bluuebunny/crossref_metadata_2025_split huggingface dataset:
The genus Cortinarius should not (yet) be split
Authors: Gallone Brigida , Kuyper Thomas W. , Nuytinck Jorinde 
Published: August 2024

AbstractThe genus Cortinarius (Agaricales, Basidiomycota) is one of the most species-rich fungal genera, with thousands of species reported. Cortinarius species are important ectomycorrhizal fungi and form associations with many vascular plants globally. Until recently Cortinarius was the single genus of the family Cortinariaceae, despite several attempts to provide a workable, lower-rank hierarchical structure based on subgenera and sections. The first phylogenomic study for this group elevated the old genus Cortinarius to family level and the family was split into ten genera, of which seven were described as new. Here, by careful re-examination of the recently published phylogenomic dataset, we detected extensive gene-tree/species-tree conflicts using both concatenation and multispecies coalescent approaches. Our analyses demonstrate that the Cortinarius phylogeny remains unresolved and the resulting phylogenomic hypotheses suffer from very short and unsupported branches in the backbone. We can confirm monophyly of only four out of ten suggested new genera, leaving uncertain the relationships between each other and the general branching order. Thorough exploration of the tree space demonstrated that the topology on which Cortinarius revised classification relies on does not represent the best phylogenetic hypothesis and should not be used as constrained topology to include additional species. For this reason, we argue that based on available evidence the genus Cortinarius should not (yet) be split. Moreover, considering that phylogenetic uncertainty translates to taxonomic uncertainty, we advise for careful evaluation of phylogenomic datasets before proposing radical taxonomic and nomenclatural changes.
Real-time monitoring of fast gas dynamics with a single-molecule resolution by frequency-comb-referenced plasmonic phase spectroscopy
Authors: Nguyen Duy-Anh , Kim Dae Hee , Lee Geon Ho , Kim San , Shin Dong-Chel , Park Jongkyoon , Choi Hak-Jong , Kim Seung-Woo , Kim Seungchul , Kim Young-Jin 
Published: August 2024

AbstractSurface plasmon resonance (SPR) sensors are based on photon-excited surface charge density oscillations confined at metal-dielectric interfaces, which makes them highly sensitive to biological or chemical molecular bindings to functional metallic surfaces. Metal nanostructures further concentrate surface plasmons into a smaller area than the diffraction limit, thus strengthening photon-sample interactions. However, plasmonic sensors based on intensity detection provide limited resolution with long acquisition time owing to their high vulnerability to environmental and instrumental noises. Here, we demonstrate fast and precise detection of noble gas dynamics at single molecular resolution via frequency-comb-referenced plasmonic phase spectroscopy. The photon-sample interaction was enhanced by a factor of 3,852 than the physical sample thickness owing to plasmon resonance and thermophoresis-assisted optical confinement effects. By utilizing a sharp plasmonic phase slope and a high heterodyne information carrier, a small atomic-density modulation was clearly resolved at 5 Hz with a resolution of 0.06 Ar atoms per nano-hole (in 10–11 RIU) in Allan deviation at 0.2 s; a faster motion up to 200 Hz was clearly resolved. This fast and precise sensing technique can enable the in-depth analysis of fast fluid dynamics with the utmost resolution for a better understanding of biomedical, chemical, and physical events and interactions.
Potential impact of sodium glucose co-transporter (SGLT2) inhibitors on cholesterol fractions in stage 3 chronic kidney disease
Authors: Ahmed Rabab Mahmoud , Rakha Nehal Kamal , Yousry Ahmed , Soliman Amin Roshdy 
Published: August 2024

Abstract
Introduction
Data on sodium glucose co-transporter 2 inhibitors impact on lipids in patients with diabetes are available and only a handful of studies have explored this effect in individuals with both diabetes and renal impairment; lipid parameters were not the primary focus of those earlier studies. However, there is a significant research gap specifically addressing the influence of SGLT2 inhibitors on cholesterol fractions in patients exclusively with chronic kidney disease. This aim constitutes the central objective in this particular study.

Methods
In this 3-month randomized controlled study, 30 patients with stage 3 chronic kidney disease and dyslipidemia were randomly assigned to receive either dapagliflozin 10 mg or placebo. Lipid profiles, renal function, and urinary albumin levels were assessed at baseline and after 3 months.

Results
Compared to baseline, patients receiving dapagliflozin for 3 months showed significant improvements in serum creatinine (p < .001) and eGFR (p = .001). Total cholesterol and LDL-C levels decreased significantly (p = .010 and .006, respectively). While albumin-creatinine ratio also decreased, this change was not statistically significant. Additionally, HDL-C and TG not significantly increased. The control group without intervention experienced deterioration in serum creatinine and eGFR (p = .008, and .011, respectively), but no statistically significant lipid changes were observed. Furthermore, post-intervention total cholesterol moderately correlated with BMI (p = .032, R = .554), yet no predictors significantly influenced lipid levels in the multiple linear regression analysis.

Conclusions
Dapagliflozin has a favorable effect on cholesterol fractions in stage 3 CKD patients without diabetes mellitus and this effect was different from that observed in patients with diabetes alone.
The added value of shear wave elastography when combined to conventional ultrasonography and fine-needle aspiration cytology in detection of malignant thyroid nodule
Authors: Abdallah Ahmed Adel , Mahmoud Maha Zaki , Hassouna Mohamed Salah , Elkaffas Khaled , Eltelety Ahmad Mohamed , Zamzam Sameh M. 
Published: August 2024

Abstract

Background
This study aims to evaluate the effectiveness of ultrasound criteria, TI-RADS score, and elastography in distinguishing benign thyroid nodules from malignant ones, as a substitute for invasive diagnostic procedures. Although the minority of thyroid nodules is malignant, invasive diagnostic procedures are often necessary.

Methods
In this prospective study, a total of 104 thyroid nodules were assessed using fine-needle aspiration cytology. The euthyroid state of the patients was ensured. Conventional ultrasound and shear wave elastography (SWE) were performed by a single experienced operator. Final postoperative histopathologic findings were compared to conventional ultrasound and elastography findings.

Results
SWE elasticity indices (EIs) were found to be significantly higher in malignant nodules than benign ones (p < 0.05). Combined results of both TI-RADS and SWE increased the sensitivity of detection of malignant nodules.

Conclusion
Combined SWE and TI-RADS could enhance the diagnostic accuracy in differentiating thyroid nodules by leveraging their complementary strengths.
Development and Validation of a Natural Language Processing Algorithm for Extracting Clinical and Pathological Features of Breast Cancer From Pathology Reports
Authors: Munzone Elisabetta , Marra Antonio , Comotto Federico , Guercio Lorenzo , Sangalli Claudia Anna , Lo Cascio Martina , Pagan Eleonora , Sangalli Davide , Bigoni Ilaria , Porta Francesca Maria , D'Ercole Marianna , Ritorti Fabiana , Bagnardi Vincenzo , Fusco Nicola , Curigliano Giuseppe 
Published: August 2024

PURPOSE Electronic health records (EHRs) are valuable information repositories that offer insights for enhancing clinical research on breast cancer (BC) using real-world data. The objective of this study was to develop a natural language processing (NLP) model specifically designed to extract structured data from BC pathology reports written in natural language. METHODS During the initial phase, the algorithm's development cohort comprised 193 pathology reports from 116 patients with BC from 2012 to 2016. A rule-based NLP algorithm was applied to extract 26 variables for analysis and was compared with the manual extraction of data performed by both a data entry specialist and an oncologist. Following the first approach, the data set was expanded to include 513 reports, and a Named Entity Recognition (NER)-NLP model was trained and evaluated using K-fold cross-validation. RESULTS The first approach led to a concordance analysis, which revealed an 82.9% agreement between the algorithm and the oncologist, whereas the concordance between the data entry specialist and the oncologist was 90.8%. The second training approach introduced the definition of an NER-NLP model, in which the accuracy showed remarkable potential (97.8%). Notably, the model demonstrated remarkable performance, especially for parameters such as estrogen receptor, progesterone receptor, human epidermal growth factor receptor 2, and Ki-67 (F1-score 1.0). CONCLUSION The present study aligns with the rapidly evolving field of artificial intelligence (AI) applications in oncology, seeking to expedite the development of complex cancer databases and registries. The results of the model are currently undergoing postprocessing procedures to organize the data into tabular structures, facilitating their utilization in real-world clinical and research endeavors.
Effects of Adjuvant Endocrine Therapy–Specific Perceptions on Response to a Behavioral Intervention for Adjuvant Endocrine Therapy Adherence in Patients With Breast Cancer
Authors: Willis Kelcie D. , Walsh Emily A. , Dunderdale Laura E. , Post Kathryn , Horick Nora , Antoni Michael H. , Safren Steven A. , Partridge Ann H. , Peppercorn Jeffrey , Park Elyse R. , Temel Jennifer S. , Greer Joseph A. , Jacobs Jamie M. 
Published: August 2024

PURPOSE
Adjuvant endocrine therapy (AET) is a life-saving medication for patients with hormone-sensitive breast cancer, yet many struggle with adherence, warranting behavioral intervention. In our recent trial, participation in a group cognitive behavioral intervention (STRIDE) for symptom management and adherence was associated with improvements in symptom distress, coping, quality of life, and mood. We now explore whether baseline patient- and medication-specific factors—which may be modifiable by clinician-led discussions—moderated the effect of STRIDE on adherence rates.

METHODS
From October 2019 to June 2021, 100 patients with early-stage breast cancer reporting AET-related distress were enrolled and randomly assigned to STRIDE or a medication monitoring (MM) control group. All patients stored their AET in electronic pill bottles to track objective adherence. Patients also self-reported their adherence on the Medication Adherence Report Scale-5 and their perceptions of AET on the Cancer Therapy Satisfaction Questionnaire at baseline. We conducted hierarchical linear modeling to test moderators of intervention effects on objective adherence rates. We report the time × group × moderator effects.

RESULTS

Among patients reporting greater perceived difficulties with AET adherence at baseline, STRIDE participants had higher adherence rates over time compared with MM (
b
= –13.80; SE = 4.56;
P
< .01). Patients with greater expectations of therapeutic benefit from AET also had improved adherence rates if they were assigned to STRIDE, versus MM (
b
= 0.25; SE = 0.10;
P
= .01). Patients who perceived taking AET as convenient and had been taking their AET for less time had higher adherence rates in STRIDE, versus MM.

CONCLUSION
The current study identified patient- and medication-specific factors that may augment AET adherence interventions and may be modifiable through clinician-led discussions, such as perceptions of adherence problems, therapeutic efficacy, and convenience of AET.
Direct Reinfusion of Unwashed Shed Autologous Blood During Thoracoabdominal Aortic Aneurysm Repair: A Retrospective Analysis
Authors: Powell Thomas R. , Khalifa Ali , Green Susan Y. , Tolpin Daniel A. , Staggers Kristen A. , Anton James M. , LeMaire Scott A. , Coselli Joseph S. , Pan Wei 
Published: August 2024

BACKGROUND:
This study’s purpose was to assess whether larger volumes of reinfused unwashed shed autologous blood (SAB) were associated with adverse events within 30 days for patients undergoing open thoracoabdominal aortic aneurysm (TAAA) repair. During TAAA repair, our institution uses a system wherein SAB is filtered, but not washed or centrifuged, and then returned to the patient via a rapid-infusion device. By reinfusing SAB, the system preserves the patient’s autologous whole blood and may reduce the number of allogenic transfusions required during TAAA repair, but the end-organ effects of reinfusing unwashed SAB have not been extensively evaluated.

METHODS:
Using a prospectively maintained database, we retrospectively analyzed data from 972 consecutive patients who underwent open TAAA repair at our institution from 2007 to 2021 and who received SAB. Multivariable logistic regressions were performed to assess whether SAB reinfusion volume was associated with a composite outcome of adverse events, as well as operative mortality, a composite of cardiac complications, a composite of pulmonary complications, or persistent paraplegia, stroke, or postoperative renal failure.

RESULTS:
Among the cohort of 972 patients, the median volume of reinfused SAB was 4159 mL (quartile1–quartile3 [Q1–Q3]: 2524–6790 mL). Greater reinfusion volumes of unwashed SAB were not associated with greater odds of composite adverse events (odds ratio [OR], 1.02 per 1000 mL increase, 97.5% confidence interval [CI], 0.94–1.09, P = .624), nor with any individual outcome—operative mortality (OR, 1.02 per 1000 mL increase, 97.5% CI, 0.93–1.12, P = .617), a composite of cardiac complications (OR, 0.98 per 1000 mL increase, 97.5% CI, 0.93–1.04, P = .447), a composite of pulmonary complications (OR, 1.00 per 1000 mL increase, 97.5% CI, 0.94–1.06, P = .963), renal failure necessitating hemodialysis (OR, 1.01 per 1000 mL increase, 97.5% CI, 0.92–1.11, P = .821), persistent paraplegia (OR, 0.97 per 1000 mL increase, 97.5% CI, 0.84–1.13, P = .676), persistent stroke (OR, 0.85 per 1000 mL increase, 97.5% CI, 0.70–1.04, P = .070), or reoperation to control bleeding (OR, 0.99, 97.5% CI, 0.87–1.13, P = .900)—when adjusted for confounders.

CONCLUSIONS:
For patients undergoing open TAAA repair, larger reinfusion volumes of unwashed SAB were not associated with greater odds of major early postoperative complications.
Heterotypic interaction promotes asymmetric division of human hematopoietic progenitors
Authors: Candelas Adrian , Vianay Benoit , Gelin Matthieu , Faivre Lionel , Larghero Jerome , Blanchoin Laurent , Théry Manuel , Brunet Stéphane 
Published: August 2024

ABSTRACT
Hematopoietic stem and progenitor cells (HSPCs) give rise to all cell types of the hematopoietic system through various processes, including asymmetric divisions. However, the contribution of stromal cells of the hematopoietic niches in the control of HSPC asymmetric divisions remains unknown. Using polyacrylamide microwells as minimalist niches, we show that specific heterotypic interactions with osteoblast and endothelial cells promote asymmetric divisions of human HSPCs. Upon interaction, HSPCs polarize in interphase with the centrosome, the Golgi apparatus, and lysosomes positioned close to the site of contact. Subsequently, during mitosis, HSPCs orient their spindle perpendicular to the plane of contact. This division mode gives rise to siblings with unequal amounts of lysosomes and of the differentiation marker CD34. Such asymmetric inheritance generates heterogeneity in the progeny, which is likely to contribute to the plasticity of the early steps of hematopoiesis.
Uzasadnienia decyzji interpretacyjnych przez ich konsekwencje w orzecznictwie SN i TK: identyfikacja z wykorzystaniem uczenia maszynowego
Authors: Bystranowski Piotr 
Published: August 2024

In this chapter, I attempt to find a way to identify consequentialist justifications for interpretive decisions of the Supreme Court and the Constitutional Court in Poland, using word embeddings – a machine-learning method from computational linguistics, which remains relatively little-known in legal scholarship. This attempt serves two purposes. First, I demonstrate that the method used can be the basis for several interesting quantitative analyses of the dynamics of the occurrence of different types of consequentialist justification in the jurisprudence of Polish courts. Second, and arguably more importantly, I want to demonstrate here that the possibility of using word embeddings to analyze a particularly difficult and elusive legal phenomenon is evidence of the general usefulness of this method in the analysis of legal discourse.
Mavericks and Diplomats: Bridging Commercial and Institutional Entrepreneurship for Society’s Grand Challenges
Authors: Volmar Eric , Eisenhardt Kathleen M. 
Published: August 2024

Many of society’s grand challenges, like access to education, improved public health, and building smart infrastructure, occur in established fields, often ones where noncommercial logics matter. Grounded in a theory-building study of two well-matched EdTech ventures in the nascent MOOC market in the U.S. higher education field, we unpack their strategy formation processes. These ventures faced the dual problem of forming a successful strategy in a nascent market while changing an established field. Our primary contribution is a theoretical framework that identifies two distinct yet effective processes. One (Maverick) is a competitive, learning centric process, whereas the other (Diplomat) is a cooperative, diplomacy-centric one. Although distinct, these processes unexpectedly share the same decision weaving (i.e., hybrid) problem-solving structure that fits complex, novel problems like strategy formation. Broadly, we contribute to institutional theory and institutional entrepreneurship by introducing the diplomacy lens, its tactics, and firm performance. We contribute to learning theory and entrepreneurship by identifying the unique features of learning in established markets, including the limits to rapid experimentation and the value of collaborative learning for changing established fields. We add to practice by emphasizing the difficulty of achieving both commercial success and societal impact. Overall, we bridge the gap between institutional and commercial entrepreneurship. Funding: The authors gratefully acknowledge the generous research support of the Stanford Technology Ventures Program. Supplemental Material: The online appendix is available at https://doi.org/10.1287/orsc.2020.13810 .
Taking a Broader View: Female Directors, CEO Strategic Attention Breadth, and Firm Performance
Authors: Pan Lingling , McNamara Gerry , Devers Cynthia E. , Yonish Lindsey M. 
Published: August 2024

Existing research has shown that greater female membership on the board of directors has the potential to positively impact firm financial performance. However, the specific cognitive means through which these gender effects manifest remains unexplained. Our study sheds light on these cognitive means by examining how female board membership can influence chief executive officers (CEOs)’ attention allocation. We integrate the literatures on upper echelons, strategic attention, and gender-based information processing research and argue that because women tend to exhibit broader and more comprehensive information search and processing than men, female directors, through their interactions with CEOs and service on boards, will bring broader insights and perspectives to the boards than male directors. Further, we propose the relationship between the number of female directors and CEO strategic attention breadth is conditioned by three CEO characteristics that can exert influence on CEO-board information exchange: CEO gender, tenure, and overpayment. Specifically, we propose that boards comprised of more women will exert a greater effect on the strategic attention breadth of male CEOs and CEOs with longer tenure but will have a smaller effect on the strategic attention breadth of CEOs who are overpaid. Finally, we propose that CEO attention breadth mediates the relationship between the number of female directors and firm performance. We test our arguments using a sample of S&P 1500 firms and find broad support for our theorizing. Our study makes several key contributions to upper echelons and corporate governance, gender-based information processing, and executive attention research. Funding: Part of the data collection is funded by Dean’s Summer Small Research Grant at Katz Graduate School of Business, University of Pittsburgh.
Uveitis glaucoma hyphema syndrome as a result of glaucoma implant: A case report
Authors: Altwijri Rahaf Jalal , Alsirhy Ehab 
Published: August 2024

BACKGROUND
Glaucoma is caused by increased intraocular pressure (IOP) that damages the optic nerve, leading to blindness. The Ahmed glaucoma valve (AGV) is a glaucoma drainage implant device that is used in glaucoma patients with uncontrolled IOP. A possible complication after any ocular surgery however is hyphema, which can itself progress to uveitis glaucoma hyphema (UGH) syndrome on rare occasions. UGH syndrome has not yet been reported as a complication of AGV implantation.
CASE SUMMARY
Here, we have reported a case of a 55-year-old female who developed both hyphema and pigmentation as a result of AGV implantation. We confirmed UGH syndrome secondary to AGV implantation after the patient underwent another surgery to shorten and reposition the AGV tube. After the second surgery, the patient’s IOP was reduced, and she had a clear cornea and no signs of hyphema.
CONCLUSION
This first report of UGH syndrome as a complication of AGV implantation reminds clinicians that frequent follow-up is paramount.
High-speed, low-voltage, low-bit-energy silicon photonic crystal slow-light modulator with impedance-engineered distributed electrodes
Authors: Kawahara Keisuke , Tsuchizawa Tai , Yamamoto Noritsugu , Maegami Yuriko , Yamada Koji , Hara Shinsuke , Baba Toshihiko 
Published: August 2024

Silicon modulators in optical transceivers feature high-density integration and low manufacturing cost, but they also need to deliver high speed and low power consumption to meet the demands of future data centers and high-performance computing. This paper demonstrates a significantly improved 64 Gbps silicon Mach–Zehnder modulator incorporating photonic crystal slow-light phase shifters. By employing distributed electrodes and engineering their impedance, electro-optic phase matching and electrical impedance matching were obtained simultaneously, and the driving voltage was reduced to 0.87 V, which is compatible with fin-type field effect transistors and eliminates the need for additional electrical amplifiers. The bit energy of as low as 59 fJ/bit is comparable to that of microring modulators, while this modulator does not require temperature control like that used for microring modulators, due to its wide working spectrum of 6 nm. These results indicate the potential for addressing power issues in next-generation data infrastructures.