bluuebunny/crossref_metadata_2025_split huggingface dataset:
A genomic data archive from the Network for Pancreatic Organ donors with Diabetes
Authors: Perry Daniel J. , Shapiro Melanie R. , Chamberlain Sonya W. , Kusmartseva Irina , Chamala Srikar , Balzano-Nogueira Leandro , Yang Mingder , Brant Jason O. , Brusko Maigan , Williams MacKenzie D. , McGrail Kieran M. , McNichols James , Peters Leeana D. , Posgai Amanda L. , Kaddis John S. , Mathews Clayton E. , Wasserfall Clive H. , Webb-Robertson Bobbie-Jo M. , Campbell-Thompson Martha , Schatz Desmond , Evans-Molina Carmella , Pugliese Alberto , Concannon Patrick , Anderson Mark S. , German Michael S. , Chamberlain Chester E. , Atkinson Mark A. , Brusko Todd M. 
Published: May 2023

AbstractThe Network for Pancreatic Organ donors with Diabetes (nPOD) is the largest biorepository of human pancreata and associated immune organs from donors with type 1 diabetes (T1D), maturity-onset diabetes of the young (MODY), cystic fibrosis-related diabetes (CFRD), type 2 diabetes (T2D), gestational diabetes, islet autoantibody positivity (AAb+), and without diabetes. nPOD recovers, processes, analyzes, and distributes high-quality biospecimens, collected using optimized standard operating procedures, and associated de-identified data/metadata to researchers around the world. Herein describes the release of high-parameter genotyping data from this collection. 372 donors were genotyped using a custom precision medicine single nucleotide polymorphism (SNP) microarray. Data were technically validated using published algorithms to evaluate donor relatedness, ancestry, imputed HLA, and T1D genetic risk score. Additionally, 207 donors were assessed for rare known and novel coding region variants via whole exome sequencing (WES). These data are publicly-available to enable genotype-specific sample requests and the study of novel genotype:phenotype associations, aiding in the mission of nPOD to enhance understanding of diabetes pathogenesis to promote the development of novel therapies.
Abdominal perfusion pressure in critically ill cirrhotic patients: a prospective observational study
Authors: Pereira Rui Antunes , Esteves André F. , Cardoso Filipe S. , Perdigoto Rui , Marcelino Paulo , Saliba Faouzi 
Published: May 2023

AbstractIn critical patients, abdominal perfusion pressure (APP) has been shown to correlate with outcome. However, data from cirrhotic patients is scarce. We aimed to characterize APP in critically ill cirrhotic patients, analyze the prevalence and risk factors of abdominal hypoperfusion (AhP) and outcomes. A prospective cohort study in a general ICU specialized in liver disease at a tertiary hospital center recruited consecutive cirrhotic patients between October 2016 and December 2021. The study included 101 patients, with a mean age of 57.2 (± 10.4) years and a female gender proportion of 23.5%. The most frequent etiology of cirrhosis was alcohol (51.0%), and the precipitant event was infection (37.3%). ACLF grade (1–3) distribution was 8.9%, 26.7% and 52.5%, respectively. A total of 1274 measurements presented a mean APP of 63 (± 15) mmHg. Baseline AhP prevalence was 47%, independently associated with paracentesis (aOR 4.81, CI 95% 1.46–15.8, p = 0.01) and ACLF grade (aOR 2.41, CI 95% 1.20–4.85, p = 0.01). Similarly, AhP during the first week (64%) had baseline ACLF grade (aOR 2.09, CI 95% 1.29–3.39, p = 0.003) as a risk factor. Independent risk factors for 28-day mortality were bilirubin (aOR 1.10, CI 95% 1.04–1.16, p < 0.001) and SAPS II score (aOR 1.07, CI 95% 1.03–1.11, p = 0.001). There was a high prevalence of AhP in critical cirrhotic patients. Abdominal hypoperfusion was independently associated with higher ACLF grade and baseline paracentesis. Risk factors for 28-day mortality included clinical severity and total bilirubin. The prevention and treatment of AhP in the high-risk cirrhotic patient is prudential.
Quantitative assessment of choriocapillaris flow deficits and type 1 macular neovascularization growth in age-related macular degeneration
Authors: Cabral Diogo , Fradinho Ana C. , Zhang Yi , Zhou Hao , Ramtohul Prithvi , Ramakrishnan Meera S. , Pereira Telmo , Wang Ruikang K. , Freund K. Bailey 
Published: May 2023

AbstractDuring the past 15 years, new treatment paradigms for neovascular age-related macular degeneration (nvAMD) have evolved due to the advent of intravitreal anti-vascular endothelial growth factor (VEGF) therapy and rapid advances in retinal imaging. Recent publications describe eyes with type 1 macular neovascularization (MNV) as showing more resistance to macular atrophy than eyes with other lesion types. We sought to explore whether the perfusion status of the native choriocapillaris (CC) surrounding type 1 MNV influences its pattern of growth. To evaluate this effect, we analyzed a case series of 22 eyes from 19 nvAMD patients with type 1 MNV exhibiting growth on swept-source optical coherence tomography angiography (SS-OCTA) over a minimum follow-up of 12 months. We observed an overall weak correlation between type 1 MNV growth and CC flow deficits (FDs) average size (τ = 0.17, 95% CI [− 0.20, 0.62]) and a moderate correlation with CC FD % (τ = 0.21, 95% CI [− 0.16, 0.68]). Type 1 MNV was located beneath the fovea in most of the eyes (86%) and median visual acuity was 20/35 Snellen equivalent. Our results support that type 1 MNV recapitulates areas of CC blood flow impairment while serving to preserve foveal function.
A descriptive study on misidentifications of a person as a familiar person in an everyday situation
Authors: Itoh Yuji , Miura Hiroshi , Shimane Daisuke 
Published: May 2023

AbstractThe purpose of this study is to show the characteristics of person misidentifications, that is, experiences in which persons are misidentified as known persons. A total of 121 participants were asked how many times they misidentified persons in the last year and details of a recent person misidentification were recorded through a traditional questionnaire. Additionally, they answered questions in a diary method questionnaire, about the details of person misidentification each time they experienced it, during the two-week survey period. The questionnaires revealed that the participants misidentified both known and unknown persons as familiar persons approximately six (traditional questionnaire) or 19 (diary method) times a year on average, regardless of whether they expected the persons to be there. They were more likely to misidentify a person as a familiar than as a less familiar person. It was also shown that the similarity of the faces of the person actually seen and the person they were mistaken for was not as high as the similarities of build and clothing. This study is expected to provide suggestions for models of person identification and enhance the research on errors.
Two-step crystallisation in a 2D active magnetic granular system confined by a parabolic potential
Authors: Escobar A. , Ledesma-Motolinía M. , Carrillo-Estrada J. L. , Donado F. 
Published: May 2023

AbstractWe studied the two-step crystallisation process of a magnetic active 2D-granular system placed on different lens concaveness and under the action of an alternating magnetic field which controls its effective temperature. We have observed that the two-step features of the crystallisation process are more evident as the depth of the parabolic potential increases. At the initial formation of the nucleus, as a first step, in the central region of the lens an amorphous aggregate is formed. In an ulterior second step, this disordered aggregate, due to the effective temperature and the perturbations caused by the impacts of free particles moving in the surrounding region, evolves to an ordered crystalline structure. The nucleus size is larger for deeper concaveness of the parabolic potential. However, if the depth of the parabolic potential exceeds a certain value, the reordering process of the second step does not occur. The crystal growth occurs similarly; small disordered groups of particles join the nucleus, forming an amorphous shell of particles which experiments a rearranging while the aggregate grows. In the explored range of the depths of the parabolic potential, crystallisation generally occurs quicker as the deeper parabolic potential is. Also, aggregates are more clearly round-shaped as parabolic potential depth increases. On the contrary, the structures are more branched for a smaller depth of the parabolic potential. We studied the structural changes and features in the system by using the sixth orientational order parameter and the packing fraction.
Nanoscale thermal control of a single living cell enabled by diamond heater-thermometer
Authors: Romshin Alexey M. , Zeeb Vadim , Glushkov Evgenii , Radenovic Aleksandra , Sinogeikin Andrey G. , Vlasov Igor I. 
Published: May 2023

AbstractWe report a new approach to controllable thermal stimulation of a single living cell and its compartments. The technique is based on the use of a single polycrystalline diamond particle containing silicon-vacancy (SiV) color centers. Due to the presence of amorphous carbon at its intercrystalline boundaries, such a particle is an efficient light absorber and becomes a local heat source when illuminated by a laser. Furthermore, the temperature of such a local heater is tracked by the spectral shift of the zero-phonon line of SiV centers. Thus, the diamond particle acts simultaneously as a heater and a thermometer. In the current work, we demonstrate the ability of such a Diamond Heater-Thermometer (DHT) to locally alter the temperature, one of the numerous parameters that play a decisive role for the living organisms at the nanoscale. In particular, we show that the local heating of 11–12 °C relative to the ambient temperature (22 °C) next to individual HeLa cells and neurons, isolated from the mouse hippocampus, leads to a change in the intracellular distribution of the concentration of free calcium ions. For individual HeLa cells, a long-term (about 30 s) increase in the integral intensity of Fluo-4 NW fluorescence by about three times is observed, which characterizes an increase in the [Ca2+]cyt concentration of free calcium in the cytoplasm. Heating near mouse hippocampal neurons also caused a calcium surge—an increase in the intensity of Fluo-4 NW fluorescence by 30% and a duration of ~ 0.4 ms.
Influence of hydrothermal carbonization conditions on the porosity, functionality, and sorption properties of microalgae hydrochars
Authors: Kozyatnyk Ivan , Benavente Veronica , Weidemann Eva , Gentili Francesco G. , Jansson Stina 
Published: May 2023

AbstractGreen microalgae is a possible feedstock for the production of biofuels, chemicals, food/feed, and medical products. Large-scale microalgae production requires large quantities of water and nutrients, directing the attention to wastewater as a cultivation medium. Wastewater-cultivated microalgae could via wet thermochemical conversion be valorised into products for e.g., water treatment. In this study, hydrothermal carbonization was used to process microalgae polycultures grown in municipal wastewater. The objective was to perform a systematic examination of how carbonization temperature, residence time, and initial pH affected solid yield, composition, and properties. Carbonization temperature, time and initial pH all had statistically significant effects on hydrochar properties, with temperature having the most pronounced effect; the surface area increased from 8.5 to 43.6 m2 g−1 as temperature was increased from 180 to 260 °C. However, hydrochars produced at low temperature and initially neutral pH generally had the highest capacity for methylene blue adsorption. DRIFTS analysis of the hydrochar revealed that the pH conditions changed the functional group composition, implying that adsorption was electrostatic interactions driven. This study concludes that un-activated hydrochars from wastewater grown microalgae produced at relatively low hydrothermal carbonization temperatures adsorb methylene blue, despite having low surface area.
Constructing a disease database and using natural language processing to capture and standardize free text clinical information
Authors: Raza Shaina , Schwartz Brian 
Published: May 2023

AbstractThe ability to extract critical information about an infectious disease in a timely manner is critical for population health research. The lack of procedures for mining large amounts of health data is a major impediment. The goal of this research is to use natural language processing (NLP) to extract key information (clinical factors, social determinants of health) from free text. The proposed framework describes database construction, NLP modules for locating clinical and non-clinical (social determinants) information, and a detailed evaluation protocol for evaluating results and demonstrating the effectiveness of the proposed framework. The use of COVID-19 case reports is demonstrated for data construction and pandemic surveillance. The proposed approach outperforms benchmark methods in F1-score by about 1–3%. A thorough examination reveals the disease’s presence as well as the frequency of symptoms in patients. The findings suggest that prior knowledge gained through transfer learning can be useful when researching infectious diseases with similar presentations in order to accurately predict patient outcomes.
Mechanical thrombectomy combined with intravenous thrombolysis for acute ischemic stroke: a systematic review and meta-analyses
Authors: Zheng Meiling , Li Li , Chen Lizhou , Li Bin , Feng Cuiling 
Published: May 2023

AbstractTo assess the clinical value of mechanical thrombectomy (MT) combined with intravenous thrombolysis (IVT) in acute ischemic stroke (AIS) by comparing it with the MT alone. In this study, we conducted a comprehensive meta-analysis of both observational and randomized controlled studies (RCTs) to investigate various outcomes. Our search for relevant studies was conducted between January 2011 and June 2022 in four major databases: PubMed, Embase, WOS, and Cochrane Library. We collected data on several outcomes, including functional independence (FI; defined as modified Rankin Scale score of 0 to 2), excellent outcomes (mRS 0–1), successful recanalization (SR), symptomatic intracerebral hemorrhage (sICH), any intracerebral hemorrhage (aICH), and mortality at three months or discharge. The primary efficacy outcome and safety outcome were FI and sICH, respectively, whereas excellent outcomes and SR were considered secondary efficacy outcomes. Additionally, mortality and aICH were analyzed as secondary safety outcomes. We employed the Mantel–Haenszel fixed-effects model for RCTs when I2 < 50%, otherwise the random-effects model was utilized. For observational studies and subgroup analyses, we used the random-effects model to minimize potential bias. A total of 55 eligible studies (nine RCTs and 46 observational studies) were included. For RCTs, the MT + IVT group was superior in FI (OR: 1.27, 95% CI: 1.11–1.46), excellent outcomes (OR: 1.21, 95% CI: 1.03–1.43), SR (OR: 1.23, 95% CI: 1.05–1.45), mortality (OR: 0.72, 95% CI: 0.54–0.97) in crude analyses. In adjusted analyses, the MT + IVT group reduced the risk of mortality (OR: 0.65, 95% CI: 0.49–0.88). However, the difference in FI between the MT + IVT group and the MT alone group was not significant (OR: 1.17, 95% CI: 0.99–1.38, Fig. 3a). For observational studies, the results of FI (OR: 1.34, 95% CI: 1.16–1.33), excellent outcomes (OR: 1.30, 95% CI: 1.09–1.54), SR (OR: 1.23, 95% CI: 1.05–1.44), mortality (OR: 0.70, 95% CI: 0.64–0.77) in the MT + IVT group were better. Additionally, the MT + IVT group increased the risk of hemorrhagic transformation (HT) including sICH (OR: 1.16, 95% CI: 1.11–1.21) and aICH (OR: 1.24, 95% CI: 1.05–1.46) in crude analyses. In adjusted analyses, significant better outcomes were seen in the MT + IVT group on FI (OR: 1.36, 95% CI: 1.21–1.52), excellent outcomes (OR: 1.49, 95% CI: 1.26–1.75), and mortality (OR: 0.73, 95% CI: 0.56–0.94). The MT + IVT therapy did improve the prognosis for AIS patients and did not increase the risk of HT compared with MT alone therapy.
RNA ligase ribozymes with a small catalytic core
Authors: Nomura Yoko , Yokobayashi Yohei 
Published: May 2023

AbstractCatalytic RNAs, or ribozymes, catalyze diverse chemical reactions that could have sustained primordial life in the hypothetical RNA world. Many natural ribozymes and laboratory evolved ribozymes exhibit efficient catalysis mediated by elaborate catalytic cores within complex tertiary structures. However, such complex RNA structures and sequences are unlikely to have emerged by chance during the earliest phase of chemical evolution. Here, we explored simple and small ribozyme motifs capable of ligating two RNA fragments in a template-directed fashion (ligase ribozymes). One-round selection of small ligase ribozymes followed by deep sequencing revealed a ligase ribozyme motif comprising a three-nucleotide loop opposite to the ligation junction. The observed ligation was magnesium(II) dependent and appears to form a 2′–5′ phosphodiester linkage. The fact that such a small RNA motif can function as a catalyst supports a scenario in which RNA or other primordial nucleic acids played a central role in chemical evolution of life.
Drought stress memory in a germplasm of synthetic and common wheat: antioxidant system, physiological and morphological consequences
Authors: Amini Azadeh , Majidi Mohammad Mahdi , Mokhtari Niloofar , Ghanavati Mehdi 
Published: May 2023

AbstractPlants have evolved mechanisms of adaptation to fluctuations in their environmental conditions that have been given the term “stress memory”. Synthetic wheat offers new hope for breeders to restore useful genes lost during the genetic bottleneck. We aimed to test whether drought priming and seed priming could improve drought tolerance in a diverse germplasm of synthetic and common wheat under field conditions. In this research, 27 wheat genotypes (including 20 synthetics, 4 common local and 3 common exotic bread wheat) were field evaluated under four water environments. These treatments included: 1) normal condition (N), plants were irrigated when 40% of the total available soil water was depleted from the root-zone, 2) seed priming-secondary stress (SD2), only water stress was applied at anthesis when 90% of the total available soil water was depleted and seeds were planted for evaluating, 3) primary stress- secondary stress (D1D2), primary water stress was applied at jointing stage when 70% of the total available soil water was depleted then secondary water stress was applied at the anthesis stage when 90% of the total available soil water was depleted, and 4) secondary stress (D2) only water stress was applied at the anthesis when 90% of the total available soil water was depleted. Our results indicated that improved efficient enzymatic antioxidant system leads to less yield reduction in D1D2 treatment. However, the positive effects of drought priming were more pronounced in drought primed (D1D2) than seed primed treatment (SD2). Synthetic wheat genotypes had a significant superiority in terms of yield, yield components and drought tolerance compared to common wheat genotypes. Nevertheless, the response of genotypes to stress memory was very different. Drought sensitive genotypes had better response to stress memory. Superior genotypes were identified as high yield and drought tolerant genotypes which can be used for future studies.
Phase I randomized, observer-blinded, placebo-controlled study of a SARS-CoV-2 mRNA vaccine PTX-COVID19-B
Authors: Martin-Orozco Natalia , Vale Noah , Mihic Alan , Amor Talya , Reiter Lawrence , Arita Yuko , Samson Reuben , Hu Queenie , Gingras Anne-Claude , Sorenson Bradley Thomas , Marcusson Eric Gates , Patel Piyush 
Published: May 2023

AbstractAccess to vaccines against SARS-CoV-2 virus was limited in poor countries during the COVID-19 pandemic. Therefore, a low-cost mRNA vaccine, PTX-COVID19-B, was produced and evaluated in a Phase 1 trial. PTX-COVID19-B encodes Spike protein D614G variant without the proline-proline (986–987) mutation present in other COVID-19 vaccines. The aim of the study was to evaluate safety, tolerability, and immunogenicity of PTX-COVID19-B vaccine in healthy seronegative adults 18–64 years old. The trial design was observer-blinded, randomized, placebo-controlled, and tested ascending doses of 16-µg, 40-µg, or 100-µg in a total of 60 subjects who received two intramuscular doses, 4 weeks apart. Participants were monitored for solicited and unsolicited adverse events after vaccination and were provided with a Diary Card and thermometer to report any reactogenicity during the trial. Blood samples were collected on baseline, days 8, 28, 42, 90, and 180 for serum analysis of total IgG anti-receptor binding domain (RBD)/Spike titers by ELISA, and neutralizing antibody titers by pseudovirus assay. Titers in BAU/mL were reported as geometric mean and 95% CI per cohort. After vaccination, few solicited adverse events were observed and were mild to moderate and self-resolved within 48 h. The most common solicited local and systemic adverse event was pain at the injection site, and headache, respectively. Seroconversion was observed in all vaccinated participants, who showed high antibody titers against RBD, Spike, and neutralizing activity against the Wuhan strain. Neutralizing antibody titers were also detected against Alpha, Beta, and Delta variants of concerns in a dose dependent manner. All tested doses of PTX-COVID19-B were safe, well-tolerated, and provided a strong immunogenicity response. The 40-µg dose showed fewer adverse reactions than the 100-µg dose, and therefore was selected for a Phase 2 trial, which is currently ongoing.Clinical Trial Registration number: NCT04765436 (21/02/2021). (https://clinicaltrials.gov/ct2/show/NCT04765436).
Effectiveness of bicycle helmets and injury prevention: a systematic review of meta-analyses
Authors: Büth Carlson Moses , Barbour Natalia , Abdel-Aty Mohamed 
Published: May 2023

AbstractTo mitigate the risk of injuries, many countries recommend bicycle helmets. The current paper seeks to examine the effectiveness of bicycle helmets by performing a systematic review focusing on meta-analyses. First, the current paper explores the findings of studies that employ meta-analyses using bicycle crash data. Second, the results are discussed considering the findings from research analyzing bicycle helmet effectiveness in a laboratory using simulation, and then are complemented with key methodological papers that address cycling and the overall factors contributing to the injury severity. The examined literature confirms that wearing a helmet while cycling is beneficial, regardless of age, crash severity, or crash type. The relative benefit is found to be higher in high-risk situations and when cycling on shared roads and particularly preventing severe head injuries. The results from the studies performed in laboratories also suggest that the shape and size of the head itself play a role in the protective effects of helmets. However, concerns regarding the equitability of the test conditions were found as all reviewed studies used a fifty-percentile male head and body forms. Lastly, the paper discusses the literature findings in a broader societal context.