bluuebunny/crossref_metadata_2025 huggingface dataset:
Influence of humidity in the alteration of unstable glasses
Authors: Laso Elena , Aparicio Mario , Palomar Teresa
Published: August 2023

The control of humidity between certain limits is essential to avoid the alteration of historical objects, such as unstable historical glasses. However, the usual limits can be altered due to the presence of volatile organic compounds. This work presents the results of the exposure of soda, potash, and mixed‐alkali silicate glasses to neutral and acidic (formic) atmospheres with ∼30%, ∼70%, and ∼100% relative humidity. The hygroscopic capacity of the glass was analyzed by gravimetry, and the surface alteration was evaluated by infrared spectroscopy, optical microscopy, and ion chromatography. In all glasses, the alteration begins with alkali ions’ lixiviation followed by the silica network's hydrolytic attack. The results showed that soda and mixed‐alkali silicate glasses exhibit similar behavior, while the potash‐lime one experienced the fastest degradation due to its composition. Results also confirmed that high humidity increased the alteration rate causing a higher hygroscopicity and reactivity of glasses. Finally, acidic environments promoted the ion‐exchange reaction at high humidity, accelerating the lixiviation of alkaline ions and promoting the diffusion of water into the glass network.
Validity and reliability of the Turkish version of the Urinary Catheter Self‐Care Management Questionnaire
Authors: Soydaş Duygu , Yildiz Findik Ümmü
Published: August 2023

This research aims to analyse the validity and reliability of the Turkish version of the Urinary Catheter Self‐Efficacy Scale (C‐SE) and the Urinary Catheter Self‐Management Scale (C‐SMG), which comprise the Urinary Catheter Self‐Care Management Questionnaire. This research is planned as a cross‐sectional, methodological type of scale adaptation study. The research was conducted in three hospitals in the northwest of Turkey with 101 patients. Content validity index and confirmatory factor analysis were used in the validity analyses. In the reliability analyses, Cronbach's alpha coefficient, the split‐half method, the item‐total score, and Pearson's correlation analyses were used. The content validity index was 0.911 for the C‐SE and 0.989 for the C‐SMG. Cronbach's alpha values for the scales were 0.928 and 0.882, respectively. Besides, the item‐total correlations changed between 0.562 and 0.831 for the C‐SE and between 0.315 and 0.759 for the C‐SMG. The coefficients got in halving were 0.960 and 0.943, respectively. The two scales that make up the Urinary Catheter Self‐Care Management Questionnaire are valid and reliable measurement tools that can be used for patients undergoing long‐term urinary catheterization in Turkey. In line with the results obtained from this study, we suggest that the Urinary Catheter Self‐Care Management Questionnaire should be used to evaluate the self‐efficacy or self‐management levels of Turkish patients undergoing long‐term urinary catheterization and to evaluate the effects of nursing interventions on the self‐efficacy or self‐management levels of patients who have undergone long‐term urinary catheterization.
Constitutionalism, populism, and the imaginary of the authentic polity: a socio‐legal analysis of European public spheres and constitutional demoicratization
Authors: PŘIBÁŇ JIŘÍ
Published: August 2023

The sociology of constitutionalism emphasizes the duality of constitutions as both power limitations and power enhancements. Following the socio‐legal perspective, this article focuses on the constitutional imaginary of the public sphere and distinguishes it from the imaginary of the authentic polity, in which the constituent power of the people is protected against the corrupting effect of representative institutions and technocratic bodies. The promise of authenticity is behind the recent resurgence of populism and the constitution of what Zygmunt Bauman describes as ‘explosive communities’. The final part of the article focuses on the transnational politics and law of the European Union (EU) and discusses its possible responses to the imaginaries of constitutional populism – most notably, the emergence of European public spheres and demoicracy. Without the constitutional imaginaries of an anti‐explosive transnational and democratically constituted community, further enhancement of the power of EU institutions will always lead to populist backlash at the national and local levels of its member states.
High expression of novel biomarker TBRG4 promotes the progression and invasion of oral squamous cell carcinoma
Authors: Ramasubramanian Abilasha , Ramani Pratibha , Kannan Balachander , Arumugam Paramasivam
Published: August 2023

Background

Transforming growth factor β regulator 4 (TBRG4) is a potential prognostic indicator in various cancers, especially squamous cell carcinomas, and is associated with disease amelioration and poor outcomes. The study aimed to assess the expression pattern of TBRG4 in patients with operable oral squamous cell carcinoma (OSCC) to understand its role in tumour progression using indicators of disease outcome like tumour stage, grade, nodal metastasis, and pattern of invasion.

Methods

TBRG4 expression was assessed by analyzing 51 cancer and adjacent non‐cancerous tissues of OSCC patients using quantitative real‐time PCR, and Western blot. TBRG4 expression was also analysed in The Cancer Genome Atlas Head–Neck Squamous Cell Carcinoma (TCGA‐HNSC) dataset using the UALCAN tool (http://ualcan.path.uab.edu/). The relationship between TBRG4 expression and the patient's prognosis was analysed using Kaplan–Meier plotter.

Results

Both mRNA and protein levels of TBRG4 were significantly increased in OSCC tissues. The TBGR4 expression was significantly associated with advanced stages (III and IV) and the worst pattern of invasion (WPOI‐4 and 5). High TBRG4 expression was also significantly associated with reduced overall survival (p = 0.011). In addition, the analysis of TBRG4 gene expression and clinical data from TCGA, identified that TBRG4 was highly expressed in HPV negative OSCC patients and positively correlated with worst overall survival.

Conclusion

The present study suggests that the high expression of TBRG4 might serve as a novel prognostic biomarker for HPV‐negative OSCC, which can be validated by future additional investigations in larger cohorts along with functional studies.
Brain and antennal transcriptomes of host ants reveal potential links between behaviour and the functioning of socially parasitic colonies
Authors: Stoldt Marah , Collin Erwann , Macit Maide Nesibe , Foitzik Susanne
Published: August 2023

Insect social parasites are characterized by exploiting the hosts' social behaviour. Why exactly hosts direct their caring behaviour towards these parasites and their offspring remains largely unstudied. One hypothesis is that hosts do not perceive their social environment as altered and accept the parasitic colony as their own. We used the ant Leptothorax acervorum, host of the dulotic, obligate social parasite Harpagoxenus sublaevis, to shed light on molecular mechanisms underlying behavioural exploitation by contrasting tissue‐specific transcriptomes in young host workers. Host pupae were experimentally (re‐)introduced into fragments of their original, another conspecific, heterospecific or parasitic colony. Brain and antennal mRNA was extracted and sequenced from adult ants after they had lived in the experimental colony for at least 50 days after eclosion. The resulting transcriptomes of L. acervorum revealed that ants were indeed affected by their social environment. Host brain transcriptomes were altered by the presence of social parasites, suggesting that the parasitic environment influences brain activity, which may be linked to behavioural changes. Transcriptional activity in the antennae changed most with the presence of unrelated individuals, regardless of whether they were conspecifics or parasites. This suggests early priming of odour perception, which was further supported by sensory perception of odour as an enriched function of differentially expressed genes. Furthermore, gene expression in the antennae, but not in the brain corresponded to ant worker behaviour before sampling. Our study demonstrated that the exploitation of social behaviours by brood parasites correlates with transcriptomic alterations in the central and peripheral nervous systems.
The effect of listening to music during continuous positive airway pressure on agitation levels and compliance of intensive care patients with COVID‐19: A randomized controlled trial
Authors: Bilgili Sumeyye , Balci Akpinar Reva
Published: August 2023

Background

Agitation and incompliance with the treatment may be observed in patients undergoing continuous positive airway pressure (CPAP), which may cause inadequate oxygenation, sedation, termination of CPAP or intubation of the patient.

Aim

This study was conducted to determine the effect of listening to music during CPAP on the agitation levels of intensive care patients who underwent CPAP as a result of COVID‐19 and their compliance with the treatment.

Study design

This study was a prospective, randomized, controlled clinical trial. Seventy‐six intensive care patients with COVID‐19 were included in this study and assigned to the music and control groups via the block randomization method. The study was completed with 70 patients. The patients and outcome assessors were not blinded in this study. The Richmond Agitation and Sedation Scale (RASS) level, respiratory rate, oxygen saturation (SpO2) and mask air leakage amount were the outcome measures.

Results

The mean RASS score of the patients in the intervention group was 2.14 ± 0.69 before CPAP, 1.63 ± 064 at the 1st minute, 0.89 ± 0.58 at the 15th minute and 0.74 ± 0.61 at the 30th minute. The mean RASS score of the patients in the control group was 2.06 ± 0.53 before CPAP, 1.80 ± 0.58 at the 1st minute, 1.43 ± 0.60 at the 15th minute and 1.46 ± 0.61 at the 30th minute of CPAP. There was a statistically significant difference between the groups at the 15th and 30th minutes (t = −3.81, p < .001; t = −4.89, p < .001 respectively). The mean respiratory rate, SpO2 and mask air leakage amount were compared between the groups. There was a statistically significant difference in favour of the intervention group at the 15th minute (t = −2.47, p < .001; t = 2.57, p < .001; t = 2.93, p < .001 respectively) and 30th minute (t = −3.17, p < .001; t = 3.46, p < .001; t = −3.93, p < .001 respectively).

Conclusions

The study results show that listening to music during CPAP reduces the agitation levels of patients and helps them comply with the treatment.

Relevance to clinical practice

Music may be a beneficial application for patients who are agitated and unable to comply with CPAP therapy. This is an easy and applicable method, which can protect patients from the adverse effects of failed CPAP.
Rethinking the potential productivity of crassulacean acid metabolism by integrating metabolic dynamics with shoot architecture, using the example of Agave tequilana
Authors: Wang Yu , Smith J. Andrew C. , Zhu Xin‐Guang , Long Stephen P.
Published: August 2023

Terrestrial CAM plants typically occur in hot semiarid regions, yet can show high crop productivity under favorable conditions.

To achieve a more mechanistic understanding of CAM plant productivity, a biochemical model of diel metabolism was developed and integrated with 3‐D shoot morphology to predict the energetics of light interception and photosynthetic carbon assimilation.

Using Agave tequilana as an example, this biochemical model faithfully simulated the four diel phases of CO2 and metabolite dynamics during the CAM rhythm. After capturing the 3‐D form over an 8‐yr production cycle, a ray‐tracing method allowed the prediction of the light microclimate across all photosynthetic surfaces. Integration with the biochemical model thereby enabled the simulation of plant and stand carbon uptake over daily and annual courses.

The theoretical maximum energy conversion efficiency of Agave spp. is calculated at 0.045–0.049, up to 7% higher than for C3 photosynthesis. Actual light interception, and biochemical and anatomical limitations, reduced this to 0.0069, or 15.6 Mg ha−1 yr−1 dry mass annualized over an 8‐yr cropping cycle, consistent with observation. This is comparable to the productivity of many C3 crops, demonstrating the potential of CAM plants in climates where little else may be grown while indicating strategies that could raise their productivity.
Density estimation and regression analysis on hyperspheres in the presence of measurement error
Authors: Jeon Jeong Min , Van Keilegom Ingrid
Published: August 2023

This paper studies density estimation and regression analysis with data observed on a general unit hypersphere and contaminated by measurement errors. We establish novel density and regression estimators, and study their asymptotic properties such as the rates of convergence and asymptotic normality. We also provide two types of asymptotic confidence intervals for both density and regression functions. One type is based on the asymptotic normality of their estimators and the other type is based on the empirical likelihood technique. We present practical details on the implementation of our method as well as simulation studies and real data analysis.
Building a White Nation
Authors: Jörder Katharina
Published: August 2023

Throughout the apartheid era South Africa maintained a wide-reaching propaganda apparatus. At its core was the information service that strongly capitalised on photography to visually articulate the minority regime’s racist political messages, promote Afrikaner nationalism, and consolidate white rule. By unearthing a substantial corpus of photographs that so far have been hidden in archives, this book offers a distinctive perspective on the institutional context of the regime’s photographic production and how it was tightly linked to the objective to build a white nation. Through scrutiny of the photographic material’s iconographies, its circulation in printed matters, and a comparison with works by photographers such as Margaret Bourke-White, Ernest Cole and David Goldblatt, readers gain fresh insight into the country’s visual culture of the period. Based on the ambiguity of photographs, the monograph challenges the alleged dichotomy between so-called pro- and anti-apartheid photography, highlighting how the regime was able to position photographs in the grey area of inconspicuousness. By blending photo theory and art historical analysis with historical studies, Building a White Nation will appeal to scholars and postgraduate students in cultural studies interested in photo history and theory, visual culture and art history, African studies, South African photography, Afrikaner nationalism, propaganda studies, postcolonial studies, and archive theory.
Nanowired human cardiac organoid transplantation enables highly efficient and effective recovery of infarcted hearts
Authors: Tan Yu , Coyle Robert C. , Barrs Ryan W. , Silver Sophia E. , Li Mei , Richards Dylan J. , Lin Yiliang , Jiang Yuanwen , Wang Hongjun , Menick Donald R. , Deleon-Pennell Kristine , Tian Bozhi , Mei Ying
Published: August 2023

Human cardiac organoids hold remarkable potential for cardiovascular disease modeling and human pluripotent stem cell–derived cardiomyocyte (hPSC-CM) transplantation. Here, we show cardiac organoids engineered with electrically conductive silicon nanowires (e-SiNWs) significantly enhance the therapeutic efficacy of hPSC-CMs to treat infarcted hearts. We first demonstrated the biocompatibility of e-SiNWs and their capacity to improve cardiac microtissue engraftment in healthy rat myocardium. Nanowired human cardiac organoids were then engineered with hPSC-CMs, nonmyocyte supporting cells, and e-SiNWs. Nonmyocyte supporting cells promoted greater ischemia tolerance of cardiac organoids, and e-SiNWs significantly improved electrical pacing capacity. After transplantation into ischemia/reperfusion–injured rat hearts, nanowired cardiac organoids significantly improved contractile development of engrafted hPSC-CMs, induced potent cardiac functional recovery, and reduced maladaptive left ventricular remodeling. Compared to contemporary studies with an identical injury model, greater functional recovery was achieved with a 20-fold lower dose of hPSC-CMs, revealing therapeutic synergy between conductive nanomaterials and human cardiac organoids for efficient heart repair.
1-Oleoyl-lysophosphatidylethanolamine stimulates RORγt activity in T
H
17 cells
Authors: Endo Yusuke , Kanno Toshio , Nakajima Takahiro , Ikeda Kazutaka , Taketomi Yoshitaka , Yokoyama Satoru , Sasamoto Shigemi , Asou Hikari K. , Miyako Keisuke , Hasegawa Yoshinori , Kawashima Yusuke , Ohara Osamu , Murakami Makoto , Nakayama Toshinori
Published: August 2023

Metabolic fluxes involving fatty acid biosynthesis play essential roles in controlling the differentiation of T helper 17 (T
H
17) cells. However, the exact enzymes and lipid metabolites involved, as well as their link to promoting the core gene transcriptional signature required for the differentiation of T
H
17 cells, remain largely unknown. From a pooled CRISPR-based screen and unbiased lipidomics analyses, we identified that 1-oleoyl-lysophosphatidylethanolamine could act as a lipid modulator of retinoid-related orphan receptor gamma t (RORγt) activity in T
H
17 cells. In addition, we specified five enzymes, including
Gpam
,
Gpat3
,
Lplat1
,
Pla2g12a
, and
Scd2
, suggestive of the requirement of glycerophospholipids with monounsaturated fatty acids being required for the transcription of
Il17a
. 1-Oleoyl-lysophosphatidylethanolamine was reduced in
Pla2g12a
-deficient T
H
17 cells, leading to the abolition of interleukin-17 (IL-17) production and disruption to the core transcriptional program required for the differentiation of T
H
17 cells. Furthermore, mice with T cell–specific deficiency of
Pla2g12a
failed to develop disease in an experimental autoimmune encephalomyelitis model of multiple sclerosis. Thus, our data indicate that 1-oleoyl-lysophosphatidylethanolamine is a lipid metabolite that promotes RORγt-induced T
H
17 cell differentiation and the pathogenicity of T
H
17 cells.
Seismic anisotropy indicates organized melt beneath the Mid-Atlantic Ridge aids seafloor spreading
Authors: Kendall J.M. , Schlaphorst D. , Rychert C.A. , Harmon N. , Agius M. , Tharimena S.
Published: August 2023

Lithospheric plates diverge at mid-ocean ridges and asthenospheric mantle material rises in response. The rising material decompresses, which can result in partial melting, potentially impacting the driving forces of the system. Yet the geometry and spatial distribution of the melt as it migrates to the ridge axis are debated. Organized melt fabrics can cause strong seismic anisotropy, which can be diagnostic of melt, although this is typically not found at ridges. We present anisotropic constraints from an array of 39 ocean-bottom seismometers deployed on 0–80 Ma lithosphere from March 2016 to March 2017 near the equatorial Mid-Atlantic Ridge (MAR). Local and SKS measurements show anisotropic fast directions away from the ridge axis, which are consistent with strain and associated fabric caused by plate motions with short delay times, δt (<1.1 s). Near the ridge axis, we find several ridge-parallel fast splitting directions, φ, with SKS δt that are much longer (1.7–3.8 s). This is best explained by ridge-parallel sub-vertical orientations of sheet-like melt pockets. This observation is much different than anisotropic patterns observed at other ridges, which typically reflect fabric related to plate motions. One possibility is that thicker sub-ridge lithosphere with steep sub-ridge topography beneath slower spreading centers focuses melt into vertical, ridge-parallel melt bands, which effectively weakens the plate. Associated buoyancy forces elevate the sub-ridge plate, providing greater potential energy and enhancing the driving forces of the plates.
Isolated pulmonary hydatid cyst
Authors: Beacom Sabrina , Nand Priya , Singh Parampreet , Harrison Anil
Published: August 2023

Echinococcosis is primarily a disease of developing nations with poor medical infrastructure, where cohabitation with domesticated animals is common. These conditions, in conjunction with the inherent chronicity of the disease, lead to low rates of diagnosis and high morbidity. Robust surveillance is not readily available in communities with the highest disease burden.

WHO classifications assist in diagnostic and treatment endeavours especially in countries where this disease is not commonly encountered. However, the understanding of the pathophysiology of echinococcosis and optimal treatment are still lacking in certain patient populations.

We present the case of a female from Central Asia with an isolated pulmonary hydatid cyst. She was diagnosed several months after she had an uncomplicated pregnancy and gave birth to a healthy baby girl. Due to a delay in surgical intervention, our patient received a prolonged course of treatment which resulted in a significant reduction in the size of the cyst. Given her improvement, we questioned the current guidelines set by the WHO regarding surgical resection of pulmonary hydatid cysts, compared with an extended course with albendazole in patients with an unusual and protracted course of the disease. Furthermore, we discuss the possible role of pregnancy in exacerbating symptoms of underlying pulmonary hydatid disease.
Reducing prolonged fasting for abdominal ultrasound scans
Authors: Sondh Rajan Singh , Mankotia Rajnish
Published: August 2023

This project aimed to address the issue of patients experiencing prolonged fasting periods before undergoing abdominal ultrasound scans in a busy surgical service at our hospital. A review of in-patient data revealed that 78% of patients were not following the recommended 6 hours fast before the scan. This led to poor patient experiences, prolonged diagnosis and management, and increased costs due to rescheduling of scans. To address this problem, a series of plan-do-study-act (PDSA) cycles were implemented to test different interventions aimed at improving staff awareness and compliance with fasting guidelines. The first PDSA cycle involved displaying a poster with fasting instructions in the doctors and nursing offices. This was followed by increasing awareness of guidelines during meetings and presenting the findings at a teaching session. Each PDSA cycle was followed by data collection to assess the impact of the intervention. The project resulted in an improvement in patient experiences, with 88% of patients being appropriately fasted by the end of the project. The study highlights the importance of using PDSA cycles to test and refine interventions and the positive impact of simple interventions on patient outcomes and clinical workflow.
Rheumatoid factor isotypes in rheumatoid arthritis diagnosis and prognosis: a systematic review and meta-analysis
Authors: Motta Francesca , Bizzaro Nicola , Giavarina Davide , Franceschini Franco , Infantino Maria , Palterer Boaz , Sebastiani Gian Domenico , Selmi Carlo
Published: August 2023

Objective

The first biomarker associated with the rheumatoid arthritis is rheumatoid factor (RF) and since the earliest reports a role has been proposed in the diagnosis and in the prediction of clinical features and outcome. The study of RF isotypes has further attempted to improve diagnostic accuracy and identify specific subgroups of patients. The main objective of this study is to provide an analysis of the literature on the role of RF isotypes in the diagnosis and prognosis of rheumatoid arthritis (RA).

Methods

We performed a systematic literature review and meta-analysis on the role of RF isotypes in RA (only in English, from PubMed, search terms: “rheumatoid factor isotypes”, “diagnosis”, “prognosis” and “rheumatoid arthritis”, last search 31 July 2022, two independent assessment of quality and biases, results included in tables and in the meta-analysis).

Results

Thirty-six articles were examined (7517 patients). Testing all RF isotypes with latex test or nephelometry allows for the highest sensitivity (68.6%, 95% CI 66.2% to 71.0%); nonetheless, the determination of IgA isotype provides the highest specificity (91.4%, 95% CI 90.8% to 92.0%) and the highest positive likelihood ratio (7.7, 95% CI 5.7 to 10.4). When testing IgM isotype the highest diagnostic OR (21.7, 95% CI 16.1 to 29.3) is reached. When analysing anti-citrullinated protein antibodies, RF isotype determination increases diagnostic accuracy. On the other hand, these do not provide relevant prognostic information, as results are conflicting.

Conclusions

Testing RF allows the highest sensitivity, while IgA isotype the highest specificity and positive likelihood ratio for RA diagnosis. On the other hand, determination of RF isotypes dose not allow prognostic information, as data are limited and heterogeneous.
Performance evaluation of petroleum hard pitch modified with rice straw bio-oil
Authors: Verma Muskan , Gottumukkala Bharath , Behl Ambika , Thallada Bhaskar , Kakade Vijay , Kumar Jitendra
Published: August 2023

In this present study, bio-binder was made using the bio-oil obtained from rice straw and petroleum hard pitch to reduce the air pollution caused by the burning of waste rice straw in the field. The physical, rheological, and chemical tests were conducted on the viscosity-grade binders (VG30 and VG40), petroleum hard pitch, and bio-binders prepared with a blending of petroleum hard pitch with 20 and 30 wt.%. The performance of bituminous mixes made with viscosity-grade binders and bio-binder was evaluated by using the dynamic creep, resilient modulus, and tensile strength tests. The results of the frequency sweep and Fourier transform infrared tests indicate that bio-binders have poor resistance to aging. The rut resistance of the bio-binder modified mix was better than that of the VG30 mix. There is no significant difference in moisture resistance of bituminous mixes prepared with bio-binder and viscosity-grade binders.
Improved Invasive Weed Social Ski-Driver Optimization-Based Deep Convolution Neural Network for Diabetic Retinopathy Classification
Authors: Bhat Padmanayana , Anoop B. K.
Published: August 2023

The eye-related problem of diabetes is called diabetic retinopathy (DR), which is the main factor contributing to visual loss. This research develops an enhanced deep model for DR classification. Here, deep convolutional neural network (Deep CNN) is trained with the improved invasive weed social ski-driver optimization (IISSDO), which is generated by fusing improved invasive weed optimization (IIWO) and social ski-driver (SSD). The IISSDO-based Deep CNN classifies DR severity into normal, mild, non-proliferative DR (NPDR), moderate NPDR, severe NPDR, and proliferative. Initially, a type 2 fuzzy and cuckoo search (T2FCS) filter performs pre-processing and the quality of the data is improved by data augmentation. The lesion is then divided using DeepJoint segmentation. Then, the Deep CNN determines the DR. The analysis uses the Indian DR image database. The IISSDO-based Deep CNN has the highest accuracy, sensitivity, and specificity of 96.566%, 96.773%, and 96.517%, respectively.
Density-Dependent Selection
Authors: Travis Joseph , Bassar Ronald D. , Coulson Tim , Reznick David , Walsh Matthew
Published: August 2023

Density-dependent selection, which promotes contrasting patterns of trait means at different population densities, has a long history in population genetics and ecology. The unifying principle from theory is that density-dependent selection operates on phenotypic traits whose values counter the effects of whatever ecological agent is limiting population growth, be it resource competition, predators, or pathogens. However, the complexity inherent in density dependence means that the same selective process can generate multiple outcomes, depending upon the details of how population density affects vital rates and the age or size structure of a population. Failure to appreciate the potential for multiple outcomes confounded many early studies of the process. Nonetheless, careful empirical work in laboratory studies, long-term field studies, and studies of sexual selection demonstrates the wide reach of density-dependent selection. The inconsistent outcomes observed in these studies call for renewed research into how the details of density dependence channel adaptive responses.
Patterns of Non-Native Species Introduction, Spread, and Ecological Impact in South Florida, the World's Most Invaded Continental Ecoregion
Authors: Searcy Christopher A. , Howell Hunter J. , David Aaron S. , Rumelt Reid B. , Clements Stephanie L.
Published: August 2023

Invasive species are a chief threat to native biodiversity and are only becoming more common with human globalization. This creates a need to understand the patterns in invasion biology, including where invasions are most likely to occur, which species are most likely to establish and spread, and what are likely to be the most influential ecological consequences. We examine these questions through the lens of South Florida, the continental region with the most invasive species across the globe. First, understanding why South Florida has so many invasives and how they are distributed across South Florida helps us to understand where we can expect similar levels of invasion to occur. Second, understanding which species are most likely to establish, spread, and have the greatest ecological impact informs which invasions we should be most concerned about. Finally, the history of control efforts and their relative success can help guide future management practices.
Modeling of a Liquid Leaf Target TNSA Experiment Using Particle-In-Cell Simulations and Deep Learning
Authors: Schmitz B. , Kreuter D. , Boine-Frankenheim O. , Margarone Daniele
Published: August 2023

Liquid leaf targets show promise as high repetition rate targets for laser-based ion acceleration using the Target Normal Sheath Acceleration (TNSA) mechanism and are currently under development. In this work, we discuss the effects of different ion species and investigate how they can be leveraged for use as a possible laser-driven neutron source. To aid in this research, we develop a surrogate model for liquid leaf target laser-ion acceleration experiments, based on artificial neural networks. The model is trained using data from Particle-In-Cell (PIC) simulations. The fast inference speed of our deep learning model allows us to optimize experimental parameters for maximum ion energy and laser-energy conversion efficiency. An analysis of parameter influence on our model output, using Sobol’ and PAWN indices, provides deeper insights into the laser-plasma system.
Voltage Stability Assessment and Control Using Indices and FACTS: A Comparative Review
Authors: Gadal Rabiaa , Oukennou Aziz , El Mariami Faissal , Belfqih Abdelziz , Agouzoul Naima
Published: August 2023

The problem of voltage stability is becoming a more acute and indispensable topic given the major and sensitive role it plays in the electrical system. It can be considered a major factor in the initiation of blackouts around the world. Hence, the need for reliable and fast tools to detect and control the approach of instability points throughout the network, namely, voltage stability indices and flexible alternating current transmission systems (FACTS) devices for the control and management of the electrical network. In this paper, an update on the existing blackouts in the world has been presented. Based on the brief overview of the most significant definitions of voltage stability presented in this work, a new definition of voltage stability has been proposed. A detailed comparative study on voltage stability analysis methods has been conducted. Furthermore, an exhaustive discussion on the various voltage stability indices and FACTS devices existing in the literature with their contribution to voltage stability prediction and improvement has been proposed.
Supplementary Table S8 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Eligibility and exclusion criteria
Supplementary Table S7 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Criteria for modifying treatment
Supplementary table 1 from Spectrum of Response to Platinum and PARP Inhibitors in Germline BRCA–Associated Pancreatic Cancer in the Clinical and Preclinical Setting
Authors: Stossel Chani , Raitses-Gurevich Maria , Atias Dikla , Beller Tamar , Glick Gorman Yulia , Halperin Sharon , Peer Eyal , Denroche Robert E. , Zhang Amy , Notta Faiyaz , Wilson Julie M. , O'Kane Grainne M. , Haimov Talmoud Elina , Amison Nora , Schvimer Michael , Salpeter Seth J. , Bar Vered , Zundelevich Adi , Tirosh Itay , Tal Rotem , Dinstag Gal , Kinar Yaron , Eliezer Yonatan , Ben-David Uri , Gavert Nancy S. , Straussman Ravid , Gallinger Steven J. , Berger Raanan , Golan Talia
Published: August 2023

In vivo, EVOC and clinical response
Supplementary Table S5A from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Whole-exome sequencing and RNA sequencing analyses of archived tumor tissue samples
Supplementary figure 1 from Spectrum of Response to Platinum and PARP Inhibitors in Germline BRCA–Associated Pancreatic Cancer in the Clinical and Preclinical Setting
Authors: Stossel Chani , Raitses-Gurevich Maria , Atias Dikla , Beller Tamar , Glick Gorman Yulia , Halperin Sharon , Peer Eyal , Denroche Robert E. , Zhang Amy , Notta Faiyaz , Wilson Julie M. , O'Kane Grainne M. , Haimov Talmoud Elina , Amison Nora , Schvimer Michael , Salpeter Seth J. , Bar Vered , Zundelevich Adi , Tirosh Itay , Tal Rotem , Dinstag Gal , Kinar Yaron , Eliezer Yonatan , Ben-David Uri , Gavert Nancy S. , Straussman Ravid , Gallinger Steven J. , Berger Raanan , Golan Talia
Published: August 2023

In vivo growth kinetics and EVOC efficacy in acquired resistance model
Supplementary Table S4 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Progression-free survival ratio
Supplementary Table S3A-B from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Pharmacokinetics
Supplementary Table S2 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Patient characteristics
Supplementary Table S3 from Mitochondrial-Encoded Complex I Impairment Induces a Targetable Dependency on Aerobic Fermentation in Hürthle Cell Carcinoma of the Thyroid
Authors: Frank Anderson R. , Li Vicky , Shelton Spencer D. , Kim Jiwoong , Stott Gordon M. , Neckers Leonard M. , Xie Yang , Williams Noelle S. , Mishra Prashant , McFadden David G.
Published: August 2023

Supplementary Table S3 shows the results of our genome-wide and targeted CRISPR-Cas9 screens.
Supplementary Table S2 from Mitochondrial-Encoded Complex I Impairment Induces a Targetable Dependency on Aerobic Fermentation in Hürthle Cell Carcinoma of the Thyroid
Authors: Frank Anderson R. , Li Vicky , Shelton Spencer D. , Kim Jiwoong , Stott Gordon M. , Neckers Leonard M. , Xie Yang , Williams Noelle S. , Mishra Prashant , McFadden David G.
Published: August 2023

Supplementary Table S2 shows nuclear genome variants identified in NCI-237-R PDX through whole-exome sequencing.
Supplementary Figure S6 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Study design
Supplementary Table S1 from Mitochondrial-Encoded Complex I Impairment Induces a Targetable Dependency on Aerobic Fermentation in Hürthle Cell Carcinoma of the Thyroid
Authors: Frank Anderson R. , Li Vicky , Shelton Spencer D. , Kim Jiwoong , Stott Gordon M. , Neckers Leonard M. , Xie Yang , Williams Noelle S. , Mishra Prashant , McFadden David G.
Published: August 2023

Supplementary Table S1 shows key mtDNA mutations identified through whole-exome sequencing and targeted mtDNA sequencing.
Supplementary Figure S1-S6 from Mitochondrial-Encoded Complex I Impairment Induces a Targetable Dependency on Aerobic Fermentation in Hürthle Cell Carcinoma of the Thyroid
Authors: Frank Anderson R. , Li Vicky , Shelton Spencer D. , Kim Jiwoong , Stott Gordon M. , Neckers Leonard M. , Xie Yang , Williams Noelle S. , Mishra Prashant , McFadden David G.
Published: August 2023

Supplementary Figure S1 shows validation of key genetic features in NCI-237 and metabolic characterization of thyroid cancer cell lines. Supplementary Figure S2 shows growth curves and depletion/enrichment plots for pooled CRISPR-Cas9 screens. Supplementary Figure S3 shows validation of complex I impairment conferring sensitivity to LDH inhibition. Supplementary Figure S4 shows metabolic profiling of LDH inhibition in NCI-237 cells. Supplementary Figure S5 shows the validation of NADH-oxidizing enzymes and that NAD+ regeneration rescues LDH inhibition. Supplementary Figure S6 shows that LDH inhibition impairs NCI-237-R PDX proliferation.
Supplementary Figure S4A from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Anti-tumor activity
Supplementary Figure S3 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

Supplementary Dosing schedule in 11 patients
Supplementary_Table5 from Effectors Enabling Adaptation to Mitochondrial Complex I Loss in Hürthle Cell Carcinoma
Authors: Gopal Raj K. , Vantaku Venkata R. , Panda Apekshya , Reimer Bryn , Rath Sneha , To Tsz-Leung , Fisch Adam S. , Cetinbas Murat , Livneh Maia , Calcaterra Michael J. , Gigliotti Benjamin J. , Pierce Kerry A. , Clish Clary B. , Dias-Santagata Dora , Sadow Peter M. , Wirth Lori J. , Daniels Gilbert H. , Sadreyev Ruslan I. , Calvo Sarah E. , Parangi Sareh , Mootha Vamsi K.
Published: August 2023

Supplementary Table5 provides the CRISPR screen results
Supplementary Figure S1 from Clinical Activity and Exploratory Resistance Mechanism of Milademetan, an MDM2 Inhibitor, in Intimal Sarcoma with MDM2 Amplification: An Open-Label Phase Ib/II Study
Authors: Koyama Takafumi , Shimizu Toshio , Kojima Yuki , Sudo Kazuki , Okuma Hitomi Sumiyoshi , Shimoi Tatsunori , Ichikawa Hitoshi , Kohsaka Shinji , Sadachi Ryo , Hirakawa Akihiro , Yoshida Akihiko , Ando Reiko Makihara , Ueno Toshihide , Yanagaki Mitsuru , Matsui Naoko , Nakamura Kenichi , Yamamoto Noboru , Yonemori Kan
Published: August 2023

MASTER KEY PROJECT
Supplementary_Table4 from Effectors Enabling Adaptation to Mitochondrial Complex I Loss in Hürthle Cell Carcinoma
Authors: Gopal Raj K. , Vantaku Venkata R. , Panda Apekshya , Reimer Bryn , Rath Sneha , To Tsz-Leung , Fisch Adam S. , Cetinbas Murat , Livneh Maia , Calcaterra Michael J. , Gigliotti Benjamin J. , Pierce Kerry A. , Clish Clary B. , Dias-Santagata Dora , Sadow Peter M. , Wirth Lori J. , Daniels Gilbert H. , Sadreyev Ruslan I. , Calvo Sarah E. , Parangi Sareh , Mootha Vamsi K.
Published: August 2023

Supplementary Table4 provides the metabolomics analysis
Supplementary_Table2 from Effectors Enabling Adaptation to Mitochondrial Complex I Loss in Hürthle Cell Carcinoma
Authors: Gopal Raj K. , Vantaku Venkata R. , Panda Apekshya , Reimer Bryn , Rath Sneha , To Tsz-Leung , Fisch Adam S. , Cetinbas Murat , Livneh Maia , Calcaterra Michael J. , Gigliotti Benjamin J. , Pierce Kerry A. , Clish Clary B. , Dias-Santagata Dora , Sadow Peter M. , Wirth Lori J. , Daniels Gilbert H. , Sadreyev Ruslan I. , Calvo Sarah E. , Parangi Sareh , Mootha Vamsi K.
Published: August 2023

Supplementary Table 2 provides the mtDNA and LOH analyses
Supplementary_Table1 from Effectors Enabling Adaptation to Mitochondrial Complex I Loss in Hürthle Cell Carcinoma
Authors: Gopal Raj K. , Vantaku Venkata R. , Panda Apekshya , Reimer Bryn , Rath Sneha , To Tsz-Leung , Fisch Adam S. , Cetinbas Murat , Livneh Maia , Calcaterra Michael J. , Gigliotti Benjamin J. , Pierce Kerry A. , Clish Clary B. , Dias-Santagata Dora , Sadow Peter M. , Wirth Lori J. , Daniels Gilbert H. , Sadreyev Ruslan I. , Calvo Sarah E. , Parangi Sareh , Mootha Vamsi K.
Published: August 2023

Supplementary Table 1 describes the HCC clinical cohort
Table S5 from SHP2 Inhibition Sensitizes Diverse Oncogene-Addicted Solid Tumors to Re-treatment with Targeted Therapy
Authors: Drilon Alexander , Sharma Manish R. , Johnson Melissa L. , Yap Timothy A. , Gadgeel Shirish , Nepert Dale , Feng Gang , Reddy Micaela B. , Harney Allison S. , Elsayed Mohamed , Cook Adam W. , Wong Christina E. , Hinklin Ronald J. , Jiang Yutong , Brown Eric N. , Neitzel Nickolas A. , Laird Ellen R. , Wu Wen-I , Singh Anurag , Wei Ping , Ching Keith A. , Gaudino John J. , Lee Patrice A. , Hartley Dylan P. , Rothenberg S. Michael
Published: August 2023

Supplementary Table 5: Plasma and brain tissue concentrations, brain-to-plasma ratios, and brain concentration over IC50 values for PF-07284892 and TNO155 at dose levels preferred for concomitant administration
Figure 6 from Effectors Enabling Adaptation to Mitochondrial Complex I Loss in Hürthle Cell Carcinoma
Authors: Gopal Raj K. , Vantaku Venkata R. , Panda Apekshya , Reimer Bryn , Rath Sneha , To Tsz-Leung , Fisch Adam S. , Cetinbas Murat , Livneh Maia , Calcaterra Michael J. , Gigliotti Benjamin J. , Pierce Kerry A. , Clish Clary B. , Dias-Santagata Dora , Sadow Peter M. , Wirth Lori J. , Daniels Gilbert H. , Sadreyev Ruslan I. , Calvo Sarah E. , Parangi Sareh , Mootha Vamsi K.
Published: August 2023

HCC cells are sensitive to ferroptosis. A, Diagram showing glutathione (GSH) production and GPX4 reaction with drug targets. B, Dose–response curves for RSL3 plotted as normalized cell number for all cell lines with brightfield microscopy. Break in the x-axis to allow visualization of 0 nmol/L RSL3. Scale bars, 250 μm; mean ± SD; n = 3, representative of 3 experiments; significance tested with extra sum-of-squares F test: ***, P < 0.0001. C, Normalized cell number for cell lines with RSL3 ± ferrostatin (1 μmol/L) with brightfield microscopy. Scale bars, 250 μm; mean ± SD; n = 3, representative of 2 experiments; significance from an unpaired t test: ***, P < 0.001; ns, P > 0.05. D, Tumor volume (mm3) measurements of NCI-HCC xenografts treated with vehicle (5% DMSO) or 100 mg/kg sulfasalazine via daily i.p. injection; mean ± SD; n = 8; significance from unpaired t test: *, P < 0.05. E, H&E of vehicle- and sulfasalazine-treated tumors with bar plots of fibrosis/sclerosis score. Scale bars, 100 μm. Significance tested with a two-tailed test of proportions: *, P < 0.05. See also Supplementary Fig. S6.
Table S4 from SHP2 Inhibition Sensitizes Diverse Oncogene-Addicted Solid Tumors to Re-treatment with Targeted Therapy
Authors: Drilon Alexander , Sharma Manish R. , Johnson Melissa L. , Yap Timothy A. , Gadgeel Shirish , Nepert Dale , Feng Gang , Reddy Micaela B. , Harney Allison S. , Elsayed Mohamed , Cook Adam W. , Wong Christina E. , Hinklin Ronald J. , Jiang Yutong , Brown Eric N. , Neitzel Nickolas A. , Laird Ellen R. , Wu Wen-I , Singh Anurag , Wei Ping , Ching Keith A. , Gaudino John J. , Lee Patrice A. , Hartley Dylan P. , Rothenberg S. Michael
Published: August 2023

Supplementary Table 4: Pharmacokinetics of PF-07284892 in preclinical species
Figure 5 from Effectors Enabling Adaptation to Mitochondrial Complex I Loss in Hürthle Cell Carcinoma
Authors: Gopal Raj K. , Vantaku Venkata R. , Panda Apekshya , Reimer Bryn , Rath Sneha , To Tsz-Leung , Fisch Adam S. , Cetinbas Murat , Livneh Maia , Calcaterra Michael J. , Gigliotti Benjamin J. , Pierce Kerry A. , Clish Clary B. , Dias-Santagata Dora , Sadow Peter M. , Wirth Lori J. , Daniels Gilbert H. , Sadreyev Ruslan I. , Calvo Sarah E. , Parangi Sareh , Mootha Vamsi K.
Published: August 2023

CRISPR screen identifies vulnerability to GPX4 loss in HCC. A, Schema for customized CRISPR screen with sampling times and DNA sequencing. B, Gene fitness scatter plots showing Z-scores in NCI-HCC (y-axis) vs. Nthy-ori 3-1 (x-axis) cells from day 11 and 16 time points. C,GPX4 chronos scores from Cancer Dependency Map for all cancer cell lines ranked by sensitivity with mean (vertical line). CNS, central nervous system; PNS, peripheral nervous system. D, Ferroptosis heat map with schema of metabolic pathways represented in leading-edge genes with fold changes and adjusted P values in genes and metabolites, as well as CRISPR fitness score annotated according to the legend. See also Supplementary Fig. S5. CoQ, coenzyme Q; CoQH2, reduced coenzyme Q; PL, phospholipid.