflection absorption spectroscopy apparatus for probing mechanisms and kinetics of heterogeneously catalyzed reaction from ultrahigh vacuum to near-ambient pressure conditions
Authors: Schröder Carsten , Haugg Philipp A. , Görgens Timo , Romaker Sergej , Gross Henrik , Schauermann Swetlana 
Published: January 2025

A novel multi-molecular beam/infrared reflection absorption spectroscopy (IRAS) apparatus is described, which was constructed for studying mechanisms and kinetics of heterogeneously catalyzed reactions following a rigorous surface science approach in the pressure range from ultrahigh vacuum (UHV, 1 × 10−10 mbar) to near-ambient pressure (NAP, 1000 mbar) conditions. The apparatus comprises a preparation chamber equipped with standard surface science tools required for the preparation and characterization of model heterogeneous catalysts and two reaction chambers operating at different pressure ranges: in UHV and in the variable pressure range up to NAP conditions. The UHV reaction chamber contains two effusive molecular beams (flux up to 1.1 × 1015 molecules cm−2 s−1), a quadrupole mass spectrometer, a Fourier-Transform (FT) IRA spectrometer, and a molecular beam monitor for beam aligning. This combination of the methods allows us to independently dose different reactants on the surface in a highly controlled way while simultaneously monitoring the evolution of gaseous products by QMS and recording the evolution of the surface species by FT-IRAS. The second reaction chamber operating in the variable pressure range is equipped with polarization-modulation-IRAS and three gas dosers and is designed as a small reactor, which can be operated in a continuous flow mode. The sample prepared under well-controlled UHV conditions can be in situ transferred between all chambers, thus allowing for investigations of structure–reactivity relationships over model surfaces. In this contribution, we provide a detailed description of the apparatus and the test measurements of the different crucial parts of the apparatus in the variable pressure range.
The promising and problematic potential of generative AI as a leveler of the publishing playing field
Authors: Belcher Diane 
Published: January 2025

Abstract
This perspective paper considers the affordances and challenges of generative AI for linguaculturally diverse scholars in a still English-dominant academic publishing world. Chief among the questions examined is whether AI offers a viable path forward toward greater research publication equity but, at the same time, something much more fraught. In other words, the paper explores how promising the apparent equalizing potential of generative AI may be. Might, for example, generative AI offer a smoother path to visibility, but in so doing, actually make the uniqueness of diverse scholars’ contributions far less visible? The paradoxical potential of generative AI is discussed first in this paper by surveying, at this particular phase of AI development, some of the salient advantages of generative AI use for research prewriting, writing, and post-writing, that is, AI’s ability to assist with such essentials as idea generation, text development, and text refinement. The apparent democratizing advantages of AI for each of these major stages of research writing are then interrogated and problematized. The paper concludes with a brief speculative path forward.
An analysis of constraint-relaxation in PDE-based inverse problems
Authors: van Leeuwen Tristan , Yang Yunan 
Published: January 2025

Abstract
Many inverse problems are naturally formulated as a PDE-constrained optimization problem. These non-linear, large-scale, constrained optimization problems know many challenges, of which the inherent non-linearity of the problem is an important one. In this paper, we focus on a relaxed formulation of the PDE-constrained optimization problem and provide analysis for its properties including convexity under certain assumptions. Starting from an infinite-dimensional formulation of the inverse problem with discrete data, we propose a general framework for the analysis and discretisation of such problems. The relaxed formulation of the PDE-constrained optimization problem is shown to reduce to a weighted non-linear least-squares problem. The weight matrix turns out to be the Gram matrix of solutions of the PDE, and in some cases be estimated directly from the measurements. The latter observation points to a potential way to unify recently proposed data-driven reduced-order models for inverse problems with PDE-constrained optimization. We provide a number of representative case studies and numerical examples to illustrate our findings.
Application of thermoflow in multi-energy complementary projects involving wind, solar, storage and fuel
Authors: Cui Jiahao , Liu Zilin , Zhang Naizhe , Guo Xuanhua 
Published: January 2025

Abstract
The energy sector is going through changes aiming at the creation of new sources and improvement of existing ones to meet increasing demand. New energy sources have appeared, giving cleaner and renewable choices, but at the same time, many difficulties have emerged, like irregular supply and low energy density. This leads to the importance of multi-energy technologies to maintain efficiency and stability. This research used Thermoflow software to predict power plant performance, showing a good match with pre-production data and confirming the accuracy. Additionally, using this software for petrochemical purposes could improve economic efficiency and energy conversion, while building energy storage and developing smarter grid systems can help manage new energy inputs.
Convolutional gated recurrent neural network-based detection of cyber-attacks in power systems
Authors: Wang Chuanfeng , Wang Xuejing , Wang Yiting , Chen Ran , Xie Qianwu 
Published: January 2025

Abstract
Conventional power network attack detection methods mainly use KKT (Karush Kuhn Tucker) Kuentak condition to filter the characteristics of hyperplane intrusion attacks, which is vulnerable to the effect of missing sample category identification, resulting in poor detection performance indicators. Therefore, a power system network attack detection method based on a convolutional gated recurrent neural network is proposed. That is, the convolutional gated recurrent neural network is used to extract the characteristics of network attack detection in the power system, and a hybrid detection model of network attack in the power system is constructed, thus completing the network attack detection in the power system. The experimental results show that the detection performance indicators of the designed power system network attack detection method are all good, reliable, and have certain application values. It has made certain contributions to improving the security of power system operations and reducing the risk of network intrusion.
The power system fault detection and classification based on LSTM
Authors: Li Le meng , Wang Peng , Li Jie , Chao Gu 
Published: January 2025

Abstract
The stability of the power system and fault detection classification are essential components in achieving the intelligence of power systems. LSTM (Long Short-Term Memory) recurrent neural networks can effectively handle the temporal and nonlinear nature of load data, making them suitable for short-term power system fault detection and classification. A method for power system fault detection and classification based on LSTM recurrent neural networks is proposed. The results demonstrate the accuracy and convenience of the LSTM model.
Energy absorption characteristics of corrugated grooves thin-walled structure inspired by nautilus shell biological geometry
Authors: Mohd Hanid Mohd Hazwan , Sharif Safian , Ahmad Masniezam , Suhaimi Mohd Azlan , Ismail Khairul Azwan , Zakaria Muhammad Syamil 
Published: January 2025

Abstract
Crash box is a vital component for a vehicle in absorbing kinetic energy in the event of a road collision. The thin-walled structure is emerging as a favorable geometry in designing the crash box. This article investigates the energy absorption performance of the corrugated nautilus shell bio-inspired thin-walled structure made of AA6061-T6 aluminum alloy. This structure’s performance was evaluated using finite element analysis (FEA) under quasi-static and dynamic loading conditions in an axial direction, then validated by a quasi-static compression experimental test, which showed satisfactory agreement. The results show that the corrugated nautilus shell bio-inspired thin-walled structure integrated with corrugated grooves reduced peak crushing force (PCF) by 17.9% and increased specific energy absorption (SEA) by 1.3% and crush force efficiency (CFE) by 17.6% compared to non-corrugated design. It can be concluded that the proposed nautilus shell bio-inspired thin-walled structure integrated with corrugated grooves has the potential to replace conventional hollow square designs in vehicle crash box applications.
Rare complications of ERCP—pancreatitis, panniculitis, and polyarthritis syndromeand multifocal osteomyelitis
Authors: Koyyalamudi Ratna , Ku Dominic , Brown Kirk , Schulze Morgan 
Published: January 2025

Abstract
Severe pancreatitis following retrograde cholangiopancreatography (ERCP) is an infrequent occurrence. Even rarer are the additional non-pancreatic symptoms that can emerge after ERCP-induced pancreatitis, such as panniculitis and polyarthritis. This combination of symptoms is recognized as the pancreatitis, panniculitis, and polyarthritis syndrome (PPPS). PPPS typically manifests as reddish subcutaneous nodules, primarily in the lower extremities. In some cases, the condition may progress into the bones, causing intramedullary fat necrosis/bone infarcts. Joint complications involve polyarthritis and affect both small and large joints. PPPS tends to develop 3-6 weeks after the peak of clinical pancreatitis. In this report, we present a case of PPPS that occurred as a complication following ERCP. This particular case became further complicated by the presence of bacteraemia and fungaemia, leading to the subsequent development of multi-focal osteomyelitis. The medical imaging included in this report provides a comprehensive overview of the entire clinical course, starting from the initial post-procedural complication and pancreatitis, followed by multi-modal imaging depicting panniculitis using ultrasound and MRI, and finally illustrating the development of multi-focal osteomyelitis. This case serves as an opportunity to explore and understand 2 rare complications associated with pancreatitis: PPPS and multi-focal osteomyelitis.
Fruit structure and development in representatives of Iriarteeae (Arecaceae–Arecoideae)
Authors: Timchenko Anton S , Romanov Mikhail S , Bobrov Alexey V F Ch , Zdravchev Nikita S , Iovlev Petr S , Mikhaylova Anna A , Roslov Maxim S , Kuptsov Kirill V , Sorokin Alexey N 
Published: January 2025

Abstract
With the aim of determining the plesiomorphic fruit type of Arecaceae–Arecoideae, we conducted a developmental carpological study of all five genera (nine species) of the tribe Iriarteeae, which is often placed in molecular studies as the earliest diverging evolutionary lineage of the subfamily. Three types of mesocarp differentiation and two types of endocarp structure are found in Iriarteeae. The parenchyma of the outer mesocarp zone may contain a brachysclereid belt or a zone of radially elongated fibrous bundles, whereas the inner mesocarp zone mostly includes phenolic-containing cells, longitudinal vascular bundles and, in Iriartea only, fibrous bundles. Iriartea, Iriartella setigera, Socratea exorrhiza, and Wettinia fascicularis fruits have a lignified endocarp and treated as pyrenariums of the Ilex type, whereas Dictyocaryum, Socratea hecatonandra, Wettinia castanea, and Wettinia quinaria have an unspecialized endocarp and are treated as coenocarpous berries of the Nuphar type. Both morphogenetic fruit types revealed in Iriarteeae are also traced in other studied Arecoideae. The pyrenarium of the Ilex type is considered plesiomorphic for all Iriarteeae, and may represent the original fruit type of Arecoideae, whereas a berry of the Nuphar type originated in parallel several times in different species and is considered a homoplasy.
Quality by Design–Steered Chromatographic Separation and Identification of the Geometric Isomers of Capsiate by Reversed-Phase HPLC and LC-MS
Authors: Gupta Reena , Kapoor Bhupinder , Gulati Monica , Saini Sumant , Rani Pooja , Atanasov Atanas G , Dall'Acqua Stefano , Alzahrani Qushmua , Kapoor Deepak , Simal-Gandara Jesus 
Published: January 2025

Abstract

An efficient reverse-phase high-performance liquid chromatographic method, based on the design of the experiment approach, was developed for the simultaneous determination of capsiate isomers. Critical method parameters, i.e., flow rate and mobile phase composition, demarcated during preliminary screening were optimized using central composite design. Chromatographic separation was achieved on a Nucleodur C18 column (250 × 4.6 mm, 5 μm), with the mobile phase consisting of water–acetonitrile (40:60), both acidified with 0.1% v/v formic acid, passed at a flow rate of 1 mL/min. E- and Z-capsiates were eluted from the column at the retention times of 18.56 ± 0.09 and 17.30 ± 0.08 min, respectively, with a resolution factor of 1.693 ± 0.046. The method was found to be linear within the concentration range of 1.054–5.270 and 8.623–43.115 μg/mL for Z- and E-isomers, respectively, with an R2 of &gt;0.99. Recovery of the individual values was in range of 96.15–101.92%, with a relative standard deviation of &lt;2%. The developed method was used to quantify capsiate isomers extracted from sweet pepper fruits. Therefore, the proposed method is presented for optimum isomeric resolution of these closely related E- and Z-isomers with convenient sample preparation, acceptable run-time, cost effectiveness and use of conventional instruments.

Highlights
Association between frailty and bone health in early-stage chronic kidney disease: a study from the population-based CARTaGENE cohort
Authors: Dufour Aurélie , Kurtz Kelly-Anne , Vachey Clément , Mac-Way Fabrice 
Published: January 2025

ABSTRACT

Background
Frailty is a clinical syndrome that is particularly prevalent in patients with chronic kidney disease (CKD). We aimed to assess the associations between renal function and the presence of frailty criteria and to assess the association between frailty and bone outcomes.

Methods
We have conducted a retrospective study from a population-based cohort, which represents 1% of people aged 40–69 years in a Canadian province, excluding individuals with an estimated glomerular filtration rate (eGFR) &lt;30 mL/min/1.73 m2. Frailty was defined with Fried's criteria. Bone density was estimated with quantitative ultrasound at the calcaneus measuring speed of sound (SOS) and broadband ultrasound attenuation (BUA). Time to first fracture event was assessed and analyses were conducted using logistic regressions, multiple linear regressions and Cox models.

Results
Overall, 19 973 individuals were included: mean ± standard deviation age 54.2 ± 7.8 years, women 51.6%, 47.0% CKD stage G2, 3.9% CKD stage G3, 34.8% with at least one frailty criterion. We observed a U-shaped association between eGFR and the odds ratio (OR) of presenting at least one frailty criterion, with a minimum OR around 77 mL/min/1.73 m2 [per a 10 mL/min/1.73 m2 increase, respectively, for an eGFR &lt;77 and &gt;77, OR = 0.93, 95% confidence interval (CI) 0.86–1.01 and OR 1.09, 95% CI 1.06–1.13]. After a median follow-up of 5.8 years, there were 837 fracture events. Having at least one frailty criterion was negatively associated with SOS (β = –3.97, P &lt; .0001) and BUA (β = –1.82, P &lt; .0001). Having at least one frailty criterion was associated with a higher fracture risk (hazard ratio 1.23, 95% CI 1.07–1.42).

Conclusion
In conclusion, having at least one frailty criterion was associated with a higher risk of fracture and a lower bone mineral density.
Building resource-efficient community databases using open-source software
Authors: Jung Sook , Cheng Chun-Huai , Lee Taein , Buble Katheryn , Humann Jodi , Zheng Ping , Yu Jing , Main Dorrie 
Published: January 2025

Abstract
The unprecedented volume of big data being routinely generated for nonmodel crop species, coupled with advanced technology enabling the use of big data in breeding, gives further impetus for the need to have access to crop community databases, where all relevant data are curated and integrated. Funding for such databases is, however, insufficient and intermittent, resulting in the data being underutilized. While increased awareness of the importance of funding databases is important, it is practically necessary to find a more efficient way to build a community database. To meet the need for integrated database resources for various crop genomics, genetics, and breeding research communities, we have built five crop databases over the last decade using an open-source database platform and software. We describe the system and methods used for database construction, curation, and analysis protocols, and the data and tools that are available in these five crop databases.
Database URL: The Genome Database for Rosaceae (GDR, www.rosaceae.org), the Genome Database for Vaccinium (GDV, www.vaccinium.org), the Citrus Genome Database (CGD, www.citrusgenomedb.org), the Pulse Crop Database (PCD, www.pulsedb.org), and CottonGen (www.cottongen.org)
LitSumm: large language models for literature summarization of noncoding RNAs
Authors: Green Andrew , Ribas Carlos Eduardo , Ontiveros-Palacios Nancy , Griffiths-Jones Sam , Petrov Anton I , Bateman Alex , Sweeney Blake 
Published: January 2025

Abstract
Curation of literature in life sciences is a growing challenge. The continued increase in the rate of publication, coupled with the relatively fixed number of curators worldwide, presents a major challenge to developers of biomedical knowledgebases. Very few knowledgebases have resources to scale to the whole relevant literature and all have to prioritize their efforts.
In this work, we take a first step to alleviating the lack of curator time in RNA science by generating summaries of literature for noncoding RNAs using large language models (LLMs). We demonstrate that high-quality, factually accurate summaries with accurate references can be automatically generated from the literature using a commercial LLM and a chain of prompts and checks. Manual assessment was carried out for a subset of summaries, with the majority being rated extremely high quality.
We apply our tool to a selection of &gt;4600 ncRNAs and make the generated summaries available via the RNAcentral resource. We conclude that automated literature summarization is feasible with the current generation of LLMs, provided that careful prompting and automated checking are applied.
Database URL: https://rnacentral.org/
Treatment strategy involving docetaxel plus cisplatin and 5-fluorouracil followed by conversion surgery for locally advanced unresectable/borderline resectable esophageal squamous cell carcinoma
Authors: Igaue Shota , Nozaki Ryoko , Utsunomiya Daichi , Kubo Yuto , Kubo Kentaro , Kurita Daisuke , Yamamoto Shun , Miyake Mototaka , Ishiyama Koshiro , Oguma Junya , Kato Ken , Daiko Hiroyuki 
Published: January 2025

Summary
Definitive chemoradiotherapy (dCRT) is the standard treatment for unresectable (T4) esophageal squamous cell carcinoma (ESCC), but the prognosis is poor. Borderline resectable (T3br) ESCC has been discussed, but its clinical features and appropriate treatment are unclear. The effects of docetaxel plus cisplatin and 5-fluorouracil (DCF) therapy and subsequent surgery for potentially unresectable ESCC remain controversial. This was a single-center retrospective cohort study. Patients with T3 or deeper ESCC lesions between January 2017 and June 2020 were examined. We identified T3br/T4 ESCC patients who initially received DCF therapy or dCRT, and analyzed the long-term outcomes of these patients. Seventy-four patients with T3br/T4 ESCC were identified. Forty-four patients initially received DCF therapy, while thirty initially received dCRT. The 3-year overall survival of T3br/T4 patients in the DCF group was better than that in the dCRT group (62.9% vs. 34.1%, P = 0.001). In the T3br cohort, 95.8% of patients underwent surgery after DCF therapy, with an R0 resection rate of 78.3%. In the T4 group, 40% of patients underwent surgery after DCF, with a 75.0% R0 resection rate. No cases of reoperation or in-hospital death occurred. For both subgroups, T3br and T4, the prognosis tended to be better in the DCF group than in the dCRT group. This study explored real-world data from T3br/T4 ESCC patients who initially received DCF and subsequent surgery and revealed that DCF is a promising treatment strategy.
Importance, structure, cultivability, and resilience of the bacterial microbiota during infection of laboratory-grown Haematococcus spp. by the blastocladialean pathogen Paraphysoderma sedebokerense: evidence for a domesticated microbiota and its potential for biocontrol
Authors: Miebach Jeanne , Green David , Strittmatter Martina , Mallinger Claire , Le Garrec Lucie , Zhang Qian Yi , Foucault Pierre , Kunz Caroline , Gachon Claire M M 
Published: January 2025

Abstract
Industrial production of the unicellular green alga Haematococcus lacustris is compromised by outbreaks of the fungal pathogen Paraphysoderma sedebokerense (Blastocladiomycota). Here, using axenic algal and fungal cultures and antibiotic treatments, we show that the bacterial microbiota of H. lacustris is necessary for the infection by P. sedebokerense and that its modulation affects the outcome of the interaction. We combined metagenomics and laboratory cultivation to investigate the diversity of the bacterial microbiota associated to three Haematococcus species and monitor its change upon P. sedebokerense infection. We unveil three types of distinct, reduced bacterial communities, which likely correspond to keystone taxa in the natural Haematococcus spp. microbiota. Remarkably, the taxonomic composition and functionality of these communities remained stable during infection. The major bacterial taxa identified in this study have been cultivated by us or others, paving the way to developing synthetic communities to experimentally explore interactions within this tripartite system. We discuss our results in the light of emerging evidence concerning the structuring and domestication of plant and animal microbiota, thus providing novel experimental tools and a new conceptual framework necessary to enable the engineering of Haematococcus spp. microbiota toward the biocontrol of P. sedebokerense.