bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analysing false‐positive errors when Australian radiographers use preliminary image evaluation
Authors: Takapautolo Jermayne , Neep Michael , Starkey Deborah 
Published: June 2024

AbstractIntroductionDiagnostic errors in the emergency departments can have major implications on patient outcomes. Preliminary Image Evaluation (PIE) is a brief comment written by a radiographer describing an acute or traumatic pathology on a radiograph and can be used to complement referrer's image interpretation in the absence of the radiologist report. Currently, no studies exist that focus their analysis on false‐positive (FP) errors in PIE. The purpose of this study was to investigate the regions of the body that cause the most FP errors and recognise other areas in image interpretation that may need additional attention.MethodsA longitudinal retrospective clinical audit was conducted to determine the accuracy of radiographer PIE's over 5 years from January 2016 to December 2020. PIE's were compared to the radiologist report to assess for diagnostic accuracy. FP and unsure errors were further categorised by anatomical region and age.ResultsOver this period, a sample size of 11,090 PIE audits were included in the study demonstrating an overall PIE accuracy of 87.7%. Foot, ankle and chest regions caused the most FP errors, while ankle, shoulder and elbow caused the most unsure cases. 76% of the unsure cases were negative for any pathology when compared to the radiologist report. The paediatric population accounted for 21.3% of FP cases and 33.6% of unsure cases.ConclusionFindings in this study should be used to tailor education specific to radiographer image interpretation. Improving radiography image interpretation skills can assist in improving referrer diagnostic accuracy, thus improving patient outcomes.
The effect of the number of strands and knot throws of core suture techniques on the mechanical properties of the repaired flexor tendon
Authors: Linden Liliann R. , Reisdorf Ramona , Selim Omar , Berglund Lawrence , Zhao Chunfeng 
Published: June 2024

AbstractFlexor tendon injury is a common hand trauma that requires surgical repair. The objective was to compare the repaired strength and gliding resistance with a varied number of repair strands and of square knots using a two‐strand‐overhand locking (TSOL) knot. First, isolated suture loops with different number of suture strands and number of closing knots were compared in mechanical strength and failure mode. Then, 90 flexor digitorum profundus (FDP) tendons from turkey digits were used for the tendon repair experiment. Both phases followed a similar 3 × 3 matrix comparing the knot type including TSOL+1SK (square knot), TSOL+2SK, and TSOL+3 SK and repair techniques including two‐, four‐, and six‐strand repairs techniques respectively. The repaired tendons were tested for tendon resistance against pulley (friction), maximum force, force at 2 mm displacement, stiffness, and failure mode. Increasing the number of strands and closing square knots increases the tensile strength and stiffness of flexor tendon repairs and isolated suture loops without a significant effect on tendon friction. An increase in the number of square knots have shown increased strength only in Pennington repair, which correlated with the increased number of knot unraveling, a weak knot failure model. Our data demonstrated that increasing the number of strands is effective for improving the overall strength of tendon repair. When a two‐strand repair is chosen, increasing knot number can improve repair strength. However, the number of knots appears not affecting repair strength in six‐strand repair technique.
Staphyloccocus aureus biofilm, in absence of planktonic bacteria, produces factors that activate counterbalancing inflammatory and immune‐suppressive genes in human monocytes
Authors: Bell Richard D. , Cann E. Abrefi , Mishra Bikash , Valencia Melanie , Zhang Qiong , Huang Mary , Yang Xu , Carli Alberto , Bostrom Mathias , Ivashkiv Lionel B. 
Published: June 2024

AbstractStaphyloccocus aureus (S. aureus) is a major bacterial pathogen in orthopedic periprosthetic joint infection (PJI). S. aureus forms biofilms that promote persistent infection by shielding bacteria from immune cells and inducing an antibiotic‐tolerant metabolic state. We developed an in vitro system to study S. aureus biofilm interactions with primary human monocytes in the absence of planktonic bacteria. In line with previous in vivo data, S. aureus biofilm induced expression of inflammatory genes such as TNF and IL1B, and their anti‐inflammatory counter‐regulator IL10. S. aureus biofilm also activated expression of PD‐1 ligands, and IL‐1RA, molecules that have the potential to suppress T cell function or differentiation of protective Th17 cells. Gene induction did not require monocyte:biofilm contact and was mediated by a soluble factor(s) produced by biofilm‐encased bacteria that was heat resistant and >3 kD in size. Activation of suppressive genes by biofilm was sensitive to suppression by Jak kinase inhibition. These results support an evolving paradigm that biofilm plays an active role in modulating immune responses, and suggest this occurs via production of a soluble vita‐pathogen‐associated molecular pattern, a molecule that signals microbial viability. Induction of T cell suppressive genes by S. aureus biofilm provides insights into mechanisms that can suppress T cell immunity in PJI.
Impact of Tissue Handling and Size Modification on Septal Chondrocyte Viability
Authors: Goshtasbi Khodayar , Nguyen Theodore V. , Prasad Karthik R. , Hong Ellen M. , Sterritt Naya , Dilley Katelyn K. , Kozlowski Konrad , Ha Alexis , Wong Brian J.F. 
Published: June 2024

IntroductionThe physical modification of cartilage grafts during rhinoplasty risks chondrocyte death at the margins where the tissue is cut. This study compares chondrocyte viability between diced, scaled, and pate samples in human models, and further computes percent chondrocyte viability as a function of sequential dicing size in a computational model.MethodsSeptal cartilage from 11 individuals was prepared as follows: diced (1 mm cubic), scaled (shaved to <1 mm thickness ~ translucent), pate (0.02 g of scraped cartilage surface), positive control (2 × 2 mm diced), and negative control (2 × 2 mm diced soaked in 70% EtOH). Viability analysis was performed using Live/Dead assay™ and confocal microscopy. Numerical simulation of cartilage dicing in 0.05 mm increments was performed using MATLAB assuming 250 chondrocytes/mm3 with each average chondrocyte size of 65 μm2.ResultsChondrocyte viability was similar between 1 mm diced cartilage, scaled cartilage, and positive control samples (p > 0.05). Conversely, pate samples had significantly less viability compared to positive controls, diced samples, and scaled samples (all p < 0.01 after Bonferroni correction). Pate samples had similar chondrocyte viability compared to negative controls (p = 0.36). On computational modeling, cartilage viability decreased to 50% as the diced sample was cut from 1 mm edge length to 0.7–0.8 mm. Similarly, cartilage viability decreased to 26% at 0.55–0.65 mm, 11% at 0.4–0.5 mm, and <5% at <0.4 mm edge length.ConclusionModifying septal cartilage grafts into 1 mm diced or scaled samples maintains ideal chondrocyte viability whereas pate preparations result in significant chondrocyte death. According to computational analysis, chondrocyte viability sharply decreases as the cartilage is diced below 0.7–0.8 mm.Level of EvidenceN/A Laryngoscope, 134:4259–4265, 2024
The Effect of Palatoplasty on Growth
Authors: Abdilahi Abdiasis , Ramin Seth , Meyer Cassandra , Chinnadurai Sivakumar , Morrell Noelle , Tibesar Robert , Roby Brianne 
Published: June 2024

ObjectivesTo assess the effect of palatoplasty on growth velocity in undernourished and nourished orally fed children with cleft palate.MethodsA retrospective chart review was conducted using a data query with cleft‐associated ICD‐10 and ICD‐9 codes to identify children who underwent cleft palate repair between 2006 and 2022 at a tertiary pediatric hospital. Data gathered included demographics, admission variables, weight gain, and weight percentile as per the WHO growth chart data. Inclusion was limited to patients with complete growth data and without parenteral feeding support. Nutritional status was defined as undernourished (≤3rd percentile) and nourished (>3rd percentile). Between and within‐group comparisons were made using nonparametric tests.ResultsA total of 192 patients met the study criteria. Among undernourished patients, the median pre‐ and postsurgical weekly weight gain was 0.09 kg and 0.05 kg (p = <0.0001), and the median growth percentiles were 0.67% and 1.1%, respectively (p = 0.03). Among nourished patients, the median pre‐ and postsurgical weekly weight gain was 0.12 kg and 0.07 kg (p = <0.0001), and the median growth percentiles were 25.4% and 29.5%, respectively (p = <0.0001). The postsurgical reduction in weight gain per week was similar across nutritional status (p = 0.43), however, the nourished group demonstrated a larger increase in median growth percentile (3.3% vs. 0.23%; p = 0.03).ConclusionThis study demonstrates that palatoplasty does not independently improve growth velocity in children who were able to maintain an oral preoperative diet. In the case of undernourished children, there was no clinically significant improvement in postoperative growth percentiles.Level of Evidence3 Laryngoscope, 134:5145–5151, 2024
Effect of Dry and Wet Fractionation on Nutritional and Physicochemical Properties of Faba Bean and Yellow Pea Protein
Authors: Li Ziqi , Messina Valeria , Skylas Daniel J. , Valtchev Peter , Whiteway Chris , Cheng Shu , Langrish Timothy A. G. , Quail Ken J. , Dehghani Fariba 
Published: June 2024

ABSTRACTPlant‐based proteins continue to gain popularity as a sustainable alternative to animal proteins due to their nutritional, functional and health benefits. Dry and wet fractionation methods are increasingly being used for the production of value‐added pulse protein ingredients. The objective of this study was to compare the nutritional properties, protein quality, physicochemical properties and secondary structure of Australian faba bean and yellow pea protein concentrates and protein isolates obtained by dry and wet fractionation. Amino acid scores highlighted that faba bean and yellow pea protein isolates and concentrates were deficient in the sulphur‐containing amino acids, methionine and cysteine and tryptophan. Faba bean (63.7%) and yellow pea protein (63.0%) isolates had higher in vitro protein digestibility‐corrected amino acid scores compared to the protein concentrates, being 50.7% and 54.4%, respectively. Fourier‐transform infrared spectroscopy revealed different secondary structures between protein concentrates and isolates, especially for the amide I region. Faba bean and yellow pea protein concentrates had higher protein solubility (46.2% and 50.1%, respectively) and higher foaming capacity (65% and 59%, respectively) compared to the protein isolates. Water‐holding capacity was higher for faba bean and yellow pea protein isolates, being 4.3% and 4.0 g/g, respectively. These findings demonstrate that faba bean and yellow pea protein concentrates and isolates have unique functional properties that can be exploited for use in a diverse range of new and existing food applications.
Food quantity and quality modulates inducible defenses in a common predator–prey system
Authors: Kiene Marvin , Schott Matthias , Martin‐Creuzburg Dominik , Laforsch Christian 
Published: June 2024

AbstractZooplankton displays different inducible defenses against invertebrate and vertebrate predators. The response pattern to gape‐limited invertebrate predators involves increased somatic growth and offspring body size but delayed maturity and reduced offspring numbers. In contrast to this general pattern, the freshwater model organism Daphnia magna has been reported to exhibit a different response when encountering the gape‐limited tadpole shrimp Triops cancriformis. Under laboratory conditions, D. magna showed increased somatic growth, earlier maturation, and an increase in both offspring number and size. We propose here that the discrepancy between the previously observed and the theory‐based response patterns against invertebrate predators is due to differences in food availability in the applied laboratory settings and assessed whether the defensive response of D. magna against T. cancriformis is modulated differently by food quantity and quality. We found a strong impact of food quantity and quality on the defense response of D. magna to T. cancriformis kairomones. The prey seem to be able to overcome trade‐offs between morphological defense traits and reproductive traits, but distinctly between high food quantity and high food quality. Thereby, reproductive traits were preferred over morphological defenses. Furthermore, the removal of particles from the T. cancriformis‐conditioned water caused a defense pattern in D. magna that was consistent with the general response pattern known from other invertebrate predators, thus explaining the described discrepancy to previous studies with T. cancriformis. Our study highlights the importance of assessing food‐related effects on predator–prey interactions to understand trophic relationships and food web processes.
Holistic optical water type classification for ocean, coastal, and inland waters
Authors: Bi Shun , Hieronymi Martin 
Published: June 2024

AbstractWater constituents exhibit diverse optical properties across ocean, coastal, and inland waters, which alter their remote‐sensing reflectance obtained via satellites. Optical water type (OWT) classifications utilized in satellite data processing aim to mitigate optical complexity by identifying fitting ocean color algorithms tailored to each water type. This facilitates comprehension of biogeochemical cycles ranging from local to global scales. Previous OWT frameworks have focused narrowly on either oceanic or inland waters and have relied too heavily on specific data collections. We propose a novel holistic OWT framework applicable to all natural waters, based on state‐of‐the‐art bio‐geo‐optical modeling and radiative transfer simulations that encompass different phytoplankton groups. This framework employs a “knowledge‐driven” paradigm, combining domain knowledge and insights from previous studies to simulate the reflectance spectrum from water constituent concentrations and inherent optical properties. Our method extracts optical variables to represent the full spectrum of reflectance, consolidating both spectral shape and magnitude. We apply the framework utilizing diverse in situ, synthetic, and satellite data (Sentinel‐3 OLCI) and demonstrate its better classifiability than other frameworks. This framework lays the foundation for comprehensive global monitoring of natural waters.
Energy inputs imprint seasonality and fractal structure on river metabolic regimes
Authors: Shin Yuseung , Jawitz James W. , Cohen Matthew J. 
Published: June 2024

AbstractThe temporal structures of gross primary production (GPP) and ecosystem respiration (ER) vary across time scales in response to complex interactions among dynamic drivers (e.g., flow, light, temperature, organic matter supply). To explore emergent patterns of river metabolic variation, we applied frequency‐domain analysis to multiyear records of metabolism across 87 US rivers. We observed a dominant annual periodicity in metabolic variation and universal fractal scaling (i.e., power spectral density inversely correlated with frequency) at subannual frequencies, suggesting these are foundational temporal structures of river metabolic regimes. Frequency‐domain patterns of river metabolism aligned best with drivers related to energy inputs: benthic light for GPP and GPP for ER. Simple river metabolism models captured frequency‐domain patterns when parameterized with appropriate energy inputs but neglecting temperature controls. These results imply that temporal variation of energy supply imprints directly on metabolic signals and that frequency‐domain patterns provide benchmark properties to predict river metabolic regimes.
Estuarine residency and habitat preferences of Atlantic Tripletail in the northwestern Gulf of Mexico
Authors: Ushakow David , Briell Elliot , Olsen Zachary , Anderson Joel , Hartman Leslie 
Published: June 2024

Abstract

Objective
The Atlantic Tripletail Lobotes surinamensis is a globally distributed subtropical and tropical fish species that inhabits estuaries throughout the northern Gulf of Mexico (GOM), particularly during warm months. Little is known about distribution and residency patterns within estuaries, as the species is rarely caught in the recreational fishery, and virtually no commercial fishery exists for the species in the GOM.

Methods
We used data from a long-term fishery-independent gill-net survey to model estuarine distribution throughout Texas and to relate environmental variables to the Atlantic Tripletail catch.

Result
Although there were no observable temporal trends in catch over the time series (1990–2022), the most recent 6 years included record catch in six of the 10 major Texas estuaries, possibly indicating a recent pulse in abundance. Catch throughout the time series was spatially aggregated in a small number of “hot spots” observed coastwide. Latitude was the best predictor of catch, although wind fetch and wind aspect (wind direction in relation to shoreline direction) were important predictors, and catch was highest near GOM inlets. The Texas Parks and Wildlife Department gill-net sampling program caught a range of Atlantic Tripletail between 171 and 880 mm total length, indicating a potential gear bias against juveniles.

Conclusion
Despite this gear bias, these data shed light on the factors that drive Atlantic Tripletail estuarine distribution and abundance in the northwestern GOM. Wind-driven passive movements in the estuary, combined with active selection of polyhaline habitats near GOM inlets, might be primary drivers of Atlantic Tripletail catch, thus supporting findings from previous studies.
Poly (adenosine diphosphate‐ribose) polymerase inhibitors in the treatment of triple‐negative breast cancer with homologous repair deficiency
Authors: Yuan Peng , Ma Nan , Xu Binghe 
Published: June 2024

AbstractBreast cancer (BC) is a highly heterogeneous disease, and the presence of germline breast cancer gene mutation (gBRCAm) is associated with a poor prognosis. Triple‐negative breast cancer (TNBC) is a BC subtype, characterized by the absence of hormone and growth factor receptor expression, making therapeutic decisions difficult. Defects in the DNA damage response pathway due to mutation in breast cancer genes (BRCA 1/2) lead to homologous recombination deficiency (HRD). However, in HRD conditions, poly (adenosine diphosphate–ribose) polymerase (PARP) proteins repair DNA damage and lead to tumor cell survival. Biological understanding of HRD leads to the development of PARP inhibitors (PARPi), which trap PARP proteins and cause genomic instability and tumor cell lysis. HRD assessment can be an important biomarker in identifying gBRCAm patients with BC who could benefit from PARPi therapy. HRD can be identified by homologous recombination repair (HRR) gene‐based assays, genomic‐scarring assays and mutational signatures, transcription and protein expression profiles, and functional assays. However, gold standard methodologies that are robust and reliable to assess HRD are not available currently. Hence, there is a pressing need to develop accurate biomarkers identifying HRD tumors to guide targeted therapies such as PARPi in patients with BC. HRD assessment has shown fruitful outcomes in chemotherapy studies and preliminary evidence on PARPi intervention as monotherapy and combination therapy in HRD‐stratified patients. Furthermore, ongoing trials are exploring the potential of PARPi in BC and clinically complex TNBC settings, where HRD testing is used as an adjunct to stratify patients based on BRCA mutations.
Homozygous TNNI3 frameshift variant in a consanguineous family with lethal infantile dilated cardiomyopathy
Authors: Kraoua Lilia , Louati Assaad , Ahmed Sarra Ben , Abida Nesrine , Khemiri Monia , Menif Khaled , Mrad Ridha , Zaffran Stéphane , Jaouadi Hager 
Published: June 2024

AbstractBackgroundDilated cardiomyopathy (DCM) is characterized by dilatation of the left ventricle, systolic dysfunction, and normal or reduced thickness of the left ventricular wall. It is a leading cause of heart failure and cardiac death at a young age. Cases with neonatal onset DCM were correlated with severe clinical presentation and poor prognosis. A monogenic molecular etiology accounts for nearly half of cases.Family descriptionHere, we report a family with three deceased offspring at the age of 1 year old. The autopsy of the first deceased infant revealed a DCM. The second infant presented a DCM phenotype with a severely reduced Left Ventricular Ejection Fraction (LVEF) of 10%. Similarly, the third infant showed a severe DCM phenotype with LVEF of 30% as well, in addition to eccentric mitral insufficiency.ResultsExome sequencing was performed for the trio (the second deceased infant and her parents). Data analysis following the autosomal dominant and recessive patterns of inheritance was carried out along with a mitochondrial pathways‐based analysis. We identified a homozygous frameshift variant in the TNNI3 gene (c.204delG; p.(Arg69AlafsTer8)). This variant has been recently reported in the ClinVar database in association with cardiac phenotypes as pathogenic or likely pathogenic and classified as pathogenic according to ACMG.ConclusionGenetic counseling was provided for the family and a prenatal diagnosis of choronic villus was proposed in the absence of pre‐implantation genetic diagnosis possibilities. Our study expands the case series of early‐onset DCM patients with a protein‐truncating variant in the TNNI3 gene by reporting three affected infant siblings.