bluuebunny/crossref_metadata_2025 huggingface dataset:
A Lagrangian path integral approach to the qubit
Authors: Ibort Alberto , Jiménez-Vázquez María
Published: April 2024

A Lagrangian description of the qubit based on Schwinger’s picture of Quantum Mechanics that allows for a Feynman-like computation of its probability amplitudes is presented. The Lagrangian is a function on the groupoid that describes the qubit and at the same time determines a self-adjoint element on its associated algebra. Feynman’s paths are replaced by histories on the groupoid which form a groupoid again, and a simple method to compute the sum over all histories is discussed. The unitarity of the theory described in this way imposes quantization conditions on the parameters determining the Lagrangian, and some particular instances are solved completely.
Impact of Newtonian heating on MHD flow of non-Newtonian fluid
Authors: Alqahtani Hessah
Published: April 2024

Studying real-world problems with flow models of Newtonian and non-Newtonian fluids has gained particular attention because of its significance in engineering and other industries. According to trends in the field of research, interest in studying the characteristics of all such fluid flows is expanding. Due to the peculiar nature of the physical foundation of these non-Newtonian flows, no single constituent equation is available in the literature to explain all of their characteristics or rheological behavior. In the current investigation, the continuous 2D Casson fluid heat transfer flow is combined with the effects of radiation and an inclined magnetic field over a linear stretch surface. Newtonian condition is used to heat the sheet. The governing partial differential equations (PDEs) are transformed into nonlinear ordinary differential equations (ODEs) via the similarity transformation. The fourth-fifth-order Runge–Kutta Fehlberg (RKF45) method is then used to numerically solve the problem. The results for temperature distribution, and velocity field are computed and plotted graphically and discussed in detail. It is found that the magnetic parameter reduces fluid velocity and the Casson fluid parameter increases temperature distribution.
Risks to the Public
Authors: Neumann Peter G.
Published: April 2024

Edited by PGN (Risks Forum Moderator, with contribu- tions by others as indicated. Opinions are individual rather than organizational, with usual disclaimers implied. We ad- dress problems relating to software, hardware, people, and other circumstances relevant to computer systems. Ref- erences (R i j) to the online Risks Forum denote RISKS vol i number j. Cited RISKS items generally identify contributors and sources, together with URLs. Official RISKS archives are available at www.risks.org, with nice html formatting and search engine courtesy of Lindsay Mar- shall at Newcastle: http://catless.ncl.ac.uk/Risks/i.j.html (also ftp://www.sri.com/risks). CACM Inside Risks: http://www.csl.sri.com/neumann/insiderisks.html
Passages
Authors: Groce Alex
Published: April 2024

Manuel Castells' The Rise of the Network Society is the first volume of a trilogy, The Information Age. It is a sociological work describing a new world arising from what some have called the second industrial revolution, the information revolution that is both the bread and butter and the water we fish swim in, for software engineers.
Personality-affected Emotion Generation in Dialog Systems
Authors: Wen Zhiyuan , Cao Jiannong , Shen Jiaxing , Yang Ruosong , Liu Shuaiqi , Sun Maosong
Published: April 2024

Generating appropriate emotions for responses is essential for dialogue systems to provide human-like interaction in various application scenarios. Most previous dialogue systems tried to achieve this goal by learning empathetic manners from anonymous conversational data. However, emotional responses generated by those methods may be inconsistent, which will decrease user engagement and service quality. Psychological findings suggest that the emotional expressions of humans are rooted in personality traits. Therefore, we propose a new task, Personality-affected Emotion Generation, to generate emotion based on the personality given to the dialogue system and further investigate a solution through the personality-affected mood transition. Specifically, we first construct a daily dialogue dataset, Personality EmotionLines Dataset (
PELD
), with emotion and personality annotations. Subsequently, we analyze the challenges in this task, i.e., (1) heterogeneously integrating personality and emotional factors and (2) extracting multi-granularity emotional information in the dialogue context. Finally, we propose to model the personality as the transition weight by simulating the mood transition process in the dialogue system and solve the challenges above. We conduct extensive experiments on PELD for evaluation. Results suggest that by adopting our method, the emotion generation performance is improved by
13%
in macro-F1 and
5%
in weighted-F1 from the BERT-base model.
GNNUERS: Fairness Explanation in GNNs for Recommendation via Counterfactual Reasoning
Authors: Medda Giacomo , Fabbri Francesco , Marras Mirko , Boratto Ludovico , Fenu Gianni
Published: April 2024

Nowadays, research into personalization has been focusing on explainability and fairness. Several approaches proposed in recent works are able to explain individual recommendations in a post-hoc manner or by explanation paths. However, explainability techniques applied to unfairness in recommendation have been limited to finding user/item features mostly related to biased recommendations. In this article, we devised a novel algorithm that leverages counterfactuality methods to discover user unfairness explanations in the form of user-item interactions. In our counterfactual framework, interactions are represented as edges in a bipartite graph, with users and items as nodes. Our bipartite graph explainer perturbs the topological structure to find an altered version that minimizes the disparity in utility between the protected and unprotected demographic groups. Experiments on four real-world graphs coming from various domains showed that our method can systematically explain user unfairness on three state-of-the-art GNN-based recommendation models. Moreover, an empirical evaluation of the perturbed network uncovered relevant patterns that justify the nature of the unfairness discovered by the generated explanations. The source code and the preprocessed data sets are available at
https://github.com/jackmedda/RS-BGExplainer
.
StepNet: Spatial-temporal Part-aware Network for Isolated Sign Language Recognition
Authors: Shen Xiaolong , Zheng Zhedong , Yang Yi
Published: April 2024

The goal of sign language recognition (SLR) is to help those who are hard of hearing or deaf overcome the communication barrier. Most existing approaches can be typically divided into two lines, i.e., Skeleton-based, and RGB-based methods, but both lines of methods have their limitations. Skeleton-based methods do not consider facial expressions, while RGB-based approaches usually ignore the fine-grained hand structure. To overcome both limitations, we propose a new framework called the Spatial-temporal Part-aware network (StepNet), based on RGB parts. As its name suggests, it is made up of two modules: Part-level Spatial Modeling and Part-level Temporal Modeling. Part-level Spatial Modeling, in particular, automatically captures the appearance-based properties, such as hands and faces, in the feature space without the use of any keypoint-level annotations. On the other hand, Part-level Temporal Modeling implicitly mines the long short-term context to capture the relevant attributes over time. Extensive experiments demonstrate that our StepNet, thanks to spatial-temporal modules, achieves competitive Top-1 Per-instance accuracy on three commonly used SLR benchmarks, i.e., 56.89% on WLASL, 77.2% on NMFs-CSL, and 77.1% on BOBSL. Additionally, the proposed method is compatible with the optical flow input and can produce superior performance if fused. For those who are hard of hearing, we hope that our work can act as a preliminary step.
Review—Silicon Carbide Thin Film Technologies: Recent Advances in Processing, Properties, and Applications: Part II. PVD and Alternative (Non-PVD and Non-CVD) Deposition Techniques
Authors: Kaloyeros Alain E. , Arkles Barry
Published: April 2024

Silicon carbide (SiCx) thin films deposition processes fall primarily into three main categories: (1) chemical vapor deposition (CVD) and its variants, including plasma enhanced CVD (PE-CVD); (2) physical vapor deposition (PVD), including various forms of sputtering; (3) alternative (non-CVD and non-PVD) methodologies. Part I of this two-part report ECS J. Solid State Sci. Technol., 12, 103001 (2023) examined recent peer-reviewed publications available in the public domain pertaining to the various CVD processes for SiCx thin films and nanostructures, as well as CVD modeling and mechanistic studies. In Part II, we continue our detailed, systematic review of the latest progress in cutting-edge SiCx thin film innovations, focusing on PVD and other non-PVD and non-CVD SiCx coating technologies. Particular attention is given to pertinent experimental details from PVD and alternative (non-CVD and non-PVD) processing methodologies as well as their influence on resulting film properties and performance.
Genetics and diet shape the relationship between islet function and whole body metabolism
Authors: Yau Belinda , Madsen Søren , Nelson Marin E. , Cooke Kristen C. , Fritzen Andreas M. , Thorius Ida H. , Stöckli Jacqueline , James David E. , Kebede Melkam A.
Published: April 2024

Thirteen strains of mice on chow, Western diet, and high-fat, carbohydrate-free (KETO), correlating whole body phenotypes to ex vivo pancreatic islet functional measurements, were used. The study finds a huge spectrum of functional islet responses and insulin phenotypes across all strains and diets, with the ubiquitous C57Bl/6J mouse exhibiting the lowest secretory response of all strains, highlighting the overall importance of considering genetic background when investigating islet function. Ex vivo basal and stimulated insulin secretion are correlated in the islet, and KETO imparts widescale downregulation of islet insulin secretion.
Glycogen synthesis is required for adaptive thermogenesis in beige adipose tissue and affects diet-induced obesity
Authors: Zhuo Shixuan , Bai Meijuan , Wang Zinan , Chen Lingling , Li Zixuan , Zhu Xinyu , Chen Jinzhu , Ye Xiaoyi , Guo Cheng , Chen Yan
Published: April 2024

Glycogen is one of major types of fuel reserve in the body and its classical function is to maintain blood glucose level. This study uncovers that glycogen synthesis is required for beige fat tissue to generate heat upon cold exposure. Such a function of glycogen is linked to development of high-fat diet-induced obesity, thus extending our understanding about the physiological functions of glycogen.
The role of the sensory input intervention in recovery of the motor function in hypoxic ischemic encephalopathy rat model
Authors: Dong Juchuan , Dong Yifei , An Lijuan , Wang Yufan , Li Yongmei , Jin Lihua
Published: April 2024

Rarely does literature assess motor function, even though it is common after hypoxia ischemic encephalopathy (HIE). Previously used environmental enrichment (EE) components have not been solely used as sensory inputs. Physical factors were minimized in our study to observe the effects of purely sensory inputs.
Retinoic acid reduces the formation of, and acutely modulates, invertebrate electrical synapses
Authors: Wingrove Joel S. , Wimmer Justin , Saba Echezarreta Victoria Elda , Piazza Alicia , Spencer Gaynor E.
Published: April 2024

Retinoids are known modulators of chemical synapses and mediate synaptic plasticity in the nervous system, but little is known of their effects on electrical synapses. Here, we show that retinoids selectively reduce electrical synapses in a cell- and isomer-dependent manner. This modulatory action on existing electrical synapses was rapid and nongenomic in nature. We also showed for the first time that longer retinoid exposures inhibit the formation of electrical synapses.
Cold Atmospheric Plasma Is a Promising Alternative Treatment Option in Case of Split Skin Graft Failure
Authors: Khabipov Aydar , Schreiber Andre , Kersting Stephan , Hummel Richard , Höhn Johannes , Partecke Lars-Ivo , Bekeschus Sander , Glitsch Anne , Keßler Wolfram
Published: April 2024

Cold atmospheric plasma (CAP) has shown promising potential in promoting wound healing. This case report presents the successful application of CAP in a 42‐year‐old female patient with extensive wound healing disorders and superinfections following the excision of an abscess in the left thoracic region. After several failed split skin graft attempts, the implementation of CAP led to significant improvements in wound healing. This report highlights the wound healing‐promoting effects of CAP and discusses its potential mechanisms of action.
Utilization of Vein Grafts in Coronary Artery Bypass Grafting: Reasons and Outcomes in a Bilateral Mammary Artery First Center
Authors: Schaefer Andreas , Knochenhauer Tim , Brickwedel Jens , Reiter Beate , Zipfel Svante , Schneeberger Yvonne , Reichenspurner Hermann , Sill Bjoern
Published: April 2024

Objectives. Despite guideline recommendations for use of bilateral internal mammary artery (BIMA) in coronary artery bypass grafting (CABG), a large proportion of patients still receive saphenous vein grafts (SVG). We herein aimed to identify reasons for SVG use at a center with a BIMA utilization rate between 60 and 70% and compare outcomes of patients undergoing CABG with either BIMA or left internal mammary artery (LIMA) plus SVG. Methods. Between 2013 and 2022, 4145 consecutive patients underwent isolated CABG at our center. Of those, 2067 patients received BIMA (group 1) and 1206 patients received LIMA/SVG (group 2). A propensity score‐matched analysis was performed to adjust for baseline differences. Results. Group 2 presented with higher age, more female patients, and more patients with acute coronary syndrome including NSTEMI/STEMI with more urgent/emergency CABG. In unadjusted analysis group 2 presented adverse 30‐day outcomes compared to group 1 with a higher mortality (18/2067, 0.9% vs. 34/1206, 2.8%; p < 0.001), higher rate of re‐revascularization (52/2067, 2.5% vs. 50/1206, 4.1%; p < 0.001), more stroke (20/2067; 1.0% vs. 33/1206, 2.7%; p < 0.001), and more postoperative renal failure (17/2067, 0.8% vs. 27/1206, 2.2%; p = 0.001). After adjustment for baseline characteristics, 30‐day outcomes were comparable. Conclusions. After adjustment for baseline characteristics no differences in outcomes were found between groups suggesting a safe applicability of BIMA even in patients with acute coronary syndrome undergoing urgent/emergency CABG. Reasons for SVG use were higher age, female gender, and acute coronary syndrome with urgent/emergency CABG. Outcomes of both groups were excellent with low rates of primary endpoints.
Urethral Caruncle in Pediatrics: A Northern Tanzania Experience
Authors: Kifle Anteneh Tadesse , Mpelumb Janeth , Bright Frank , Mbwambo Orgeness Jasper , Tsega Tizazu Abebayehu
Published: April 2024

Urethral caruncles are the most frequent benign tumors of the female urethra. Most of them are found in postmenopausal women, and they are rare in childhood. Only a few pediatric cases have been published in the literature. In this report, we present a case series of three pediatric patients with a urethral caruncle.
Numerical Investigation of Performance Enhancement for Thermoelectric Generator System Optimization of HX Fin Shape
Authors: Park Junbeom , Hong Seongbin , Kwak Kikon , Jeong Jae-Ho
Published: April 2024

This paper presents a performance analysis and optimization of heat exchanger fin shapes in a thermoelectric power generation system for ship waste heat recovery. It proposes a new curved fin design aimed at enhancing heat transfer efficiency and maximizing thermoelectric power generation capacity. Numerical analysis and response surface methodology (RSM) focused on 225 parameters to identify the optimal fin shape. Computational analysis using CFX was conducted on the thermoelectric module system with curved fins. The methodology was verified by comparing and analyzing CFD and PIV experimental results for a curved fin. The paper comprehensively compares the fluid dynamics of curved fins and straight fins, highlighting how curved fins improve heat exchange by creating a tip leak vortex. The results demonstrate the superiority of the curved fin design in terms of heat transfer efficiency and net power generation over the conventional straight fin design.
Effects of Metabolism-Related Indicators on Nonalcoholic Fatty Liver Disease in Nonobese Population Based on the National Health and Nutrition Examination Survey
Authors: Zhu XingWang , Wang HaiPing , Zhang HongLong , Nie Guole , Yan Jun , Li Xun
Published: April 2024

Objective. Nonalcoholic fatty liver disease (NAFLD) is becoming more prevalent in the nonobese population. The aim of this study was to investigate the combined effects of metabolism-related mixtures on NAFLD subjects in nonobese populations using four statistical models. Study Design. This was a retrospective observational study. Methods. Our study included 904 nonobese patients who had taken part in the 2017-2018 National Health and Nutrition Examination Survey (NHANES). We used logistic regression models, Bayesian kernel machine regression (BKMR), and the weighted quantile sum (WQS) regression model to estimate the association between metabolism-related indicators and NAFLD in the nonobese population. Finally, we included several indicators to create nomograms to predict the risk of NAFLD occurrence in the nonobese population. Results. Among the 904 participants, 116 (12.83%) had NAFLD. The logistic regression model found that the waist-to-hip ratio (WHR), HDL-c, triglyceride (TG), and HbA1c were positively associated with the outcomes. The WQS regression model showed that the WQS index was significantly associated with the occurrence of NAFLD in the nonobese population (OR: 5.789, 95% CI: 3.933–8.520), and WHR, TC, and TG had the largest weight. The BKMR model’s WHR and TG increased from the 25th percentile to the 75th percentile (other metabolite exposure remained fixed at the 75th percentile) and the risk of developing NAFLD increased in the nonobese people. The significant predictors mentioned above were introduced to construct the nomogram. The calibration curve, DCA, and AUROC (0.796) (95% CI: 0.743–0.843) all indicated that the model had a good potential clinical performance. Conclusions. By comparing the results of the four models together, WHR and TG were identified as important factors associated with NAFLD in the nonobese population. Further research is warranted to investigate the risk factors and pathogeny of NAFLD in nonobese populations.
Scleral Fixation of Toric Intraocular Lens in the Absence of Capsular Support
Authors: Krix-Jachym Karolina , Błagun Natalia , Rękas Marek
Published: April 2024

The study is aimed at describing a technique for scleral fixation of toric intraocular lens (TIOL) in the eyes without capsular support coexisting with corneal astigmatism. A monofocal toric hydrophobic lens with eyelets at the optic-haptic junction (enVista One-Piece Hydrophobic Acrylic MX60T Toric IOL; Bausch & Lomb) was fixated to the sclera using two fragments of 6–0 polypropylene monofilament, the ends of which were brought out through the sclera and cauterized. The astigmatic axis of a TIOL was adjusted according to the corneal astigmatic axis of the patient. The surgery was performed in the 5 eyes of 5 patients without capsular support. The method was safe and effective in fixing the lens to the sclera, and it ensured good centration of TIOL with predictable refractive outcomes. No conjunctival sutures, glue, or flap formation was required during the surgery. There were no relevant complications related to the procedure.
Study on Driver Behavior Pattern in Merging Area under Naturalistic Driving Conditions
Authors: Li Yan , Zhang Han , Wang Qi , Wang Zijian , Yao Xinpeng
Published: April 2024

To reduce the risk of traffic conflicts in merging area, driver’s behavior pattern was analyzed to provide a theoretical basis for traffic control and conflict risk warning. The unmanned aerial vehicle (UAV) was used to collect the videos in two different types of merging zones: freeway interchange and service area. A vehicle tracking detection model based on YOLOv5 (the fifth version of You Only Look Once) and Deep SORT was constructed to extract traffic flow, speed, vehicle type, and driving trajectory. Acceleration/deceleration distribution and vehicle lane‐changing behavior were analyzed. The influence of different vehicle models on vehicle speed and lane‐changing behavior was summarized. Based on this data, the mean and standard deviation of velocity, acceleration, and variable acceleration were selected as the characteristic variables for driving style clustering. To avoid redundant information between features, principal component dimensionality reduction was performed, and the dimensionality reduction data was used for K‐means and K‐means++ clustering to obtain three driving styles. The results show that there are obvious differences in the driving behaviors of vehicles in different types of merging areas, and the characteristics of different areas should be fully considered when conducting traffic conflict warnings.
Phenolic Compound Content and Antioxidant Activity of Rheum ribes Shells
Authors: Yolbaş İdris
Published: April 2024

The antioxidative and therapeutic properties of Rheum ribes, a plant indigenous to Turkey, have been extensively researched. However, little attention has been paid to compounds extracted from R. ribes shells. This study focused on assessing the phenolic compound content and antioxidative capabilities of R. ribes shells. We identified 44 out of 88 phytochemical compounds present in these shells using liquid chromatography-high-resolution mass spectrometry. Among these compounds, rutin hydrate M-OH2, kuromanine, and procyanidin B2 emerged as the most abundant, whereas sinapic acid had the lowest concentration. Furthermore, antioxidant activity was determined using the 2,2-diphenyl-1-picrylhydrazyl assay, with the R. ribes shell extract exhibiting an activity level of 1.06 ± 0.3 mg Trolox equivalent/g of sample. In summary, this research explored the potential health advantages of R. ribes shells, thereby offering valuable insights for discovering novel bioactive compounds in natural resources for future drug development.
Supplementary Table S8 from Trends and Disparities in Curative-Intent Treatment for Early-Stage Non–Small Cell Lung Cancer: A Population-Based Analysis of Surgery and SBRT
Authors: Liu Qinran , Medina Heidy N. , Rodriguez Estelamari , Jacobs Kamaria T. , Brown Clyde , Koru-Sengul Tulay , Lopes Gilberto , Pinheiro Paulo S.
Published: April 2024

Supplementary Table S8 shows the sensitivity analyses of receipt of curative-intent surgery and receipt of any curative-intent treatment by excluding T3 and possible stage IIB node-positive cases in Florida from 2005 to 2017.
Supplementary Table 5 from The Associations between Intakes of One-Carbon Metabolism–Related Vitamins and Breast Density among Young Women
Authors: Han Eunyoung , Van Horn Linda , Snetselaar Linda , Shepherd John A. , Park Yoon Jung , Kim Hyesook , Jung Seungyoun , Dorgan Joanne F.
Published: April 2024

Supplementary Table 5 shows the results of association between �V and ADBV according to quartiles of one-carbon metabolism-related vitamin intakes during young adulthood among nulliparous women
Supplementary Table S1 from Trends and Disparities in Curative-Intent Treatment for Early-Stage Non–Small Cell Lung Cancer: A Population-Based Analysis of Surgery and SBRT
Authors: Liu Qinran , Medina Heidy N. , Rodriguez Estelamari , Jacobs Kamaria T. , Brown Clyde , Koru-Sengul Tulay , Lopes Gilberto , Pinheiro Paulo S.
Published: April 2024

Supplementary Table S1 shows the specific weights and codes used in the NCI Comorbidity Index.
Supplemental Table 2 from Epidemiologic Factors in Relation to Colorectal Cancer Risk and Survival by Genotoxic Colibactin Mutational Signature
Authors: Thomas Claire E. , Georgeson Peter , Qu Conghui , Steinfelder Robert S. , Buchanan Daniel D. , Song Mingyang , Harrison Tabitha A. , Um Caroline Y. , Hullar Meredith A. , Jenkins Mark A. , Van Guelpen Bethany , Lynch Brigid M. , Melaku Yohannes Adama , Huyghe Jeroen R. , Aglago Elom K. , Berndt Sonja I. , Boardman Lisa A. , Campbell Peter T. , Cao Yin , Chan Andrew T. , Drew David A. , Figueiredo Jane C. , French Amy J. , Giannakis Marios , Goode Ellen L. , Gruber Stephen B. , Gsur Andrea , Gunter Marc J. , Hoffmeister Michael , Hsu Li , Huang Wen-Yi , Moreno Victor , Murphy Neil , Newcomb Polly A. , Newton Christina C. , Nowak Jonathan A. , Obón-Santacana Mireia , Ogino Shuji , Sun Wei , Toland Amanda E. , Trinh Quang M. , Ugai Tomotaka , Zaidi Syed H. , Peters Ulrike , Phipps Amanda I.
Published: April 2024

Supplemental Table 2 shows the hazard ratios and 95% confidence intervals for the association of epidemiologic factors with colorectal cancer survival by SBS88 signature and APC:c.835-8A>G somatic mutation status.
Supplementary Table S1 from Prevalence and Correlates of Post-Diagnosis Alcohol Use among Cancer Survivors
Authors: Heffner Jaimee L. , Ton Mimi , Jones Salene M.W. , Malen Rachel C. , Cohen Stacey A. , Newcomb Polly A.
Published: April 2024

Supplementary Table S1 provides definitions of each alcohol variable along with the weighted prevalence estimates for each.
Supplementary Methods from Risk Factors for Ovarian Cancer by BRCA Status: A Collaborative Case-Only Analysis
Authors: Gersekowski Kate , Na Renhua , Alsop Kathryn , Delahunty Rachel , Goode Ellen L. , Cunningham Julie M. , Winham Stacey J. , Pharoah Paul D.P. , Song Honglin , Webb Penelope M.
Published: April 2024

Supplementary Methods for multiple imputation and sensitivity analysis
Supplementary Table 1. from Associations between Plasma Tocopherols and Lung Cancer Risk: Results from the Southern Community Cohort Study
Authors: Yoon Hyung-Suk , Wu Jie , Shidal Chris , Sun Yan , Franke Adrian A. , Yang Jae Jeong , Braithwaite Dejana , Courtney Regina , Cai Hui , Blot William J. , Shu Xiao-Ou , Zheng Wei , Cai Qiuyin
Published: April 2024

Median Plasma Levels of Tocopherols (ng/ml) by Baseline Characteristics
Supplementary Figure 1. from Associations between Plasma Tocopherols and Lung Cancer Risk: Results from the Southern Community Cohort Study
Authors: Yoon Hyung-Suk , Wu Jie , Shidal Chris , Sun Yan , Franke Adrian A. , Yang Jae Jeong , Braithwaite Dejana , Courtney Regina , Cai Hui , Blot William J. , Shu Xiao-Ou , Zheng Wei , Cai Qiuyin
Published: April 2024

Correlation Matrix between Plasma Tocopherols Description. Pearson correlation coefficients (r) were calculated after log-transformation of plasma levels of each tocopherol subtype.
Supplementary Table 9 from The Impact of Inherited Genetic Variation on DNA Methylation in Prostate Cancer and Benign Tissues of African American and European American Men
Authors: Delgado Dayana , Gillard Marc , Tong Lin , Demanelis Kathryn , Oliva Meritxell , Gleason Kevin J. , Chernoff Meytal , Chen Lin , Paner Gladell P. , Vander Griend Donald , Pierce Brandon L.
Published: April 2024

Supplementary Table 9 shows the characteristics of PCa-risk SNPs and CpGs tested for co-localization in benign tissue
Supplementary Table 5 from The Impact of Inherited Genetic Variation on DNA Methylation in Prostate Cancer and Benign Tissues of African American and European American Men
Authors: Delgado Dayana , Gillard Marc , Tong Lin , Demanelis Kathryn , Oliva Meritxell , Gleason Kevin J. , Chernoff Meytal , Chen Lin , Paner Gladell P. , Vander Griend Donald , Pierce Brandon L.
Published: April 2024

Supplementary Table 5 shows the replication of 52 PCa-risk cis-meQTLs reported in Houlahan et al., 2019
Supplemental Figure 7 from Oncogenic Oral Human Papillomavirus Clearance Patterns over 10 Years
Authors: D'Souza Gypsyamber , Tewari Sakshi R. , Troy Tanya , Webster-Cyriaque Jennifer , Wiley Dorothy J. , Lahiri Cecile Delille , Palella Frank Joseph , Gillison Maura L. , Strickler Howard D. , Struijk Linda , Waterboer Tim , Ho Ken , Kwait Jennafer , Lazar Jason , Weber Kathleen M. , Fakhry Carole
Published: April 2024

Supplemental Figure 7: Effect of HPV type (16 vs non16 oncogenic HPV type) on prevalent (SF7a) incident (SF7b) infections.
Supplementary Table 17 from The Impact of Inherited Genetic Variation on DNA Methylation in Prostate Cancer and Benign Tissues of African American and European American Men
Authors: Delgado Dayana , Gillard Marc , Tong Lin , Demanelis Kathryn , Oliva Meritxell , Gleason Kevin J. , Chernoff Meytal , Chen Lin , Paner Gladell P. , Vander Griend Donald , Pierce Brandon L.
Published: April 2024

Supplementary Table 17 shows the GWAS-eQTL pairs that are likely to share common causal variants based on GTEx normal prostate eQTL summary statistics
Table S1 from Rural–Urban Differences in Sun Exposure and Protection Behaviors in the United States
Authors: Dona Allison C. , Jewett Patricia I. , Henning-Smith Carrie , Ahmed Rehana L. , Wei Maria L. , Lazovich DeAnn , Vogel Rachel I.
Published: April 2024

Supplemental Table 1 provides detailed frequencies of sun protection behaviors by ethno-racial group and by rural and urban status, showing differences by behavior across groups.
Supplementary Figure 4 from Racial and Ethnic Disparities in Hepatocellular Carcinoma Treatment Receipt in the United States: A Systematic Review and Meta-Analysis
Authors: Wagle Nikita Sandeep , Park Sulki , Washburn David , Ohsfeldt Robert , Kum Hye-Chung , Singal Amit G.
Published: April 2024

Supplementary figure 4 shows that Black patients with early-stage HCC are significantly less likely to undergo curative treatment than White patients (pooled OR 0.63, 95%CI 0.47 – 0.84).
Supplementary Figure 4 from The Impact of Inherited Genetic Variation on DNA Methylation in Prostate Cancer and Benign Tissues of African American and European American Men
Authors: Delgado Dayana , Gillard Marc , Tong Lin , Demanelis Kathryn , Oliva Meritxell , Gleason Kevin J. , Chernoff Meytal , Chen Lin , Paner Gladell P. , Vander Griend Donald , Pierce Brandon L.
Published: April 2024

Supplementary Figure 4 shows the location of mCpGs in relation to genomic features
Supplementary Table 2 from Association of Fibroids, Endometriosis, and Gynecologic Surgeries with Breast Cancer Incidence and Hormone Receptor Subtypes
Authors: Zeldin Jordan , Sandler Dale P. , Ogunsina Kemi , O'Brien Katie M.
Published: April 2024

Association between endometriosis diagnosed before age 35 (+/- uterine surgery) and breast cancer overall and stratified by menopause status using Cox proportional hazards model
Data from Trends and Disparities in Curative-Intent Treatment for Early-Stage Non–Small Cell Lung Cancer: A Population-Based Analysis of Surgery and SBRT
Authors: Liu Qinran , Medina Heidy N. , Rodriguez Estelamari , Jacobs Kamaria T. , Brown Clyde , Koru-Sengul Tulay , Lopes Gilberto , Pinheiro Paulo S.
Published: April 2024

AbstractBackground:
Despite the increasing adoption of stereotactic body radiotherapy (SBRT) as a recommended alternative for early-stage non–small cell lung cancer (NSCLC), population-based research on racial/ethnic disparities in curative-intent treatment accounting for SBRT remains limited. This study investigated trends and disparities in receiving curative-intent surgery and/or SBRT in a diverse, retrospective cohort.
Methods:
Early-stage NSCLC cases (2005–2017) from the Florida cancer registry were linked to individual-level statewide discharge data containing comorbidities and specific treatment information. Joinpoint regression assessed trends in treatment receipt. Multivariable logistic regression examined associations between race/ethnicity and treatment type.
Results:
Among 64,999 patients with early-stage NSCLC, 71.6% received curative-intent treatment (surgery and/or SBRT): 73.1%, 72.4%, and 60.3% among Hispanic, White, and Black patients, respectively (P < 0.01). SBRT use increased steeply from 2005 to 2007 and then by 7.9% annually from 2007 to 2017 (P < 0.01); curative-intent surgery remained stable from 2005 to 2014 before declining by 6.2% annually during 2014–2017 (P = 0.04). The Black-White disparity in receipt of curative-intent treatment was significant [ORadj, 0.65; 95% confidence interval (CI), 0.60–0.71]. Patients with Charlson comorbidity index (CCI)≥3 had 36% (ORadj, 0.64; 95% CI, 0.60–0.69) lower odds of receiving curative-intent surgery and no significant difference for SBRT (ORadj, 1.06; 95% CI, 0.93–1.20) compared with CCI = 0.
Conclusions:
Racial disparities in receiving curative-intent treatment for early-stage NSCLC persist despite the availability of SBRT, suggesting the full potential of curative-intent treatment for early-stage NSCLC remains unachieved.
Impact:
Addressing disparities in early-stage NSCLC requires addressing differential treatment patterns and enhancing accessibility to treatments like underutilized SBRT, particularly for high-comorbidity populations such as Black patients.
Data from Prevalence and Correlates of Post-Diagnosis Alcohol Use among Cancer Survivors
Authors: Heffner Jaimee L. , Ton Mimi , Jones Salene M.W. , Malen Rachel C. , Cohen Stacey A. , Newcomb Polly A.
Published: April 2024

AbstractBackground:
Alcohol is a risk factor for cancer and may pose unique risks for cancer survivors. Population-based studies of confirmed cancer cases are needed to estimate the extent of drinking among cancer survivors and to understand which survivors are most at risk of alcohol-related health problems.
Methods:
Cancer survivors who resided in the Puget Sound Surveillance, Epidemiology, and End Results (SEER) region, were ages 21 to 74 years at diagnosis, and were 6 to 17 months post-diagnosis at the start of the recruitment period (April 2020–December 2020) were sent a survey that included demographics, substance use, mental health, and cancer-related items. Data from returned surveys (n = 1,488) were weighted to represent the characteristics of the Puget Sound SEER region. We estimated the prevalence of post-diagnosis alcohol use as well as demographic, behavioral, and clinical correlates of three levels of drinking: any drinking, drinking exceeding cancer prevention guidelines, and hazardous drinking.
Results:
The weighted prevalence of any drinking, drinking exceeding cancer prevention guidelines, and hazardous drinking was 71%, 46.2%, and 31.6%, respectively. Higher income and cannabis use were associated with increased odds of all three drinking levels. Lower physical health quality of life, having non-colorectal gastrointestinal cancer, and receiving chemotherapy within the last month were associated with decreased odds of all three drinking levels.
Conclusions:
The prevalence of any drinking and at-risk drinking was higher than in previous studies and differed based on sociodemographic, substance use, and cancer-related factors.
Impact:
Findings highlight the importance of identifying and addressing risky alcohol use in cancer care settings.
Supplementary Table 2 from Genomic Complexity Predicts Resistance to Endocrine Therapy and CDK4/6 Inhibition in Hormone Receptor–Positive (HR+)/HER2-Negative Metastatic Breast Cancer
Authors: Davis Andrew A. , Luo Jingqin , Zheng Tiantian , Dai Chao , Dong Xiaoxi , Tan Lu , Suresh Rama , Ademuyiwa Foluso O. , Rigden Caron , Rearden Timothy P. , Clifton Katherine , Weilbaecher Katherine , Frith Ashley , Tandra Pavan K. , Summa Tracy , Haas Brittney , Thomas Shana , Hernandez-Aya Leonel F. , Peterson Lindsay L. , Wang Xiaohong , Luo Shujun J. , Zhou Kemin , Du Pan , Jia Shidong , King Bonnie L. , Krishnamurthy Jairam , Ma Cynthia X.
Published: April 2024

Patient demographics.
Supplementary Data S1 from Genomic Complexity Predicts Resistance to Endocrine Therapy and CDK4/6 Inhibition in Hormone Receptor–Positive (HR+)/HER2-Negative Metastatic Breast Cancer
Authors: Davis Andrew A. , Luo Jingqin , Zheng Tiantian , Dai Chao , Dong Xiaoxi , Tan Lu , Suresh Rama , Ademuyiwa Foluso O. , Rigden Caron , Rearden Timothy P. , Clifton Katherine , Weilbaecher Katherine , Frith Ashley , Tandra Pavan K. , Summa Tracy , Haas Brittney , Thomas Shana , Hernandez-Aya Leonel F. , Peterson Lindsay L. , Wang Xiaohong , Luo Shujun J. , Zhou Kemin , Du Pan , Jia Shidong , King Bonnie L. , Krishnamurthy Jairam , Ma Cynthia X.
Published: April 2024

DNA sequencing data summary.
Supplementary Table S5 from Randomized, Double-Blind, Placebo-Controlled Trial of MUC1 Peptide Vaccine for Prevention of Recurrent Colorectal Adenoma
Authors: Schoen Robert E. , Boardman Lisa A. , Cruz-Correa Marcia , Bansal Ajay , Kastenberg David , Hur Chin , Dzubinski Lynda , Kaufman Sharon F. , Rodriguez Luz M. , Richmond Ellen , Umar Asad , Szabo Eva , Salazar Andres , McKolanis John , Beatty Pamela , Pai Reetesh K. , Singhi Aatur D. , Jacqueline Camille M. , Bao Riyue , Diergaarde Brenda , McMurray Ryan P. , Strand Carrie , Foster Nathan R. , Zahrieh David M. , Limburg Paul J. , Finn Olivera J.
Published: April 2024

Adverse Events: Grade 3
Supplementary Materials S1 from BRD9 Degradation Disrupts Ribosome Biogenesis in Multiple Myeloma
Authors: Kurata Keiji , Samur Mehmet K. , Liow Priscilla , Wen Kenneth , Yamamoto Leona , Liu Jiye , Morelli Eugenio , Gulla Annamaria , Tai Yu-Tzu , Qi Jun , Hideshima Teru , Anderson Kenneth C.
Published: April 2024

Supplementary Materials
Supplementary Figure S5 from BRD9 Degradation Disrupts Ribosome Biogenesis in Multiple Myeloma
Authors: Kurata Keiji , Samur Mehmet K. , Liow Priscilla , Wen Kenneth , Yamamoto Leona , Liu Jiye , Morelli Eugenio , Gulla Annamaria , Tai Yu-Tzu , Qi Jun , Hideshima Teru , Anderson Kenneth C.
Published: April 2024

BRD9 co-localized with BRD4 and MYC in ribosome biogenesis gene transcription start sites (TSS).
Supplementary Methods S2 from Randomized, Double-Blind, Placebo-Controlled Trial of MUC1 Peptide Vaccine for Prevention of Recurrent Colorectal Adenoma
Authors: Schoen Robert E. , Boardman Lisa A. , Cruz-Correa Marcia , Bansal Ajay , Kastenberg David , Hur Chin , Dzubinski Lynda , Kaufman Sharon F. , Rodriguez Luz M. , Richmond Ellen , Umar Asad , Szabo Eva , Salazar Andres , McKolanis John , Beatty Pamela , Pai Reetesh K. , Singhi Aatur D. , Jacqueline Camille M. , Bao Riyue , Diergaarde Brenda , McMurray Ryan P. , Strand Carrie , Foster Nathan R. , Zahrieh David M. , Limburg Paul J. , Finn Olivera J.
Published: April 2024

supplementary methods: Detailed laboratory methods
Supplemental Table S1 from BRD9 Degradation Disrupts Ribosome Biogenesis in Multiple Myeloma
Authors: Kurata Keiji , Samur Mehmet K. , Liow Priscilla , Wen Kenneth , Yamamoto Leona , Liu Jiye , Morelli Eugenio , Gulla Annamaria , Tai Yu-Tzu , Qi Jun , Hideshima Teru , Anderson Kenneth C.
Published: April 2024

Univariate and multivariate analysis of BRD9 expression
Supplementary Figure S3 from Integrating Tumor-Intrinsic and Immunologic Factors to Identify Immunogenic Breast Cancers from a Low-Risk Cohort: Results from the Randomized SweBCG91RT Trial
Authors: Stenmark Tullberg Axel , Sjöström Martin , Niméus Emma , Killander Fredrika , Chang S. Laura , Feng Felix Y. , Speers Corey W. , Pierce Lori J. , Kovács Anikó , Lundstedt Dan , Holmberg Erik , Karlsson Per
Published: April 2024

The tumor-intrinsic model, Proliferative Index, could predict the prognostic effect from the immunological model, Immunescore. With high Proliferative Index values, Immunescore was strongly prognostic. However, with low Proliferative Index values, trends toward the opposite were observed.
Supplementary Tables S1-7 from CEACAM1 Marks Highly Suppressive Intratumoral Regulatory T Cells for Targeted Depletion Therapy
Authors: Jeon Seung Hyuck , Kang Minyong , Jeon Minwoo , Chung Youseung , Kim A Reum , Lee Yong Joon , Kim Eui-Soon , Nam Heejin , Park Junsik , Lee Jung-Yun , Shin Eui-Cheol , Seo Seong Il , Park Su-Hyung
Published: April 2024

Supplementary Tables S1-7
Supplementary Figure S4 from NPY Methylated ctDNA is a Promising Biomarker for Treatment Response Monitoring in Metastatic Colorectal Cancer
Authors: Janssens Katleen , Vanhoutte Greetje , Lybaert Willem , Demey Wim , Decaestecker Jochen , Hendrickx Koen , Rezaei Kalantari Hassan , Zwaenepoel Karen , Pauwels Patrick , Fransen Erik , Op de Beeck Ken , Van Camp Guy , Rolfo Christian , Peeters Marc
Published: April 2024

Median methylation ratio.
Supplementary Figure S4 from Influence of Genomic Landscape on Cancer Immunotherapy for Newly Diagnosed Ovarian Cancer: Biomarker Analyses from the IMagyn050 Randomized Clinical Trial
Authors: Landen Charles N. , Molinero Luciana , Hamidi Habib , Sehouli Jalid , Miller Austin , Moore Kathleen N. , Taskiran Cagatay , Bookman Michael , Lindemann Kristina , Anderson Charles , Berger Regina , Myers Tashanna , Beiner Mario , Reid Thomas , Van Nieuwenhuysen Els , Green Andrew , Okamoto Aikou , Aghajanian Carol , Thaker Premal H. , Blank Stephanie V. , Khor Victor K. , Chang Ching-Wei , Lin Yvonne G. , Pignata Sandro
Published: April 2024

PFS by treatment arm according to TMB status (stratified by treatment approach, disease stage, and ECOG PS). A, TMB-low population. B, TMB-high population. CPB, paclitaxel, carboplatin, and bevacizumab.
Data from Zinc Finger MYND-Type Containing 8 (ZMYND8) Is Epigenetically Regulated in Mutant Isocitrate Dehydrogenase 1 (IDH1) Glioma to Promote Radioresistance
Authors: Carney Stephen V. , Banerjee Kaushik , Mujeeb Anzar , Zhu Brandon , Haase Santiago , Varela Maria L. , Kadiyala Padma , Tronrud Claire E. , Zhu Ziwen , Mukherji Devarshi , Gorla Preethi , Sun Yilun , Tagett Rebecca , Núñez Felipe J. , Luo Maowu , Luo Weibo , Ljungman Mats , Liu Yayuan , Xia Ziyun , Schwendeman Anna , Qin Tingting , Sartor Maureen A. , Costello Joseph F. , Cahill Daniel P. , Lowenstein Pedro R. , Castro Maria G.
Published: April 2024

AbstractPurpose:
Mutant isocitrate dehydrogenase 1 (mIDH1) alters the epigenetic regulation of chromatin, leading to a hypermethylation phenotype in adult glioma. This work focuses on identifying gene targets epigenetically dysregulated by mIDH1 to confer therapeutic resistance to ionizing radiation (IR).
Experimental Design:
We evaluated changes in the transcriptome and epigenome in a radioresistant mIDH1 patient-derived glioma cell culture (GCC) following treatment with an mIDH1-specific inhibitor, AGI-5198. We identified Zinc Finger MYND-Type Containing 8 (ZMYND8) as a potential target of mIDH1 reprogramming. We suppressed ZMYND8 expression by shRNA knockdown and genetic knockout (KO) in mIDH1 glioma cells and then assessed cellular viability to IR. We assessed the sensitivity of mIDH1 GCCS to pharmacologic inhibition of ZMYND8-interacting partners: HDAC, BRD4, and PARP.
Results:
Inhibition of mIDH1 leads to an upregulation of gene networks involved in replication stress. We found that the expression of ZMYND8, a regulator of DNA damage response, was decreased in three patient-derived mIDH1 GCCs after treatment with AGI-5198. Knockdown of ZMYND8 expression sensitized mIDH1 GCCs to radiotherapy marked by decreased cellular viability. Following IR, mIDH1 glioma cells with ZMYND8 KO exhibit significant phosphorylation of ATM and sustained γH2AX activation. ZMYND8 KO mIDH1 GCCs were further responsive to IR when treated with either BRD4 or HDAC inhibitors. PARP inhibition further enhanced the efficacy of radiotherapy in ZMYND8 KO mIDH1 glioma cells.
Conclusions:
These findings indicate the impact of ZMYND8 in the maintenance of genomic integrity and repair of IR-induced DNA damage in mIDH1 glioma.

See related commentary by Sachdev et al., p. 1648
Data from CEACAM1 Marks Highly Suppressive Intratumoral Regulatory T Cells for Targeted Depletion Therapy
Authors: Jeon Seung Hyuck , Kang Minyong , Jeon Minwoo , Chung Youseung , Kim A Reum , Lee Yong Joon , Kim Eui-Soon , Nam Heejin , Park Junsik , Lee Jung-Yun , Shin Eui-Cheol , Seo Seong Il , Park Su-Hyung
Published: April 2024

AbstractPurpose:
Regulatory T cells (Tregs) exert immunosuppressive functions and hamper antitumor immune responses in the tumor microenvironment. Understanding the heterogeneity of intratumoral Tregs, and how it changes with tumor progression, will provide clues regarding novel target molecules of Treg-directed therapies.
Experimental Design:
From 42 patients with renal cell carcinoma and 5 patients with ovarian cancer, immune cells from tumor and peripheral blood were isolated. We performed multicolor flow cytometry and RNA-sequencing to characterize the phenotypes and heterogeneity of intratumoral Tregs. In vitro functional assays were performed to evaluate suppressive capacity of Tregs and effect of carcinoembryonic antigen-related cell adhesion molecule 1 (CEACAM1)-mediated depletion. The CT26 tumor model was used to evaluate the association between intratumoral Tregs and tumor growth, and examine the in vivo role of CEACAM1+ intratumoral Tregs on antitumor immunity.
Results:
We found that CEACAM1 was selectively expressed on intratumoral Tregs, whereas its expression on peripheral Tregs or other immune cells was low. The CEACAM1+ intratumoral Tregs accumulated with tumor progression, whereas the CEACAM1− subset did not. Notably, we found that CEACAM1 marked intratumoral Tregs that exhibited highly suppressive and activated phenotypes with substantial clonal expansion. Depletion of CEACAM1-expressing cells from tumor-infiltrating leukocytes led to increased effector functions of tumor-infiltrating T cells. Moreover, CEACAM1+ cell depletion further enhanced anti-PD-1–mediated reinvigoration of exhausted CD8+ T cells.
Conclusions:
CEACAM1 marks highly suppressive subset of intratumoral Tregs, and can be a target for selective depletion of intratumoral Tregs. These results may inform future studies on CEACAM1-mediated depletion in patients with cancer.
TABLE 1 from Versican Associates with Tumor Immune Phenotype and Limits T-cell Trafficking via Chondroitin Sulfate
Authors: Hirani Priyanka , McDermott Jacqueline , Rajeeve Vinothini , Cutillas Pedro R. , Jones J. Louise , Pennington Daniel J. , Wight Thomas N. , Santamaria Salvatore , Alonge Kimberly M. , Pearce Oliver M.T.
Published: April 2024

Antibodies for IHC. Optimized parameters for each antibody
Supplementary Figure 7 from Versican Associates with Tumor Immune Phenotype and Limits T-cell Trafficking via Chondroitin Sulfate
Authors: Hirani Priyanka , McDermott Jacqueline , Rajeeve Vinothini , Cutillas Pedro R. , Jones J. Louise , Pennington Daniel J. , Wight Thomas N. , Santamaria Salvatore , Alonge Kimberly M. , Pearce Oliver M.T.
Published: April 2024

Supplementary Figure 7 shows representative images of each phenotype
Supplementary Figure 5 from Versican Associates with Tumor Immune Phenotype and Limits T-cell Trafficking via Chondroitin Sulfate
Authors: Hirani Priyanka , McDermott Jacqueline , Rajeeve Vinothini , Cutillas Pedro R. , Jones J. Louise , Pennington Daniel J. , Wight Thomas N. , Santamaria Salvatore , Alonge Kimberly M. , Pearce Oliver M.T.
Published: April 2024

Supplementary Figure 5 outlines the analysis of matrix proteins in TMAs.
FIGURE 5 from Versican Associates with Tumor Immune Phenotype and Limits T-cell Trafficking via Chondroitin Sulfate
Authors: Hirani Priyanka , McDermott Jacqueline , Rajeeve Vinothini , Cutillas Pedro R. , Jones J. Louise , Pennington Daniel J. , Wight Thomas N. , Santamaria Salvatore , Alonge Kimberly M. , Pearce Oliver M.T.
Published: April 2024

VCAN, CS, and CS-proteoglycans in different phenotypes. IHC completed for VCAN and CS on consecutive sections of 26 TNBC tissues. A, Spread of CS levels across regions in excluded and inflamed tissues. Tissues were analyzed by IHC using the CS56 antibody which can detect both A and C isomers of CS. B, CS and VCAN percentage determined from the same areas of consecutive slides. Correlations determined for stains in each region of excluded and inflamed tissues. Spearman rank correlation. C, IHC staining completed for BGN and DCN on 30 TNBC tissues. Percentage of stains compared between phenotypes and regions. RM one-way ANOVA. *, P < 0.05; **, P < 0.01; ***, P < 0.005; ****, P < 0.001.