bluuebunny/crossref_metadata_2025 huggingface dataset:
Ambient air pollution and birth outcomes: a scoping review to investigate the mediating and moderating variables—protocol
Authors: Perry Lucy , Mizen Amy , Ellis-Davies Kate , Fry Richard , Isham Amy
Published: February 2025

Introduction

Pregnant women and their babies are a highly vulnerable population to health effects from air pollution. This scoping review aims to understand the extent and type of evidence concerning the mediating and moderating factors between air pollution and birth outcomes. By gathering and synthesising this evidence, this review aims to identify key concepts, themes and knowledge gaps. In turn, these findings will serve as a valuable resource for researchers and policymakers by highlighting potential pathways and gaps in evidence.

Methods and analysis

This scoping review protocol is based on the Joanna Briggs Institute (JBI) methodology for scoping reviews and will be reported in full with a Preferred Reporting Items for Systematic Reviews and Meta-Analyses extension for scoping review (PRISMA-ScR) flow diagram. This review will search eight databases: Web of Science, Scopus, PubMed, Embase, GreenFILE, CINAHL Ultimate, APA PsycINFO and MIDIRS. Results will be limited to those written or translated into English and peer-reviewed studies with no restriction on publication date. The study selection and data extraction will be completed within the software Covidence by two or more independent reviewers, with conflicts solved by group discussion. The data extracted from this process will include publication details, study characteristics and population characteristics.

Ethics and dissemination

This study will not collect primary data; therefore, no formal ethical approval is required. The findings will be disseminated to academic and non-academic audiences through conferences, publications and focus groups.

Trail registration number

Open Science Framework (https://doi.org/10.17605/OSF.IO/6Y2D9).
Spatial and temporal changes of breast-conserving surgery rates and its influential factors among Chinese patients with breast cancer from 2013 to 2019: a registry-based study
Authors: Lin Queran , Li Shunrong , Shang Tongrui , Gui Xiujuan , Zhu Liling , Yang Yuan , Zhong Ziliang , Wang Xiaoyu , Dai Lingyan , Zhao Jianli , Xu Yanjie , Chen Qianru , Yan Qing , Huang Xiaoliang , Hu Wei , Liang Zijian , Song Erwei , He Jianrong , Ye Pengpeng , Chen Kai
Published: February 2025

Objective

Our study aims to evaluate the spatial and temporal changes of breast-conserving surgery (BCS) rates and influential factors of BCS in Guangdong Province, China.

Design, setting and participants

This registry-based cohort study analysed the data of patients of all age groups, from the medical record cover page, which was mandatorily collected for inpatients by the Health Administrative Department of Guangdong Province, China. Patients with non-metastatic breast cancer, who underwent breast surgery between 2013 and 2019, were included.

Main outcomes and measures

We analysed the BCS rate in Guangdong Province between 2013 and 2019. Logistic regression was applied to investigate the association between patient-level influential factors and BCS, respectively. We used restricted cubic spline regression to model the non-linear association between hospital volume rank with BCS rate. Linear regression was used to evaluate the association between city-level parameters with BCS rate of each city.

Results

A total of 93 521 patients with non-metastatic breast cancer, who underwent breast surgery, were included in the analyses. Among them, 10 949 (11.7%) had BCS, with the BCS rates increasing from 0.8% in 2013 to 19.2% in 2019. Patients who were older (vs <40 years, 40–49 years: adjusted OR 0.72, 95% CI 0.68 to 0.76; 50–59 years: 0.51, 95% CI 0.48 to 0.54; ≥60 years: 0.37, 95% CI 0.35 to 0.40) and married (vs unmarried, 0.64, 95% CI 0.59 to 0.70) were less likely to undergo BCS. Patients who were employed (vs unemployed, 1.58, 95% CI 1.49 to 1.68), received cross-city surgery (vs local surgery, 1.37, 95% CI 1.31 to 1.44), lived in a high-income city (vs low-income city, β=4.40, 95% CI 1.55 to 7.24) or in a city with a higher number of physicians per 100 000 residents (0.57, 95% CI 0.31 to 0.82) were more likely to receive BCS.

Conclusions and relevance

This study suggests a significant increase in BCS rates from 2013 to 2019 in Guangdong, China. Promotion of BCS is needed, particularly among older patients, lower-volume hospitals and economically underdeveloped areas. Healthcare system should be prepared to support the increased awareness of seeking BCS among younger patients with breast cancer by improving the availability of radiotherapy, multidisciplinary team and patients’ education programme.
Effect of intermittent theta burst stimulation combined with acoustic startle priming motor training on upper limb motor function and neural plasticity in stroke individuals: study protocol for a randomised controlled proof-of-concept trial
Authors: Chen Yu , Xia Nan , Li Jinghong , Liang Weiqiang , Yin Yangyang , Zhai Linhan , Wang Mingzhu , Wang Qiuxia , Zhang Jing
Published: February 2025

Introduction

Stroke is a major cause of acquired disability globally, yet the neural mechanisms driving motor recovery post-stroke remain elusive. Recent research has underscored the growing significance of subcortical pathways in neural plasticity and motor control. Among these, the cortico-reticulospinal tract (CRST) has gained attention in rehabilitation due to its unique ascending and descending structural features as well as its cellular properties which position it as an excellent candidate to compensate for inadequate motor control post-stroke. However, the optimal strategies to harness the CRST for motor recovery remain unknown. Non-invasive modulation of the CRST presents a promising though challenging, therapeutic opportunity. Acoustic startle priming (ASP) training and intermittent theta burst stimulation (iTBS) are emerging as potential methods to regulate CRST function. This study aims to investigate the feasibility of segmentally modulating the cortico-reticular and reticulospinal tracts through ASP and iTBS while evaluating the resulting therapeutic effects.

Methods and analysis

This is a randomised, blinded interventional trial with three parallel groups. A total of 36 eligible participants will be randomly assigned to one of three groups: (1) iTBS+ASP group, (2) iTBS+non-ASP group, (3) sham iTBS+ASP group. The trial comprises four phases: baseline assessment, post-first intervention assessment, assessment after 3 weeks of intervention and a 4-week follow-up. The primary outcomes are the changes in the Fugl-Meyer Assessment-Upper Extremity and Modified Ashworth Scale after the 3-week intervention. Secondary outcomes include neurophysiological metrics and neuroimaging results from diffusion tensor imaging and resting-state functional MRI.

Ethics and dissemination

The trial is registered with the Chinese Clinical Trial Registry (Registration No. ChiCTR2400085220) and Medical Ethics Committee of Tongji Hospital, affiliated with Tongji Medical College, Huazhong University of Science and Technology (Registration No.TJ-IRB20231109). It will be conducted in the Departments of Rehabilitation Medicine and Radiology at Tongji Hospital in Wuhan, China. The findings will be disseminated through peer-reviewed journal publications and presentations at scientific conferences.

Trial registration number

ChiCTR2400085220.
Exploring the causal paths and longitudinal impact of telework on health: the TeleHealth survey–data linkage study protocol
Authors: Bracho Montes de Oca Eduardo Antonio , Int Panis Laura , Verbrugghe Mathieu , De Waegeneer Els , Cagnie Barbara , de Geus Bas , De Pauw Robby
Published: February 2025

Background

The transition from traditional office work to telework has accelerated significantly since the late 20th century, especially in light of the COVID-19 pandemic. Despite its widespread adoption, the long-term health impacts of telework remain unclear. This study seeks to clarify the telework–health relationship by integrating longitudinal self-reported health data with health-related administrative records.

Methods and analysis

An online self-reported longitudinal survey with four follow-ups of 6 months each, starting in November 2024, will be set up and linked with administrative data sources. In total, a non-probabilistic sample of 5000 non-teleworkers and teleworkers will be recruited. This survey will mainly assess the effect of teleworking on mental (eg, depression and anxiety) and physical (eg, pain) health. Administrative data (eg, healthcare consumption contacts and socioeconomic status) will be extracted from Belgian administrative data sources (Statistics Belgium and the InterMutualistic Agency) for the same period. This administrative data will be linked to the survey data using the Social Security ID. The underlying relationships between telework and health will be analysed via regression models and mediation models embedded in the natural effects framework. The analysis will aim to (1) identify the impact of telework on self-reported health and administrative data, (2) identify the moderators and mediators between the telework–health relationship, (3) understand the long-term patterns of telework and health interaction and (4) predict the health outcomes of teleworkers. To mitigate biases associated with non-probabilistic samples and attrition, standardised probability weights scoring will be derived from the data.

Ethics and dissemination

This study involves human participants and has been approved by the Ethics Committee of Universitair Ziekenhuis Gent (Nr°. ONZ-2023–0630). The participants will participate in the study after signing an informed consent form. The study will be disseminated in academic journals, on (social) media and on the project website.
Socioeconomic, demographic and environmental factors of child drownings in Northern Bangladesh
Authors: Alam Edris , Al Hattawi Khawla Saeed , Akter Habiba , Alam Jahangir , Alvarez Elizabeth , Sufi Fahim , Kamrul Islam Md , Towfiqul Islam Abu Reza Md
Published: February 2025

Background

Drowning is the leading cause of death among children aged 0–17 years in rural Bangladesh, resulting in over 14 438 deaths annually—an average of 43 deaths per day. This study aims to identify socioeconomic, demographic and environmental factors linked to child drowning deaths in Northern Bangladesh—a region of high poverty, which is behind in overall socioeconomic indicators compared with other regions in the country.

Methods

We conducted a cross-sectional survey through purposive sampling to identify child fatal and non-fatal drownings among a total of 18 004 households, comprising 71 185 people, in 2 unions in Northern Bangladesh. Interviews were conducted between January and March 2024 with the households that experienced child drownings in the region. We employed a mixed-methods approach to data collection, using quantitative analysis to examine socioeconomic, demographic and environmental factors, alongside qualitative analysis to explore situational factors associated with drownings in the region.

Results

Through household visits, a total of 117 households were identified that faced child drowning incidents, comprising 84 fatal (71.8 %) and 33 non-fatal (28.2 %) drownings between 2018 and 2023. The households that faced drownings were comparatively of lower income groups, had lower rates of education and were mostly engaged in agriculture and other domestic work. In 2023, the number of drowning incidents was 34. Out of 117 drownings, 95% occurred between 9:00 and 15:00 hours, and more than 82% occurred between June and October. Out of 117 drowning incidents, approximately 97% of children did not know how to swim prior to the incident. Out of 117 respondents, 73.5% stated that they did not teach their child how to swim. Of those who taught their child to swim, the average age for learning to swim was 8.33 years. Out of 84 child drowning deaths, 75% were male and 25% were female, and the average age was 3.9 years. Out of the 84 fatal drowning deaths, 72.6% occurred in ponds.

Conclusion

Identification of socioeconomic, demographic and environmental factors associated with child drownings will help to develop feasible prevention strategies and interventions in the region.
The role of the muscle metaboreflex on cardiovascular responses to submaximal resistance exercise with different pressures and modes of blood flow restriction
Authors: Yamada Yujiro , Hammert William B. , Kataoka Ryo , Song Jun Seob , Kang Anna , Kassiano Witalo , Loenneke Jeremy P.
Published: February 2025

This study investigated the role of the muscle metaboreflex on cardiovascular responses to submaximal resistance exercise using different pressures and modes of blood flow restriction. Fifty-three adults completed six visits. The first visit involved a performance test (two sets of unilateral knee extension exercise until task failure at 30% 1RM) with continuous blood flow restriction (80% arterial occlusion pressure). In subsequent visits, participants performed (1) a nonexercise control (Control), 70% of the repetitions completed in the performance test with the cuff inflated to (2) continuously 80% arterial occlusion (LL + 80%), (3) continuously 40% arterial occlusion (LL + 40%), (4) intermittently 80% arterial occlusion during exercise (LL + 80%Int), and (5) 0 mmHg (LL), in a randomized order. Three minutes of post-exercise circulatory occlusion was employed to assess the muscle metaboreflex activation. Blood pressure and heart rate were measured at various time points. The pre-post increase in systolic blood pressure was not greater with LL + 80%Int ( p = 0.987) but was greater with LL + 80% and LL + 40% (LL + 80% > LL + 40%, p = 0.005) than LL by 7 [95%CI: 4, 9] and 4 [95%CI; 2, 6] mmHg, respectively. Heart rate increased only with LL + 80% over LL and Control ( p < 0.001). The changes in systolic blood pressure ( p > 0.468) and heart rate ( p > 0.543) did not differ among exercise conditions from immediate post-exercise to the end of the circulatory occlusion. Systolic/diastolic blood pressure returned to a similar level as Control (∼120, ∼70 mmHg, respectively) immediately after the cuff deflation. Continuous blood flow restriction, especially with higher pressure, accentuates muscle metaboreflex activation, resulting in amplified cardiovascular responses to the exercise.
Ultra high energy cosmic rays versus models of high energy hadronic interactions
Authors: Bortolato Blaž , Kamenik Jernej F. , Tammaro Michele
Published: February 2025

We evaluate the consistency of hadronic interaction models in the CORSIKA simulation package with publicly available fluorescence telescope data from the Pierre Auger Observatory. By comparing the first few central moments of the extensive air shower depth maximum distributions, as extracted from measured events, to those predicted by the best-fit inferred compositions, we derive a statistical measure of the consistency of a given hadronic model with data. To mitigate possible systematic biases, we include all primaries up to iron, compensate for the differences between the measured and simulated energy spectra of cosmic rays and account for other known systematic effects. Additionally, we study the effects of including higher central moments in the fit and project our results to larger statistics.
Zee model in a modular $$A_4$$ symmetry
Authors: Nomura Takaaki , Okada Hiroshi , Qi Yong-hui
Published: February 2025

We study a Zee model applying a modular

$$A_4$$

A
4

symmetry in supersymmetry framework, where we construct our lepton model as minimum modular weight as possible. We show our predictions on phases and neutrino masses through numerical analysis. We find a model that can fit in both normal and inverted hierarchy cases of neutrino mass. The predictions of neutrino observables are shown where we obtain more constrained allowed region in the inverted hierarchy case.
Online Scheduling on a Bounded Batch Machine with Same-Length-Job Families
Authors: Wang Libo , Li Wenhua , Chai Xing , Gao Yanhong , Yu Dan
Published: February 2025

We investigate an online scheduling problem on a bounded batch machine with [Formula: see text] incompatible job families, in which the jobs are released over time and the jobs belonging to the same family have the same processing times. The goal is to minimize the maximum completion time. A machine can process at most [Formula: see text] jobs simultaneously as a batch, where [Formula: see text] is finite. A batch only contains the jobs from the same family. KRT setting means that no job is released when the machine is busy. In this paper, we consider the above model under two environments: (1) KRT setting and (2) general setting. In the KRT setting, we provide the lower bounds [Formula: see text] for [Formula: see text] and [Formula: see text] for [Formula: see text]. In the general setting, we provide the lower bounds [Formula: see text] for [Formula: see text] and [Formula: see text] for [Formula: see text]. We further present an online algorithm, which is the best possible when [Formula: see text] for the KRT setting and when [Formula: see text] for the general setting.
Generic Bidirectional Typing for Dependent Type Theories
Authors: Felicissimo Thiago
Published: February 2025

Bidirectional typing is a discipline in which the typing judgment is decomposed explicitly into inference and checking modes, allowing one to control the flow of type information in typing rules and to specify algorithmically how they should be used. Bidirectional typing has been fruitfully studied and bidirectional systems have been developed for many type theories. However, the formal development of bidirectional typing has until now been kept confined to specific theories, with general guidelines remaining informal. In this work, we give a generic account of bidirectional typing for a general class of dependent type theories. This is done by first giving a general definition of bidirectional type theories, each giving rise to both a declarative and a bidirectional type system. We then show, in a theory-independent fashion, that the two systems are equivalent. Finally, we establish the decidability of bidirectional typing for normalizing theories, yielding a generic typing algorithm that has been implemented in a prototype and used in practice with many theories.
GP-HSI: Human-Scene Interaction with Geometric and Physical Constraints
Authors: Li Nianzi , Zhang Guijuan , Du Ping , Lu Dianjie
Published: February 2025

With the rapid development of AR/VR technologies, achieving natural and seamless human-scene interactions has emerged as a critical challenge in computer vision. Existing methods suffer from low model placement accuracy and unnatural scene interactions. Therefore, we propose a framework called human-scene interaction with geometric and physical constraints (GP-HSI), which places a given pose of a 3D human model in an appropriate position within a 3D scene by establishing geometric and physical constraints, while ensuring interactive fidelity between the human and the scene. Specifically, first, we propose a pose-guided human contact semantic generation method, which generates human semantic labels by classifying the given human poses. Second, we propose a geometrically and semantically constrainted human model placement method, which determines the optimal position of the human model in the scene by constraining the geometric proximity and semantic consistency between models. Third, we propose an inverse kinematics based pose adjustment method, which finds the target human-scene interaction points by constructing a heterogeneous kinematic tree and solves the rotation matrix of human joints to obtain a physically plausible optimal human pose. At last, we develop an interactive system to visualize the generated human-scene interaction. The results of qualitative and quantitative experiments show that our approach is able to place human models at appropriate locations in the scene and generate plausible interactions.
The Effect of Differential Pressure Driven Tensile Stress on Chemical Degradation of Perfluorosulfonic Acid Membranes Using a Hydrogen Peroxide Vapor Flow Cell Test
Authors: Lai Yeh-Hung , Coms Frank D. , Gittleman Craig S. , Kumaraguru Swaminatha , Zackin Benjamin , Green Zachary , Mittelsteadt Cortney K.
Published: February 2025

A modified ex situ H2O2 vapor flow cell test has been developed to study the effect of tensile stress on the chemical degradation of perfluorosulfonic acid membranes. The test cells compose of two flowfield plates with a membrane sandwiched in between. A N2 gas stream with higher pressure is directed through one side while a lower pressure 30% RH N2 stream with 175 ppm of H2O2 vapor flows on the other. The test offers advantages which include the ability to test as-received production membranes utilizing the residual trace iron in the membrane as catalyst to generate hydroxyl radicals, good control of H2O2 concentration, and versatile control of test conditions. While applying various tensile stresses from zero to the near creep-rupture strength of Nafion® N211, we measure the fluoride emission rates (FER) at 90 °C/30%RH of both N211 and a chemically stabilized and mechanically reinforced state-of-the-art (SOA) 12 μm membrane. The FER of N211 is 10–15 times higher than that of the SOA membrane, showing the effectiveness of using cerium for chemical mitigation. The result also shows that the tensile stress expected during fuel cell operation has insignificant effect on the membrane chemical degradation rates compared with the effect of RH.
Utilization of a Selective Paper-Based Flexible Electrochemical Sensor for Epinephrine Determination in Artificial Sweat Using Nickel Oxide and Sulfur-Doped Graphene Conductive Ink
Authors: Oner Esra , Uruc Selen , Dokur Ebrar , Gorduk Ozge , Sahin Yucel
Published: February 2025

Epinephrine (adrenaline, EP) is a crucial hormone that regulates the body’s response to emergencies. During periods of stress or danger, it is responsible for rapidly mobilizing the body by elevating heart rate, blood pressure, and respiratory rate. Consequently, the accurate and rapid measurement of EP is of significant importance. In this study, sulfur-doped graphene (S-Gr) synthesized using Yucel’s method, and nickel oxide (NiO) were utilized as conductive materials to develop conductive inks. Furthermore, a paper-based flexible electrochemical sensor was constructed for EP determination. The optimum conductive ink for sensor fabrication was identified through optimization process. The sensor was characterized using various techniques, including cyclic voltammetry, electrochemical impedance spectroscopy, field-emission scanning electron microscopy, energy dispersive X-ray spectroscopy, X-ray diffraction analysis, and Fourier transform infrared spectroscopy. The sensor demonstrated a detection limit of 33.16 nM, and its cost-effective and user-friendly design renders it an advantageous option for practical applications. The results obtained from the analytical studies indicated that the sensor exhibits high selectivity towards EP and can successfully detect EP in artificial sweat samples. In conclusion, the proposed sensor serves as a model for future flexible and wearable devices.
Metal Hydrides for Sustainable Hydrogen Storage: A Review
Authors: Nemukula E. , Mtshali C. B. , Nemangwele F.
Published: February 2025

Storing hydrogen in metals has received much attention due to the advantages of this approach for safely storing. It is a promising method of storing hydrogen and eliminates the challenges associated with storing hydrogen gas at high pressure, which includes material durability, tank safety, and overall weight. Much work has been done for the past decade to bring this approach closer to wide‐scale application. However, much experimental research is needed to improve the volumetric and gravimetric capacity, hydrogen adsorption/desorption kinetics, material life cycle, and reaction thermodynamics of potential materials for hydrogen storage. Other important properties to consider are transient performance, the regeneration process of spent storage materials, effective adsorption temperature associated with activation energy, induced pore sizes in materials, increasing pore volume and surface area, and materials densification. In recent years, this solid‐state storage has progressed at conditions close to normal atmospheric pressure and temperature, with metal hydrides (MHs) emerging as a promising option. Their high storage density per unit volume, volume storage capabilities, and their ability to reverse the process while maintaining stability have qualified the MHs for low‐pressure storage and fulfilling the hydrogen storing requirements. However, understanding the principles of kinetics and thermodynamics is crucial for understanding the reactions of MHs as they absorb and release hydrogen. This review evaluates the current hydrogen storage methods, the different types of MHs, their thermodynamics and kinetics, as well as their applications and challenges. For the advancement of further research in this field of study, suggestions for future work and studies are also provided.
Rural Households’ Vulnerability to Food Insecurity and Its Determinants in North Shewa Zone of Ethiopia
Authors: Cheber Debebe , Beyene Fekadu , Haji Jema , Lemma Tesfaye
Published: February 2025

This study examined the level of rural households’ vulnerability to food insecurity, and its determinants in North Shewa zone of Ethiopia using cross‐sectional data collected from 382 sample households. The vulnerability of households to food insecurity was estimated using vulnerability as expected poverty approach. The factors which influenced vulnerability to food insecurity were analyzed using binary logistic regression model. Accordingly, based on the intensity of their vulnerability, households were grouped as chronic food insecure (43.72%), transient food insecure (12.57%), highly vulnerable‐food secure (16.23%), and low vulnerable‐food secure (27.49%). Overall, about 75.51% of households were categorized as vulnerable to food insecurity. These included households who were food insecure at the time of the survey (56.28%) and those who were categorized as transient food secure group (16.23%). In addition, logistic regression model results revealed that extension service, early warning information, agricultural technology, and crop diversity were the major factors affecting (negatively) households’ vulnerability to food insecurity. On the other hand, sex, rainfall variability, and drought have increased the probability of being vulnerable to food insecurity. The findings imply that design and implementation of food insecurity policies and strategies need to focus not only on households that are currently food insecure but also on those categorized as transient food insecure.
Supplementary Figure S2 from Clinical Characteristics and Outcomes of Central Nervous System Tumors Harboring NTRK Gene Fusions
Authors: Lamoureux Audrey-Anne , Fisher Michael J. , Lemelle Lauriane , Pfaff Elke , Amir-Yazdani Pouneh , Kramm Christof , De Wilde Bram , Kazanowska Bernarda , Hutter Caroline , Pfister Stefan M. , Sturm Dominik , Jones David T.W. , Orbach Daniel , Pierron Gaëlle , Raskin Scott , Drilon Alexander , Diamond Eli L. , Harada Guilherme , Zapotocky Michal , Zamecnik Josef , Krskova Lenka , Ellezam Benjamin , Weil Alexander G. , Venne Dominic , Barritault Marc , Leblond Pierre , Coltin Hallie , Hammad Rawan , Tabori Uri , Hawkins Cynthia , Hansford Jordan R. , Meyran Deborah , Erker Craig , McFadden Kathryn , Sato Mariko , Gottardo Nicholas G. , Dholaria Hetal , Nørøxe Dorte Schou , Goto Hiroaki , Ziegler David S. , Lin Frank Y. , Parsons Donald Williams , Lindsay Holly , Wong Tai-Tong , Liu Yen-Lin , Wu Kuo-Sheng , Franson Andrea T. , Hwang Eugene , Aguilar-Bonilla Ana , Cheng Sylvia , Cacciotti Chantel , Massimino Maura , Schiavello Elisabetta , Wood Paul , Hoffman Lindsey M. , Cappellano Andréa , Lassaletta Alvaro , Van Damme An , Llort Anna , Gerber Nicolas U. , Spalato Ceruso Mariella , Bendel Anne E. , Skrypek Maggie , Hamideh Dima , Mushtaq Naureen , Walter Andrew , Jabado Nada , Alsahlawi Aysha , Farmer Jean-Pierre , Coleman Christina , Mueller Sabine , Mazewski Claire , Aguilera Dolly , Robison Nathan J. , O’Halloran Katrina , Abbou Samuel , Berlanga Pablo , Geoerger Birgit , Øra Ingrid , Moertel Christopher L. , Razis Evangelia D. , Vernadou Anastasia , Ducray François , Bronnimann Charlotte , Seizeur Romuald , Clarke Matthew , Resnick Adam C. , Alves Mélanie , Jones Chris , Doz François , Laetsch Theodore W. , Perreault Sébastien
Published: February 2025

Supplementary Figure S2. A) Hazard ratio for progression or death according to clinical characteristics. B) Hazard ratio for death according to clinical characteristics. LGG: Low-grade glioma, HGG: High-grade glioma
Supplementary Table 3 from Phase I Study of ROR1-Specific CAR-T Cells in Advanced Hematopoietic and Epithelial Malignancies
Authors: Jaeger-Ruckstuhl Carla A. , Specht Jennifer M. , Voutsinas Jenna M. , MacMillan Hugh R. , Wu Qian (Vicky) , Muhunthan Vishaka , Berger Carolina , Pullarkat Shalini , Wright Jocelyn H. , Yeung Cecilia C.S. , Hyun Teresa S. , Seaton Brandon , Aicher Lauri D. , Song Xiaoling , Pierce Robert H. , Lo Yun , Cole Gabriel O. , Lee Sylvia M. , Newell Evan W. , Maloney David G. , Riddell Stanley R.
Published: February 2025

Supplementary Table 3: Summary of adverse events Cohorts A and B, NCI CTCAE grading.
Supplementary Table 2 from Phase I Study of ROR1-Specific CAR-T Cells in Advanced Hematopoietic and Epithelial Malignancies
Authors: Jaeger-Ruckstuhl Carla A. , Specht Jennifer M. , Voutsinas Jenna M. , MacMillan Hugh R. , Wu Qian (Vicky) , Muhunthan Vishaka , Berger Carolina , Pullarkat Shalini , Wright Jocelyn H. , Yeung Cecilia C.S. , Hyun Teresa S. , Seaton Brandon , Aicher Lauri D. , Song Xiaoling , Pierce Robert H. , Lo Yun , Cole Gabriel O. , Lee Sylvia M. , Newell Evan W. , Maloney David G. , Riddell Stanley R.
Published: February 2025

Supplementary Table 2: Patient and tumor characteristics.
Supplementary Figure 3 from Phase I Study of ROR1-Specific CAR-T Cells in Advanced Hematopoietic and Epithelial Malignancies
Authors: Jaeger-Ruckstuhl Carla A. , Specht Jennifer M. , Voutsinas Jenna M. , MacMillan Hugh R. , Wu Qian (Vicky) , Muhunthan Vishaka , Berger Carolina , Pullarkat Shalini , Wright Jocelyn H. , Yeung Cecilia C.S. , Hyun Teresa S. , Seaton Brandon , Aicher Lauri D. , Song Xiaoling , Pierce Robert H. , Lo Yun , Cole Gabriel O. , Lee Sylvia M. , Newell Evan W. , Maloney David G. , Riddell Stanley R.
Published: February 2025

Supplementary Figure 3: Lymphodepletion and CAR T cell expansion.
Supplementary Figure 2 from Phase I Study of ROR1-Specific CAR-T Cells in Advanced Hematopoietic and Epithelial Malignancies
Authors: Jaeger-Ruckstuhl Carla A. , Specht Jennifer M. , Voutsinas Jenna M. , MacMillan Hugh R. , Wu Qian (Vicky) , Muhunthan Vishaka , Berger Carolina , Pullarkat Shalini , Wright Jocelyn H. , Yeung Cecilia C.S. , Hyun Teresa S. , Seaton Brandon , Aicher Lauri D. , Song Xiaoling , Pierce Robert H. , Lo Yun , Cole Gabriel O. , Lee Sylvia M. , Newell Evan W. , Maloney David G. , Riddell Stanley R.
Published: February 2025

Supplementary Figure 2: Toxicity Assessment.
Supplementary Table S6 from Phase Ib Pharmacodynamic Study of the MNK Inhibitor Tomivosertib (eFT508) Combined With Paclitaxel in Patients With Refractory Metastatic Breast Cancer
Authors: Ferrario Cristiano , Mackey John , Gelmon Karen A. , Levasseur Nathalie , Sorensen Poul H. , Oo Htoo Zarni , Negri Gian L. , Tse Veronica W.L. , Spencer Sandra E. , Cheng Grace , Morin Gregg B. , del Rincon Sonia , Cotechini Tiziana , Gonçalves Christophe , Hindmarch Charles C.T. , Miller Wilson H. , Amiri Mehdi , Basiri Tayebeh , Villareal-Corpuz Victor , Sperry Sam , Gregorczyk Kevin , Spera Gonzalo , Sonenberg Nahum , Pollak Michael
Published: February 2025

Supplementary Table S6: Summary of all adverse events.
Supplementary Figure S1 from Early Hepatic Decompensation Identifies Patients with Hepatocellular Carcinoma Treated with Atezolizumab plus Bevacizumab or Sorafenib at Highest Risk of Death
Authors: Cabibbo Giuseppe , Celsa Ciro , Battaglia Salvatore , Enea Marco , Di Maria Gabriele , Grova Alessandro , Ciccia Roberta , Manfredi Giulia F. , Iavarone Massimo , Vogel Arndt , Singal Amit G. , Reig Maria , Pinato David J. , Cammà Calogero
Published: February 2025

Supplementary Figure S1. Early hepatic decompensation identifies patients with hepatocellular carcinoma treated with systemic therapy at highest risk of death. Clinical hepatic decompensation is associated with higher hazard ratio for death, compared to HCC radiological progression. Albumin-bilirubin (ALBI) grade, INR and macrovascular invasion are independent predictors of clinical hepatic decompensation.
Supplementary Fig. S9 from Phase Ib Pharmacodynamic Study of the MNK Inhibitor Tomivosertib (eFT508) Combined With Paclitaxel in Patients With Refractory Metastatic Breast Cancer
Authors: Ferrario Cristiano , Mackey John , Gelmon Karen A. , Levasseur Nathalie , Sorensen Poul H. , Oo Htoo Zarni , Negri Gian L. , Tse Veronica W.L. , Spencer Sandra E. , Cheng Grace , Morin Gregg B. , del Rincon Sonia , Cotechini Tiziana , Gonçalves Christophe , Hindmarch Charles C.T. , Miller Wilson H. , Amiri Mehdi , Basiri Tayebeh , Villareal-Corpuz Victor , Sperry Sam , Gregorczyk Kevin , Spera Gonzalo , Sonenberg Nahum , Pollak Michael
Published: February 2025

Supplementary Fig. S9: Imaging mass cytometry. (A) Heatmap of signaling markers expression within cell clusters and (B) Neighbourhood analysis showing cell-to-cell interactions over all patients before and after treatment with tomivosertib.
Supplementary Fig. S7 from Phase Ib Pharmacodynamic Study of the MNK Inhibitor Tomivosertib (eFT508) Combined With Paclitaxel in Patients With Refractory Metastatic Breast Cancer
Authors: Ferrario Cristiano , Mackey John , Gelmon Karen A. , Levasseur Nathalie , Sorensen Poul H. , Oo Htoo Zarni , Negri Gian L. , Tse Veronica W.L. , Spencer Sandra E. , Cheng Grace , Morin Gregg B. , del Rincon Sonia , Cotechini Tiziana , Gonçalves Christophe , Hindmarch Charles C.T. , Miller Wilson H. , Amiri Mehdi , Basiri Tayebeh , Villareal-Corpuz Victor , Sperry Sam , Gregorczyk Kevin , Spera Gonzalo , Sonenberg Nahum , Pollak Michael
Published: February 2025

Supplementary Fig. S7: Translatomic profiling. (A) Pairwise correlation among patients for changes in Ribo-seq level after tomivosertib treatment. r denotes Pearson’s correlation coefficient. (B) Heatmap plot and Euclidean distance hierarchical clustering of known p-eIF4E targets with decreased Ribo-seq level in patients.
Supplementary Fig. S5 from Phase Ib Pharmacodynamic Study of the MNK Inhibitor Tomivosertib (eFT508) Combined With Paclitaxel in Patients With Refractory Metastatic Breast Cancer
Authors: Ferrario Cristiano , Mackey John , Gelmon Karen A. , Levasseur Nathalie , Sorensen Poul H. , Oo Htoo Zarni , Negri Gian L. , Tse Veronica W.L. , Spencer Sandra E. , Cheng Grace , Morin Gregg B. , del Rincon Sonia , Cotechini Tiziana , Gonçalves Christophe , Hindmarch Charles C.T. , Miller Wilson H. , Amiri Mehdi , Basiri Tayebeh , Villareal-Corpuz Victor , Sperry Sam , Gregorczyk Kevin , Spera Gonzalo , Sonenberg Nahum , Pollak Michael
Published: February 2025

Supplementary Fig. S5: Translatomic profiling. Scatter plots demonstrating translation efficiency (TE) (top), Ribo-Seq (middle), RNA-Seq) (bottom) the fold change difference between ON MNKi and Pre-MNKi conditions for three different patients, patient 13 (A), patient 12 (B), and patient 16 (C). Only reads aligning with CDS were considered for this analysis. The x-axis represents the normalized number of reads corresponding to the experiment/condition of minimal expression. Red and blue dots denote significantly up or down-regulated mRNAs, respectively (Z-score > 2 and log2 FC > 0.5 for up and Z-score < -2 and log2 FC < -0.5 for down).
Supplementary Table S4 from Response-Adaptive Surgical Timing in Neoadjuvant Immunotherapy Demonstrates Enhanced Pathologic Treatment Response in Head and Neck Squamous Cell Carcinoma
Authors: Mastrolonardo Eric V. , Nunes Kathryn L. , Llerena Pablo , Nikitina Anastasia , Sobol Anastasia , Scott E. Reilly , Tuluc Madalina , Davitt Christopher J.H. , Scher Jessica , Tekumalla Sruti , Mann Derek , Henao Camilo , Jegede Victor , Gargano Stacey , Harshyne Larry A. , Alnemri Angela , Tyshevich Andrey , Kushnarev Vladimir , Chasse Madison , Sookiasian Danielle , Axelrod Rita , Zhan Tingting , Leiby Benjamin E. , Old Matthew , Seim Nolan , Mahoney My G. , Martinez-Outschoorn Ubaldo , Cognetti David M. , Curry Joseph M. , Prendergast George , Argiris Athanassios , South Andrew P. , Linnenbach Alban J. , Johnson Jennifer M. , Luginbuhl Adam J.
Published: February 2025

Supplement Table 4A-4B: The following is a comprehensive list of the top 20 functional enrichments in the B cell (A) and CAF2 (B) gene sets utilizing STRING database to analyze protein-protein interaction pairs among the leading edge.
Supplementary Table S2 from Response-Adaptive Surgical Timing in Neoadjuvant Immunotherapy Demonstrates Enhanced Pathologic Treatment Response in Head and Neck Squamous Cell Carcinoma
Authors: Mastrolonardo Eric V. , Nunes Kathryn L. , Llerena Pablo , Nikitina Anastasia , Sobol Anastasia , Scott E. Reilly , Tuluc Madalina , Davitt Christopher J.H. , Scher Jessica , Tekumalla Sruti , Mann Derek , Henao Camilo , Jegede Victor , Gargano Stacey , Harshyne Larry A. , Alnemri Angela , Tyshevich Andrey , Kushnarev Vladimir , Chasse Madison , Sookiasian Danielle , Axelrod Rita , Zhan Tingting , Leiby Benjamin E. , Old Matthew , Seim Nolan , Mahoney My G. , Martinez-Outschoorn Ubaldo , Cognetti David M. , Curry Joseph M. , Prendergast George , Argiris Athanassios , South Andrew P. , Linnenbach Alban J. , Johnson Jennifer M. , Luginbuhl Adam J.
Published: February 2025

Supplement Table 2A-2E: GSEA quantitative data for the B cell gene sets and CAF2 gene set for Post- vs Pre-treatments Responders vs Non responders. The following is a comprehensive list of supervised B-cell (A-C) and CAF (D-E) enrichment scores, normal enrichment scores, p-values, and q-values for the included gene sets.
Supplementary Table S6 from Phase I/II Study of the Aurora Kinase A Inhibitor Alisertib and Pembrolizumab in Refractory, Rb-Deficient Head and Neck Squamous Cell Carcinomas
Authors: Johnson Faye M. , O’Hara Madison P. , Yapindi Lacin , Jiang Peixin , Tran Hai T. , Reuben Alexandre , Xiao Weihong , Gillison Maura L. , Sun Xiaowen , Khalaf Alexander , Lee J. Jack , Sastry Jagannadha K. , Ghosh Soma
Published: February 2025

Supplementary Table S6. PK parameters for alisertib.
Supplementary Figure 2 from Safety and Tolerability of Letetresgene Autoleucel (GSK3377794): Pilot Studies in Patients with Advanced Non–Small Cell Lung Cancer
Authors: Altan Mehmet , Lopes Gilberto , Hiltermann T. Jeroen N. , Govindan Ramaswamy , Villaruz Liza C. , Calvo Emiliano , Edelman Martin J. , Furqan Muhammad , Neal Joel , Felip Enriqueta , Carlisle Jennifer W. , Heymach John V. , O’Cearbhaill Róisín Eilish , Zauderer Marjorie , Chisamore Michael , Corigliano Ellie , Eleftheriadou Ioanna , Zajic Stefan , Jenkins Ben , Goodison Sophia , Suchindran Sunil , Ramos-Hernandez Natalia , Tarek Nidale , Schoenfeld Adam J.
Published: February 2025

Supplementary Figure 2. Single-arm study – Patient disposition
Supplemental Methods S1 from Phase I/II Study of the Aurora Kinase A Inhibitor Alisertib and Pembrolizumab in Refractory, Rb-Deficient Head and Neck Squamous Cell Carcinomas
Authors: Johnson Faye M. , O’Hara Madison P. , Yapindi Lacin , Jiang Peixin , Tran Hai T. , Reuben Alexandre , Xiao Weihong , Gillison Maura L. , Sun Xiaowen , Khalaf Alexander , Lee J. Jack , Sastry Jagannadha K. , Ghosh Soma
Published: February 2025

Supplemental Methods S1
Supplementary Data 1 from The Landscape of ctDNA in Appendiceal Adenocarcinoma
Authors: White Michael G. , Zeineddine Mohammad A. , Fallon Eleanor A. , Zeineddine Fadl A. , Dansby Julia , Chowdhury Saikat , Hornstein Nicholas , Yousef Abdelrahman , Yousef Mahmoud , Bhutiani Neal , Gu Yue , Kee Bryan , Dasari Arvind , Overman Michael J. , Raghav Kanwal , Kopetz Scott , Uppal Abhineet , Taggart Melissa , Newhook Timothy , Fournier Keith , Helmink Beth , Drusbosky Leylah M. , Shen John Paul
Published: February 2025

Appendiceal Adenocarcinoma Circulating Mutational Profiles
Supplementary Table S8 from Aberrantly Expressed Mitochondrial Lipid Kinase, AGK, Activates JAK2–Histone H3 Axis and BCR Signal: A Mechanistic Study with Implication in CLL Therapy
Authors: Mamidi Murali K. , Sinha Sutapa , Mendez Mariana T. , Sanyal Tapojyoti , Mahmud Hasan , Kay Neil E. , Gupta Mamta , Xu Chao , Vesely Sara K. , Mukherjee Priyabrata , Holter Chakrabarty Jennifer , Ghosh Asish K.
Published: February 2025

Supplementary Table S8. Pathway Enrichment Analysis and Prediction.
Supplementary Table S5 from Aberrantly Expressed Mitochondrial Lipid Kinase, AGK, Activates JAK2–Histone H3 Axis and BCR Signal: A Mechanistic Study with Implication in CLL Therapy
Authors: Mamidi Murali K. , Sinha Sutapa , Mendez Mariana T. , Sanyal Tapojyoti , Mahmud Hasan , Kay Neil E. , Gupta Mamta , Xu Chao , Vesely Sara K. , Mukherjee Priyabrata , Holter Chakrabarty Jennifer , Ghosh Asish K.
Published: February 2025

Supplementary Table S5. Target genes of the AKT pathway.
Supplementary Table S3 from Aberrantly Expressed Mitochondrial Lipid Kinase, AGK, Activates JAK2–Histone H3 Axis and BCR Signal: A Mechanistic Study with Implication in CLL Therapy
Authors: Mamidi Murali K. , Sinha Sutapa , Mendez Mariana T. , Sanyal Tapojyoti , Mahmud Hasan , Kay Neil E. , Gupta Mamta , Xu Chao , Vesely Sara K. , Mukherjee Priyabrata , Holter Chakrabarty Jennifer , Ghosh Asish K.
Published: February 2025

Supplementary Table S3. List of Genes Regulated by Constitutively Active JAK2 in Steady-State CLL Cells.
Supplementary Figure S2 from Aberrantly Expressed Mitochondrial Lipid Kinase, AGK, Activates JAK2–Histone H3 Axis and BCR Signal: A Mechanistic Study with Implication in CLL Therapy
Authors: Mamidi Murali K. , Sinha Sutapa , Mendez Mariana T. , Sanyal Tapojyoti , Mahmud Hasan , Kay Neil E. , Gupta Mamta , Xu Chao , Vesely Sara K. , Mukherjee Priyabrata , Holter Chakrabarty Jennifer , Ghosh Asish K.
Published: February 2025

Supplementary Figure S2. Tyrosine phosphorylation status of JAK2.
Data from Framework for the Pathology Workup of Metastatic Castration-Resistant Prostate Cancer Biopsies
Authors: Haffner Michael C. , Morris Michael J. , Ding Chien-Kuang C. , Sayar Erolcan , Mehra Rohit , Robinson Brian , True Lawrence D. , Gleave Martin , Lotan Tamara L. , Aggarwal Rahul , Huang Jiaoti , Loda Massimo , Nelson Peter S. , Rubin Mark A. , Beltran Himisha
Published: February 2025

Abstract
Lineage plasticity and histologic transformation from prostate adenocarcinoma to neuroendocrine (NE) prostate cancer (NEPC) occur in up to 15% to 20% of patients with castration-resistant prostate cancer (CRPC) as a mechanism of treatment resistance and are associated with aggressive disease and poor prognosis. NEPC tumors typically display small cell carcinoma morphology with loss of androgen receptor (AR) expression and gain of NE lineage markers. However, there is a spectrum of phenotypes that are observed during the lineage plasticity process, and the clinical significance of mixed histologies or those that co-express AR and NE markers or lack all markers is not well defined. Translational research studies investigating NEPC have used variable definitions, making clinical trial design challenging. In this manuscript, we discuss the diagnostic workup of metastatic biopsies to help guide the reproducible classification of phenotypic CRPC subtypes. We recommend classifying CRPC tumors based on histomorphology (adenocarcinoma, small cell carcinoma, poorly differentiated carcinoma, other morphologic variant, or mixed morphology) and IHC markers with a priority for AR, NK3 homeobox 1, insulinoma-associated protein 1, synaptophysin, and cell proliferation based on Ki-67 positivity, with additional markers to be considered based on the clinical context. Ultimately, a unified workup of metastatic CRPC biopsies can improve clinical trial design and eventually practice.
Bcl-Xl Protects ASS1-Deficient Cancers From Arginine Starvation Induced Apoptosis
Authors: Panda Prashanta Kumar. , Paschoalini Mafra Ana Carolina. , Bastos Alliny C. S. , Cao Li , Serra Bonet Maria , Brashears Caitlyn B. , Chen Ethan Yang. , Benedict-Hamilton Heather M. , Ehrhardt William , Bomalaski John , Dehner Carina , Rogers Leonard C. , Oyama Toshinao , Van Tine Brian A.
Published: February 2025

Purpose: Argininosuccinate Synthetase 1 (ASS1) silencing in carcinomas and sarcomas leads to a dependence on extracellular arginine for survival. Arginine deprivation therapies, like PEGylated arginine deiminase (ADI-PEG20), have shown limited effectiveness, which may be due to underlying mechanisms that inhibit apoptosis. Experimental Design: The effects of ADI-PEG20 on cell cycle regulation, apoptosis, and Bcl-xL-mediated survival pathways in ASS1-deficient cancer cells were determined. The mechanism of cell death protection was determined by assessing caspase and PARP cleavage, CDK2 activity, MCL1 expression, and the interactions between Bcl-xL, Bax, and Bak. In vitro synergy was determined, and in vivo efficacy was modeled. Results: Treatment with ADI-PEG20 led to reduced CDK2 activity and inhibited cell cycle progression but did not induce significant cell death. Bcl-xL was found to bind to Bax and Bak, preventing the initiation of apoptosis despite arginine starvation. Inhibition of Bcl-xL allowed proapoptotic Bax and Bak to initiate the intrinsic apoptosis pathway, leading to increased cell death. This was found to be synergistic in vitro and efficacious in combination in vivo. Conclusions: The study identifies Bcl-xL as a key factor limiting the efficacy of arginine starvation therapies. Combining Bcl-xL inhibitors with arginine deprivation strategies may overcome this resistance and enhance therapeutic outcomes. These findings provide a strong preclinical rationale for testing this combination approach in Phase 1 clinical trials for ASS1-deficient cancers.
Tumor Microenvironment: Obstacles and Opportunities for T Cell–Based Tumor Immunotherapies
Authors: Hu Miao-Miao , Zhao Ying , Zhang Nan , Gong Fang-Yuan , Zhang Wei , Dong Chun-Sheng , Dai Jian-Feng , Wang Jun
Published: February 2025

The complex composition and dynamic change of the tumor microenvironment (TME), mainly consisting of tumor cells, immune cells, stromal cells, and extracellular components, significantly impede the effector function of cytotoxic T lymphocytes (CTL), thus representing a major obstacle for tumor immunotherapies. In this review, we summarize and discuss the impacts and underlying mechanisms of major elements in the TME (different cell types, extracellular matrix, nutrients and metabolites, etc.) on the infiltration, survival, and effector functions of T cells, mainly CD8+ CTLs. Moreover, we also highlight recent advances that may potentiate endogenous antitumor immunity and improve the efficacy of T cell–based immunotherapies in patients with cancer by manipulating components inside/outside of the TME. A deeper understanding of the effects and action mechanisms of TME components on the tumor-eradicating ability of CTLs may pave the way for discovering new targets to augment endogenous antitumor immunity and for designing combinational therapeutic regimens to enhance the efficacy of tumor immunotherapies in the clinic.
Supplementary Table S6 from Alcohol Consumption Does not Modify the Polygenic Risk Score–Based Genetic Risk of Breast Cancer in Postmenopausal Women: Atherosclerosis Risk in Communities Study
Authors: Zhang Minghui , Ru Meng , Zhang Jingning , Wang Ziqiao , Lu Jiayun , Butler Kenneth R. , Chatterjee Nilanjan , Couper David J. , Prizment Anna E. , Soori Mehrnoosh M. , Visvanathan Kala , Zahnow Cynthia A. , Joshu Corinne E. , Platz Elizabeth A.
Published: February 2025

Supplementary Table S6: The association between current ethanol intake and breast cancer incidence stratified by whether the participants ever had a mammogram and by race in ARIC (1990-2015)