bluuebunny/crossref_metadata_2025 huggingface dataset:
Effectiveness of moisturising therapy in treating nipple trauma: a systematic review protocol
Authors: Nakamura Maya , Luo Yunjie , Ebina Yasuhiko
Published: September 2024

Introduction

Breastfeeding is crucial in infant nutrition and bonding, recommended for at least 6 months and up to 2 years postpartum, providing health benefits for both infants and mothers. However, nipple trauma is common among lactating mothers. Moisturising therapies, such as hydrogel application, aim to promote the healing of nipple wounds. Despite various interventions proposed, comprehensive reviews evaluating the efficacy of moisturising therapies for nipple trauma are lacking. This review aims to appraise the effectiveness of moisturising therapy, particularly tailored for nipple trauma in lactating women.

Methods and analysis

This systematic review protocol adheres to the Preferred Reporting Items for Systematic Review and Meta-Analysis Protocols guidelines and is registered in the International Prospective Register of Systematic Reviews. The focus will be on both randomised and non-randomised controlled trials addressing the treatment of nipple trauma in lactating women. In this context, ‘moisturising therapy’ is categorised as a non-pharmacological intervention applied directly to the nipple, excluding treatments for bacterial or fungal infections. The primary outcomes will include measures of the healing efficiency of nipple trauma and reduction in nipple pain. Searches will be conducted without date restrictions across multiple databases, including PubMed, CINAHL, the Cochrane Library, Web of Science, CiNii Research and Ichushi-Web, in addition to exploration of grey literature. Two independent reviewers will manage all stages of the review process, under the supervision of a third reviewer. Data extraction will encompass participant demographics, study methodologies, sample specifics and measured outcomes. Quality assessment will be conducted using the Joanna Briggs Institute Appraisal Checklist Tools.

Ethics and dissemination

Ethics approval is not required for this study. The findings of this review will be disseminated through academic publications, detailed reports and presentations at relevant conferences.

PROSPERO registration number

CRD42023481761.
Financial toxicity of cancer care in sub-Saharan Africa: protocol for a systematic review
Authors: Ida Akiko , Htay Zin Wai
Published: September 2024

Introduction

In sub-Saharan Africa (SSA), the number of cancer deaths is expected to double between 2020 and 2030; however, financial costs remain a barrier to accessing cancer treatment and care. There is an evidence gap on financial toxicity related to cancer care in SSA, both for the patient and for the family members providing care. Against this background, this review aims to analyse cancer care-related financial toxicity for the patient and family caregivers in SSA.

Methods and analysis

A comprehensive search of peer-reviewed articles in the English language reporting the financial burden of cancer care on patients and family caregivers in SSA will be conducted using PubMed, Scopus and Web of Science from 1 January 2000 to 13 October 2023. Two researchers will independently review the titles, abstracts and full-text articles, and any disagreements will be resolved through consensus. A risk of bias assessment will be conducted using the assessment tools from the Joanna Briggs Institute Critical Appraisal Checklist. A quantitative and narrative synthesis of included studies, including the prevalence of financial toxicity of cancer care in SSA, will be developed. The review will be reported following the Preferred Reporting Items for Systematic Reviews and Meta-Analyses guidelines.

Ethics and dissemination

Ethical review is not required because this review draws on published literature. The results will be presented at leading cancer and public health conferences, published in peer-reviewed journals and disseminated via website posts and social media channels to improve access to cancer care and to facilitate evidence-based policymaking in SSA.

PROSPERO registration number

CRD42023469011.
Preterm birth as a determinant of neurodevelopment and cognition in children (PRENCOG): protocol for an exposure-based cohort study in the UK
Authors: Boardman James P , Andrew Ruth , Bastin Mark E , Battersby Cheryl , Batty G David , Cábez Manuel Blesa , Cox Simon R , Hall Jill , Ingledow Lauren , Marioni Riccardo E , Modi Neena , Murphy Lee , Quigley Alan J , Reynolds Rebecca M , Richardson Hilary , Stock Sarah J , Thrippleton Michael J , Tsanas Athanasios , Whalley Heather C
Published: September 2024

Introduction

Preterm birth (PTB) is strongly associated with encephalopathy of prematurity (EoP) and neurocognitive impairment. The biological axes linking PTB with atypical brain development are uncertain. We aim to elucidate the roles of neuroendocrine stress activation and immune dysregulation in linking PTB with EoP.

Methods and analysis

PRENCOG (PREterm birth as a determinant of Neurodevelopment and COGnition in children: mechanisms and causal evidence) is an exposure-based cohort study at the University of Edinburgh. Three hundred mother–infant dyads comprising 200 preterm births (gestational age, GA <32 weeks, exposed) and 100 term births (GA >37 weeks, non-exposed), will be recruited between January 2023 and December 2027. We will collect parental and infant medical, demographic, socioeconomic characteristics and biological data which include placental tissue, umbilical cord blood, maternal and infant hair, infant saliva, infant dried blood spots, faecal material, and structural and diffusion MRI. Infant biosamples will be collected between birth and 44 weeks GA.

EoP will be characterised by MRI using morphometric similarity networks (MSNs), hierarchical complexity (HC) and magnetisation transfer saturation imaging (MTsat). We will conduct: first, multivariable regressions and statistical association assessments to test how PTB-associated risk factors (PTB-RFs) relate to MSNs, HC and or MTsat; second, structural equation modelling to investigate neuroendocrine stress activation and immune dysregulation as mediators of PTB-RFs on features of EoP. PTB-RF selection will be informed by the variables that predict real-world educational outcomes, ascertained by linking the UK National Neonatal Research Database with the National Pupil Database.

Ethics and dissemination

A favourable ethical opinion has been given by the South East Scotland Research Ethics Committee 02 (23/SS/0067) and NHS Lothian Research and Development (2023/0150). Results will be reported to the Medical Research Council, in scientific media, via stakeholder partners and on a website in accessible language (https://www.ed.ac.uk/centre-reproductive-health/prencog).
Global contribution of suicide to maternal mortality: a systematic review protocol
Authors: Simmons Emma , Gong Jenny , Daskalopoulou Zoe , Quigley Maria A , Alderdice Fiona , Harrison Siân , Fellmeth Gracia
Published: September 2024

Introduction

Maternal suicide is a significant contributor to maternal mortality with devastating consequences for women, families and society. Maternal mortality reporting systems differ across countries and there is no up-to-date overview of maternal suicide deaths globally. This systematic review aims to synthesise the evidence on maternal suicide. The primary objective is to determine the contribution of suicide towards maternal mortality globally and explore differences between geographical regions. The secondary objectives are to summarise the availability and quality of data globally and to describe how suicide deaths are classified across different countries.

Methods and analysis

This protocol follows the Preferred Reporting Items for Systematic Review and Meta-Analysis Protocols guidelines. Medline, Embase, PsycINFO, Global Health and CINAHL databases and the grey literature were searched with no date or language restrictions. Observational studies, national surveys and reports that present data on maternal deaths due to suicide occurring during pregnancy, intrapartum and in the postpartum period will be included. Screening, data extraction and quality assessment will be conducted independently by two reviewers. Results will be summarised narratively. If sufficient outcome data are available, random-effects meta-analyses will be conducted to determine global pooled estimates of suicide-related maternal mortality rates and the proportion of maternal deaths attributable to suicide.

Ethics and dissemination

Ethical approval is not required for this systematic review. Results will be written up for publication in a peer-reviewed journal and findings will be shared at national and international conferences.

PROSPERO registration number

CRD42023429072.
Quantum vortices in fermionic superfluids: from ultracold atoms to neutron stars.
Authors: Magierski Piotr , Barresi Andrea , Makowski Andrzej , Pcak Daniel , Wlazłowski Gabriel
Published: September 2024

Superfluid dilute neutron matter and ultracold gas, close to the unitary regime, exhibit several similarities. Therefore, to a certain extent, fermionic ultracold gases may serve as emulators of dilute neutron matter, which forms the inner crust of neutron stars and is not directly accessed experimentally. Quantum vortices are one of the most significant properties of neutron superfluid, essential for comprehending neutron stars’ dynamics. The structure and dynamics of quantum vortices as a function of pairing correlations’ strength are being investigated experimentally and theoretically in ultracold gases. Certain aspects of these studies are relevant to neutron stars. We provide an overview of the characteristics of quantum vortices in s-wave-type fermionic and electrically neutral superfluids. The main focus is on the dynamics of fermionic vortices and their intrinsic structure.
Opto-electro-thermal simulation of heat transfer in monocrystalline silicon solar cells
Authors: Tarifa Allyson , Lee Eon Soo , Ravindra Nuggehalli M.
Published: September 2024

In the area of photovoltaics, monocrystalline silicon solar cells are ubiquitously utilized in buildings, commercial, defense, residential, space, and transportation applications throughout the world. Their performance is impeded by the heating of the cells during their interaction with the incident solar radiation. The development of reliable computer simulations that effectively model the thermal response of monocrystalline silicon solar cells is critical for their design, fabrication, and utilization. This work employs a novel computer simulation to incorporate the optical, electrical, and thermal properties of silicon in the thermal analysis of silicon solar cells. After establishing the theoretical principles and the values of these properties, the results of the simulation are compared with other established studies. The analysis shows that the percentage difference in solar cell temperatures between simulation and literature is within a range of 0.354–0.487%. The proposed simulation shows that the visible range of wavelengths is the dominant source of heating in commercial monocrystalline silicon solar cells.
A Consortium Blockchain-Based Edge Task Offloading Method for Connected Autonomous Vehicles
Authors: Liu Bowen , Tian Hao , Shen Zhijie , Xu Yueyue , Dou Wanchun
Published: September 2024

In recent years, the proliferation of Connected Autonomous Vehicles(CAV) has revolutionizing the transportation industry. However, these vehicles often face limitations in terms of local computing resources, leading to the need for offloading interactive-intensive application tasks to servers for processing. Traditional paradigm has its limitations in meeting the demands of massive task processing. The combination of Web3.0 and edge computing offers users high-reliable, low-latency, and highly flexible services. Nevertheless, the new paradigm also presents its own challenges such as ensuring privacy data protection, and reducing the time and energy costs associated with task offloading. To tackle these challenges, a edge task offloading framework based on consortium blockchain for CAVs has been developed. Within this framework, a consortium blockchain-based interaction-intensive task offloading method, called CBIToMe, has been designed. CBIToMe specifically addresses the multi-stage nature of interactive-intensive CAV tasks and aims to minimize task completion time and offloading costs, particularly when the waiting time for interaction is uncertain. Additionally, CBIToMe effectively utilizes consortium blockchain technology to safeguard the CAV privacy data. Results from experiments conducted in various scenarios demonstrate that CBIToMe outperforms three representative methods, showcasing its superior performance.
International Sign: Nature and Nomenclature
Authors: Kusters Annelies
Published: September 2024

This article explores the nature of International Sign (IS), a linguistic phenomenon emerging from international deaf interactions. It examines various terms such as Gestuno, cross-signing, International Sign, and International Sign Language, revealing differing perspectives on IS as a lexicon, a language, or a dynamic process. The debate on IS's classification draws parallels with contact languages, lingua francas, and national sign languages. The discussion extends to methodological approaches in IS research, contrasting studies focused on IS as a product with those exploring IS as a process and considering how the combination of experimental and ethnographic studies enriches the understanding of IS's nature. I conclude that despite ongoing debates regarding its linguistic status, the role of IS as a lingua franca indicates a future in which it may gain broader recognition and wider influence.
The water channels aquaporin-1 and aquaporin-3 interact with and affect the cell polarity protein Scribble in 3D in vitro models of breast cancer
Authors: Edamana Sarannya , Login Frédéric H. , Riishede Andreas , Dam Vibeke S. , Kirkegaard Teresa , Nejsum Lene N.
Published: September 2024

Overexpression of the water channels aquaporin-1 and aquaporin-3 reduced levels of the key polarity protein Scribble at cell-cell junctions, suggesting potential implications in breast cancer progression and metastasis.
Experimental Characterizing Mechanical and Physical Properties of Water Lily Polyester Matrix Composite Materials
Authors: Kebede Melese Shiferaw , Ayaliew Tesfa Guadie , Demlie Solomon Mesfin
Published: September 2024

The use of natural fibers (NFs) in polymer composites is a modern trend aimed at developing materials with numerous benefits, including low cost, environmental friendliness, biodegradability, and high specific mechanical performance. Ethiopia is abundant in NFs such as palm trees, sisal, water hyacinth, and the newly emerging water lilies. In areas like Lake Tana, Ethiopia, water lilies, much like water hyacinths, negatively impact water surfaces by covering them and reducing their surface area. Therefore, analyzing the mechanical and physical properties of composites reinforced with these fibers is crucial for diverse structural and industrial applications, considering factors such as tensile strength, flexural strength, and hardness. In this study, a composite material consisting of a water lily–polyester resin matrix was prepared with varying matrix‐to‐fiber weight ratios (90/10 wt%, 80/20 wt%, 70/30 wt%, 60/40 wt%, 50/50 wt%, and 40/60 wt%). The experimental data revealed that the optimal mechanical properties, including maximum tensile strength, flexural strength, and hardness, were achieved with a composition of 60% matrix material and 40% reinforcing material. These chopped water lily fiber–reinforced polyester composites demonstrate promising mechanical and physical properties, making them suitable for various applications, similar to other NFs like sisal and palm. Further studies, such as thermal analysis, could enhance the understanding and utilization of these composites. The fabricated water lily composite can serve as a viable alternative material for applications in automobile interior parts, building components, and electronic packages.
Exploring Changes in Barriers and Facilitators for Physical Activity during the Retirement Transition: A Qualitative Interview Study Based on the Behavior Change Wheel
Authors: Vansweevelt Nina , van Uffelen Jannique , Boen Filip , Seghers Jan
Published: September 2024

The retirement transition has been associated with a decrease in total physical activity (PA). However, little is known about effective interventions to counteract this decrease. Prior to designing interventions, more information is needed about the changes in PA and in determinants of PA around this life change. Therefore, the first aim of this study was to investigate perceived changes in PA. The second aim was to explore the changes in PA barriers and facilitators experienced by recent retirees. Semistructured interviews were conducted with 30 retirees six to ten months after their retirement transition. The interview guide consisted of open questions as well as specific questions based on the “behavior change wheel” (BCW). The analysis of the interviews involved an initial inductive reflexive thematic analysis, followed by deductive mapping of the themes onto the COM‐B categories, which are an integral part of the BCW. Most retirees experienced an increase in PA. The first inductive theme regarding changes in barriers and facilitators for PA was labelled as “changes in time availability and time structure.” For instance, one of the facilitators was that increased time availability led to more PA. However, as a barrier, it was noted that this sometimes resulted in increased procrastination as well. The second theme was labelled “emotional/mental changes” and included facilitators such as a decreased feeling of being useful with consequent uptake of new purposeful (physical) activities. Conversely, a perceived barrier was the idea that reduced PA is allowed after retirement. The third theme, “social changes,” highlights for instance the facilitator that many participants expressed an increased desire to expand their social network for shared (physical) activities. The identified themes were mapped onto the COM‐B categories and potential intervention functions were discussed.
Isolation and Identification of Yeasts in Marcha, a Rice Wine Starter Culture From Nepal
Authors: Karmacharya Jayram , Shrestha Prasansah , Karki Tika Bahadur , Pant Om Prakash
Published: September 2024

Nepal harbors a rich diversity of cultures and traditions, including the unique practice of creating an indigenous grain called Marcha by various ethnic groups such as Newar, Tamang, Sherpa, Rai, Limbu, Gurung, Magar, and Tharu people. In the eastern region of Nepal, Marcha producers utilize over 42 different plants, including Vernonia cinerea, Clematis grewiae, Polygala arillata, Buddleja asiatica, Inula sp., Scoparia, and more, which shows regional diversity. The primary objective of the study was to explore the diversity of yeast present in Marcha samples. The studied Marcha samples were collected from 10 different geographic regions of Nepal, which included altogether 27 samples. The isolates were grouped into Groups A, B, and C based on morphological and physiological characteristics. Notably, Group B yeast displayed high amylase production, an enzyme responsible for starch breakdown, and exhibited the ability to produce ethanol. To further investigate the potential of these isolates, stress exclusion tests were conducted, with 30 isolates (70%) showing positive responses. The yeast isolates demonstrated resilience to high glucose concentrations of up to 36% (w/v) at a pH above 3 and a temperature of 37°C, which is the ideal growth condition. The study observed a direct correlation between the yeast isolates’ ethanol production capabilities and their tolerance to different ethanol concentrations. Considering that all tested Marcha samples contained yeast capable of starch degradation and ethanol production, it was expected that these yeast isolates would actively participate in the fermentation of starch‐based alcohol.
A Single‐Reactor System for Simultaneous Pretreatment and Fermentation of POME for Bioethanol Production
Authors: Deb Nibedita , Rahman Tawfkur , Alam Md. Zahangir , Miah Md. Shohidullah , Kamal Reashad
Published: September 2024

The objective of this study was to develop an efficient method for enhancing the production of bioethanol in a single‐reactor system (SRS) by implementing acid–base pretreatment and enzymatic hydrolysis techniques, thereby eliminating differentiation and removal processes. The aim was to establish a process for bioethanol synthesis using hydrolyzed palm oil mill effluent (POME) and a locally sourced cellulase enzyme. The pretreatment and enzymatic hydrolysis methods were successfully optimized, resulting in a maximum yield of reducing sugars of 26.6 g/L (53.14%). To achieve the highest bioethanol yield, fermentation was carried out using both the one‐factor‐at‐a‐time (OFAT) and face‐centered central composite design (FCCCD) approaches. The OFAT approach was employed to obtain the maximum bioethanol production, which yielded 6.75% v/v of bioethanol from the hydrolyzed POME using the same bioreactor. In the case of the FCCCD process, the optimal conditions led to a bioethanol production of 7.64% v/v during the fermentation stage. Kinetic analyses of the bioethanol produced revealed a specific growth rate (μ) of 0.198 h−1 and a specific product formation rate (qp) of 0.239 h−1 after 3 days of fermentation. These findings highlight a promising strategy for efficient management of POME through the production of biofuels, which could contribute to the economic growth of the country.
The Predictive Value of Time‐Varying Noninvasive Scores on Long‐Term Prognosis of NAFLD in South Korea
Authors: Chung Sung Won , Park Min Kyung , Zhang Xiao , Wang Tongtong , Jemielita Thomas , Fernandes Gail , Engel Samuel S. , Jang Heejoon , Lee Yun Bin , Cho Eun Ju , Lee Jeong-Hoon , Yu Su Jong , Yoon Jung-Hwan , Kim Yoon Jun
Published: September 2024

Background. This study aimed to examine whether repeated measurements on noninvasive fibrosis scores during follow‐up improve long‐term nonalcoholic fatty liver disease (NAFLD) outcome prediction. Methods. A cohort study of 2,280 NAFLD patients diagnosed at the Seoul National University Hospital from 2001 to 2015 was conducted. Multivariable Cox regression models with baseline and designated time‐point measurements of the fibrosis‐4 index (FIB‐4) and NAFLD fibrosis score (NFS) were used to assess the association between these scores and overall mortality, liver‐related outcomes, and cardiovascular events. Results. Higher baseline NFS (high versus low probability for advanced fibrosis groups) was associated with higher risk of mortality (adjusted hazard ratio (aHR), (95% confidence interval (CI)), 2.80, [1.39–5.63]) and liver‐related outcomes (3.70, [1.27–10.78]). Similar findings were observed for the association of baseline FIB‐4 with mortality (2.49, [1.46–4.24]) and liver‐related outcomes (11.50, [6.17–21.44]). In models considering designated time‐point measurements of the scores, stronger associations were noted. For NFS, a higher time‐point measurement was associated with a significantly higher risk of mortality (3.01, [1.65–5.49]) and liver‐related outcomes (6.69, [2.62–17.06]). For FIB‐4, higher time‐point measurements were associated with significantly higher mortality (3.01, [1.88–4.82]) and liver‐related outcomes (13.26, [6.89–25.53]). An annual increase in FIB‐4 (2.70, [1.79–4.05]) or NFS (4.68, [1.52–14.44]) was associated with an increased risk of liver‐related outcomes. No association between NFS/FIB‐4 and risk of cardiovascular events was observed in both models. Conclusions. Higher aHRs describing the associations of FIB‐4/NFS with overall mortality and liver‐related outcomes were observed in the models that included designated time‐point measurements of the scores. In addition to the baseline measurement, a routine monitoring on these scores may be important in predicting prognosis of NAFLD patients.
Lattice Structure‐Based Model to Calculate Grüneisen Parameter for Metallic Nanomaterials
Authors: Mamand S. M.
Published: September 2024

In the present study, a model was derived for the first time to calculate the nanosize/shape‐dependence of the Grüneisen parameter for freestanding metallic nanomaterials of Cu, Ag, and Au based on thermodynamic‐related parameters, thermal expansion α, bulk modulus B, molar volume V, and specific heat C. Two types of nanomaterial shapes are taken into consideration: spherical and wire. Calculations were performed for the size and shape dependence of α, B, and C by using equations based on the effect of the surface‐to‐volume atomic ratio (N/n), whereas the nanosize dependence of V was calculated according to an equation derived based on the bond length variation for the first time. The calculation results of the related parameters were compared with the available experimental data. The outcomes demonstrated that the suggested models significantly impacted the size down to 15 nm. A strong agreement between theory and experiments demonstrated the suitableness of the proposed model. Accordingly, the Grüneisen parameter was calculated, and outcomes indicate that the Grüneisen parameter decreases as the size decreases. Reducing the lattice structure‐dependent Grüneisen parameter was explained and discussed.
Measuring Travel Time Reliability for Urban Residents’ Commutes via the Integration of Information Entropy and Standard Deviation
Authors: Zhan Junjun
Published: September 2024

Travel Time Reliability (TTR) plays a pivotal role in commuting. Nevertheless, existing measurement methods are not specifically designed for commuting scenarios, and their direct application to assess TTR for commuting may yield results incongruent with actual commuting conditions, as they overly rely on measures like mean and percentiles. Drawing on the cyclical characteristics of commuting, the study has established a TTR measurement model based on information entropy and standard deviation, tailored to individual commuters. By selecting commuting data from extensive travel datasets and applying both this model and conventional measurement methods, the focus is on quantitatively analyzing TTR for metro commuters and car commuters under various feature conditions, with a particular emphasis on commuting to work. The objective is to verify the feasibility and advantages of the proposed model. The research indicates that, compared to typical measurement methods, this model more accurately reflects TTR for commuting purposes. The results underscore a significantly superior TTR for metro commuters over car commuters. Distance and departure time exert a substantial impact on the TTR of car commuters, while distance and transfer times moderately influence the TTR of metro commuters. These findings serve as a crucial foundation for enhancing the quality of commuting experiences.
Effective Technique Using Combined CO2 Laser and Pulsed Dye Laser for Facial Angiofibromas Management in Tuberous Sclerosis
Authors: Lodi Giuseppe , Cannarozzo Giovanni , Fusco Irene , Zingoni Tiziano , Campione Elena , Sannino Mario
Published: September 2024

Background. Facial angiofibromas (FAs) are a dermatological characteristic which are typically linked to tuberous sclerosis (TS). Aim. We discuss our experience, highlighting a rare occurrence of multiple FAs in a young patient, successfully treated with ablative CO2 laser combined with PDL therapy. Methods. A 23‐year‐old male patient affected by TS who presents multiple erythematous and colored papules/nodules located on the face, mainly concentrated around nose, perinasal area, cheeks, and chin area, was treated with a combination of ablative CO2 laser and a pulsed dye laser. The patient underwent 3 sessions of combined treatment with CO2 and pulsed dye laser. The intralesional dye laser treatment was administered immediately after the CO2 laser session. The time interval between the combined laser treatments was approximately two months. Results. After 4 months from the last laser treatment session, most of the facial erythematous and protruding lesions had improved. Following these procedures, the patient did not experience complications or severe adverse reaction. Conclusion. The combined use of the CO2 and dye laser has been proved to be a safe and effective treatment for multiple FAs in the young patient affected by tuberous sclerosis.
Supplementary Methods from The macrophage-associated lncRNA MALR facilitates ILF3 liquid-liquid phase separation to promote HIF1α signaling in esophageal cancer
Authors: Liu Jia , Liu Ze-Xian , Li Jia-Jun , Zeng Zhao-Lei , Wang Jin-Hong , Luo Xiao-Jing , Wong Chau-Wei , Zheng Jia-Bo , Pu Heng-Ying , Mo Hai-yu , Sheng Hui , Wu Qi-Nian , Li Hao , Wan Gang , Li Bo , Wang De-shen , Xu Rui-Hua , Ju Huai-Qiang
Published: September 2024

Supplementary Methods
Supplementary Figure S1 from Germline cancer gene expression quantitative trait loci are associated with local and global tumor mutations
Authors: Liu Yuxi , Gusev Alexander , Kraft Peter
Published: September 2024

Supplementary Figure S1
Supplementary Data from DNA methylation landscapes of prostate cancer brain metastasis are shaped by early driver genetic alterations
Authors: Gallon John , Rodriguez-Calero Antonio , Benjak Andrej , Akhoundova Dilara , Maletti Sina , Amstutz Ursula , Hewer Ekkehard , Genitsch Vera , Fleischmann Achim , Rushing Elisabeth J. , Grobholz Rainer , Fischer Ingeborg , Jochum Wolfram , Cathomas Gieri , Osunkoya Adeboye O. , Bubendorf Lukas , Moch Holger , Thalmann George , Feng Felix Y. , Gillessen Silke , Ng Charlotte K.Y. , Rubin Mark A. , Piscuoglio Salvatore
Published: September 2024

Supplementary Tables
Supplementary file 4: Full original pictures. from circFNDC3B accelerates vasculature formation and metastasis in oral squamous cell carcinoma
Authors: Li Xiang , Wang Chenxing , Zhang Hang , Li Yangjie , Hou Deqiang , Liu Dingshan , Xu Rongyao , Cheng Jie , Liu Lai-Kui , Fu Yu , Ye Jinhai , Jiang Hongbing
Published: September 2024

Full original pictures.
Table S2 from Spatial positioning of immune hotspots reflects the interplay between B and T cells in lung squamous cell carcinoma
Authors: Zhang Hanyun , AbdulJabbar Khalid , Moore David A. , Akarca Ayse , Enfield Katey , Jamal-Hanjani Mariam , Raza Shan E Ahmed , Veeriah Selvaraju , Salgado Roberto , McGranahan Nicholas , Le Quesne John , Swanton Charles , Marafioti Teresa , Yuan Yinyin
Published: September 2024

Lists of TCGA LUSC and LUAD cases in the discovery and validation cohort
Table S1 from ASS1-mediated reductive carboxylation of cytosolic glutamine confers ferroptosis resistance in cancer cells
Authors: Hu Qiangsheng , Dai Jie , Zhang Zheng , yu Huansha , Zhang Jing , Zhu Xinsheng , Qin Yi , Zhang Lele , Zhang Peng
Published: September 2024

Supplementary Table 1 Primer sequences
Table S2 from An in vivo CRISPR screen identifies that SNRPC promotes triple-negative breast cancer progression
Authors: Lu Xun-Xi , Yang Wen-Xiao , Pei Yu-Chen , Luo Hong , Li Xiaoguang , Wang Yun-Jin , Zhang Guo-Liang , Ling Hong , Shao Zhiming , Hu Xin
Published: September 2024

Table S2. sgRNA sequences of RBP genes in the CRISPR/Cas9 library.
Table S1 from An in vivo CRISPR screen identifies that SNRPC promotes triple-negative breast cancer progression
Authors: Lu Xun-Xi , Yang Wen-Xiao , Pei Yu-Chen , Luo Hong , Li Xiaoguang , Wang Yun-Jin , Zhang Guo-Liang , Ling Hong , Shao Zhiming , Hu Xin
Published: September 2024

Table S1. Gene list of the CRISPR/Cas9 library.
Supplementary Table 2 from Chi3l1 is a modulator of glioma stem cell states and a therapeutic target in glioblastoma
Authors: Guetta-Terrier Charlotte , Karambizi David , Akosman Bedia , Zepecki John P. , Chen Jia-Shu , Kamle Suchitra , Fajardo J. Eduardo , Fiser Andras , Singh Ritambhara , Toms Steven A. , Lee Chun Geun , Elias Jack A. , Tapinos Nikos
Published: September 2024

Supplementary Table 2
Supplementary Table 1 from Chi3l1 is a modulator of glioma stem cell states and a therapeutic target in glioblastoma
Authors: Guetta-Terrier Charlotte , Karambizi David , Akosman Bedia , Zepecki John P. , Chen Jia-Shu , Kamle Suchitra , Fajardo J. Eduardo , Fiser Andras , Singh Ritambhara , Toms Steven A. , Lee Chun Geun , Elias Jack A. , Tapinos Nikos
Published: September 2024

Supplementary Table 1
Table S3 from Proteomic profiling of extracellular matrix components from patient metastases identifies consistently elevated proteins for developing nanobodies that target primary tumors and metastases
Authors: Jailkhani Noor , Clauser Karl R. , Mak Howard H. , Rickelt Steffen , Tian Chenxi , Whittaker Charles A. , Tanabe Kenneth K. , Purdy Stephen R. , Carr Steven A. , Hynes Richard O.
Published: September 2024

Supplementary Table S3
Supplementary Data from A germline variant in the BET1L 3’-UTR confers colorectal cancer susceptibility by reducing miRNA binding and m6A modification
Authors: Li Shuwei , Du Mulong , Xu Kaili , Ben Shuai , Zhu Tianru , Guo Mengfan , Xin Junyi , Zhu Lingjun , Gu Dongying , Zhang Zhengdong , Wang Meilin
Published: September 2024

Supplementary Tables 1-19
Supplementary Data from ONC201 in combination with paxalisib for the treatment of H3K27-altered diffuse midline glioma
Authors: Jackson Evangeline R. , Duchatel Ryan J. , Staudt Dilana E. , Persson Mika L. , Mannan Abdul , Yadavilli Sridevi , Parackal Sarah , Game Shaye , Chong Wai Chin , Jayasekara W. Samantha Nilanthi. , Le Grand Marion , Kearney Padraic S. , Douglas Alicia M. , Findlay Izac J. , Germon Zacary P. , McEwen Holly P. , Beitaki Tyrone S. , Patabendige Adjanie , Skerrett-Byrne David A. , Nixon Brett , Smith Nathan D. , Day Bryan , Manoharan Neevika , Nagabushan Sumanth , Hansford Jordan R. , Govender Dinisha , McCowage Geoffrey B. , Firestein Ron , Howlett Meegan , Endersby Raelene , Gottardo Nicholas G. , Alvaro Frank , Waszak Sebastian M. , Larsen Martin R. , Colino-Sanguino Yolanda , Valdés-Mora Fatima , Rakotomalala Andria , Meignan Samuel , Pasquier Eddy , Andre Nicolas , Hulleman Esther , Eisenstat David D. , Vitanza Nicholas A. , Nazarian Javad , Koschmann Carl , Mueller Sabine , Cain Jason E. , Dun Matthew D.
Published: September 2024

All Supplementary Tables
Table S3 from Ccr2+ monocyte-derived macrophages influence trajectories of acquired therapy resistance in Braf-mutant melanoma
Authors: Kim Dahihm , An Luye , Moon Jiwon , Maymi Viviana I. , McGurk Alexander I. , Rudd Brian D. , Fowell Deborah , White Andrew C.
Published: September 2024

Bulk RNAseq data
Figure S2 from Ccr2+ monocyte-derived macrophages influence trajectories of acquired therapy resistance in Braf-mutant melanoma
Authors: Kim Dahihm , An Luye , Moon Jiwon , Maymi Viviana I. , McGurk Alexander I. , Rudd Brian D. , Fowell Deborah , White Andrew C.
Published: September 2024

Representative flow cytometry plot showing gating strategies for identifying monocytes in blood and macrophages in TBP tumors.
Figure S2 from Metformin reprograms tryptophan metabolism to stimulate CD8+ T cell function in colorectal cancer
Authors: Huang Xiaowen , Sun Tiantian , Wang Jilin , Hong Xialu , Chen Huimin , Yan Tingting , Zhou Chengbei , Sun Danfeng , Yang Chen , Yu TaChung , Su Wenyu , Du Wan , Xiong Hua
Published: September 2024

Figure S2 decribes enrichment of metabolic activities in immune cell tpes.
Supplementary Table 3 from Unique transcriptional profiles underlie osteosarcomagenesis driven by different p53 mutants
Authors: Chachad Dhruv , Patel Lalit R. , Recio Carlos Vera. , Pourebrahim Rasoul , Whitley Elizabeth M. , Wang Wenyi , Su Xiaoping , Xu An , Lee Dung-Fang , Lozano Guillermina
Published: September 2024

Pulmonary metastasis in p53 mutant mice
Supplementary Table S3 from Targeting CD44 variant 5 with an antibody-drug conjugate is an effective therapeutic strategy for intrahepatic cholangiocarcinoma
Authors: Bei Yuncheng , He Jian , Dong Xuhui , Wang Yuxin , Wang Sijie , Guo Wan , Cai Chengjie , Xu Zhiye , Wei Jia , Liu Baorui , Zhang Nan , Shen Pingping
Published: September 2024

serum biochemical parameters
Movie S2 from Inter- and intra-metastatic heterogeneity shapes adaptive therapy cycling dynamics
Authors: Gallaher Jill , Strobl Maximilian , West Jeffrey , Gatenby Robert , Zhang Jingsong , Robertson-Tessi Mark , Anderson Alexander R.A.
Published: September 2024

Movies corresponding to simulation examples in Figure 4, comparing metastases simulations with different drug resistance and turnover.
Table S1-S9 from BRCA1 Insufficiency Induces a Hypersialylated Acidic Tumor Microenvironment that Promotes Metastasis and Immunotherapy Resistance
Authors: Shu Xiaodong , Li Jianjie , Chan Un In , Su Sek Man , Shi Changxiang , Zhang Xin , An Tingting , Xu Jun , Mo Lihua , Liu Jianlin , Wang Yuqing , Li Xiaoling , Deng Min , Lei Josh Haipeng , Wang Chunfei , Tian Hao , Sun Heng , Shim Joong Sup , Zhang Xuanjun , Dai Yunlu , Yao Zhicheng , Kuang Xiaying , Lin Ying , Deng Chu-Xia , Xu Xiaoling
Published: September 2024

All supplementary tables in one excel file
Figure S4 from BRCA1 Insufficiency Induces a Hypersialylated Acidic Tumor Microenvironment that Promotes Metastasis and Immunotherapy Resistance
Authors: Shu Xiaodong , Li Jianjie , Chan Un In , Su Sek Man , Shi Changxiang , Zhang Xin , An Tingting , Xu Jun , Mo Lihua , Liu Jianlin , Wang Yuqing , Li Xiaoling , Deng Min , Lei Josh Haipeng , Wang Chunfei , Tian Hao , Sun Heng , Shim Joong Sup , Zhang Xuanjun , Dai Yunlu , Yao Zhicheng , Kuang Xiaying , Lin Ying , Deng Chu-Xia , Xu Xiaoling
Published: September 2024

Original picture
Table S7 from Elevated Mast Cell Abundance is Associated with Enrichment of CCR2+ Cytotoxic T cells and Favorable Prognosis in Lung Adenocarcinoma
Authors: Fan Fanfan , Gao Jian , Zhao Yue , Wang Jun , Meng Lu , Ma Jiaqiang , Li Teng , Han Han , Lai Jinglei , Gao Zhendong , Li Xiongfei , Guo Ran , Cao Zhiwei , Zhang Yang , Zhang Xiaoming , Chen Haiquan
Published: September 2024

Table S7
Table S4 from Elevated Mast Cell Abundance is Associated with Enrichment of CCR2+ Cytotoxic T cells and Favorable Prognosis in Lung Adenocarcinoma
Authors: Fan Fanfan , Gao Jian , Zhao Yue , Wang Jun , Meng Lu , Ma Jiaqiang , Li Teng , Han Han , Lai Jinglei , Gao Zhendong , Li Xiongfei , Guo Ran , Cao Zhiwei , Zhang Yang , Zhang Xiaoming , Chen Haiquan
Published: September 2024

Table S4
Supplementary Table 2. from The genomic and epigenomic landscape of double-negative metastatic prostate cancer
Authors: Lundberg Arian , Zhang Meng , Aggarwal Rahul , Li Haolong , Zhang Li , Foye Adam , Sjöström Martin , Chou Jonathan , Chang Kevin , Moreno-Rodriguez Thaidy , Shrestha Raunak , Baskin Avi , Zhu Xiaolin , Weinstein Alana S. , Younger Noah , Alumkal Joshi J. , Beer Tomasz M. , Chi Kim N. , Evans Christopher P. , Gleave Martin , Lara Primo N. , Reiter Rob E. , Rettig Matthew B. , Witte Owen N. , Wyatt Alexander W. , Feng Felix Y. , Small Eric J. , Quigley David A.
Published: September 2024

Molecular Charactersistcs of samples in WCDT cohort
Supplementary Figure 1. from The genomic and epigenomic landscape of double-negative metastatic prostate cancer
Authors: Lundberg Arian , Zhang Meng , Aggarwal Rahul , Li Haolong , Zhang Li , Foye Adam , Sjöström Martin , Chou Jonathan , Chang Kevin , Moreno-Rodriguez Thaidy , Shrestha Raunak , Baskin Avi , Zhu Xiaolin , Weinstein Alana S. , Younger Noah , Alumkal Joshi J. , Beer Tomasz M. , Chi Kim N. , Evans Christopher P. , Gleave Martin , Lara Primo N. , Reiter Rob E. , Rettig Matthew B. , Witte Owen N. , Wyatt Alexander W. , Feng Felix Y. , Small Eric J. , Quigley David A.
Published: September 2024

Hierarchical clustering and principal component analyses (PCA) on the mCRPC tumors of WCDT cohort.
Supplementary Figure 4 from PTEN loss confers resistance to anti-PD-1 therapy in non-small cell lung cancer by increasing tumor infiltration of regulatory T cells
Authors: Exposito Francisco , Redrado Miriam , Houry Maeva , Hastings Katherine , Molero-Abraham Magdalena , Lozano Teresa , Solórzano José Luis. , Sanz-Ortega Julian , Adradas Vera , Amat Ramon , Redin Esther , Leon Sergio , Legarra Naroa , Garcia Javier , Serrano Diego , Valencia Karmele , Robles-Oteiza Camila , Foggetti Giorgia , Otegui Nerea , Felip Enriqueta , Lasarte Juan J. , Paz-Ares Luis , Zugazagoitia Jon , Politi Katerina , Montuenga Luis , Calvo Alfonso
Published: September 2024

Supplementary Figure 4
Supplementary Table 2 from ESRRB inhibits the TGF-β signaling pathway to drive cell proliferation in cervical cancer
Authors: Li Qin-Shu , Zheng Peng-Sheng
Published: September 2024

The list of primer sequences that used in this study
Supplementary Tables from Pre-existing immunity drives the response to neoadjuvant chemotherapy in esophageal adenocarcinoma
Authors: Arbore Giuseppina , Albarello Luca , Bucci Gabriele , Punta Marco , Cossu Andrea , Fanti Lorella , Maurizio Aurora , Di Mauro Francesco , Bilello Vito , Arrigoni Gianluigi , Bonfiglio Silvia , Biancolini Donatella , Puccetti Francesco , Elmore Ugo , Vago Luca , Cascinu Stefano , Tonon Giovanni , Rosati Riccardo , Casorati Giulia , Dellabona Paolo
Published: September 2024

Supplementary Table 1. Clinical characteristics of the EAC patients from the prospective cohort (protocol ESO-CA001)
Supplementary Table 2. Clinical characteristics of the EAC patients from the additional retrospective cohort selected for immunohistochemistry and digital spatial profiling
Supplementary Table 3. Monoclonal antibodies used for immunohistochemistry
Supplementary Table 4. Monoclonal antibodies used for flow cytometry staining
Supplementary Table 5. Baseline mutation in genes within the Reactome MHC class I antigen processing in EAC tumors from the prospective cohort
Supplementary Table 6. Baseline mutation in genes within the EAC Driver Genes in EAC tumors from the prospective cohort
Supplementary Data from Acquired secondary HER2 mutations enhance HER2/MAPK signaling and promote resistance to HER2 kinase inhibition in breast cancer
Authors: Marin Arnaldo , Mamun Abdullah Al , Patel Hima , Akamatsu Hiroaki , Ye Dan , Sudhan Dhivya R. , Eli Lisa , Marcelain Katherine , Brown Benjamin P. , Meiler Jens , Arteaga Carlos L. , Hanker Ariella B.
Published: September 2024

Supplementary Materials and Methods, Key Resource Table, and Supplementary Figures 1-8
Supplementary Fig. S1 from Endocrine therapy synergizes with SMAC mimetics to potentiate antigen presentation and tumor regression in hormone receptor-positive breast cancer
Authors: Hermida-Prado Francisco , Xie Yingtian , Sherman Shira , Nagy Zsuzsanna , Russo Douglas , Akhshi Tara , Chu Zhengtao , Feit Avery , Campisi Marco , Chen Minyue , Nardone Agostina , Guarducci Cristina , Lim Klothilda , Font-Tello Alba , Lee Irene , García-Pedrero Juana , Canadas Israel , Agudo Judith , Huang Ying , Sella Tal , Jin Qingchun , Tayob Nabihah , Mittendorf Elizabeth A. , Tolaney Sara M. , Qiu Xintao , Long Henry , Symmans William F. , Lin Jia-Ren , Santagata Sandro , Bedrosian Isabelle , Yardley Denise A. , Mayer Ingrid A. , Richardson Edward T. , Oliveira Giacomo , Wu Catherine J. , Schuster Eugene F. , Dowsett Mitch , Welm Alana L. , Barbie David , Metzger Otto , Jeselsohn Rinath
Published: September 2024

Supplementary Fig. S1. Comprehensive analysis of protein expression data in immune and invasive cancer epithelial regions from in various patient cohorts.
Supplementary Figure S3 from Radiation therapy-induced neurocognitive impairment is driven by heightened apoptotic priming in early life and prevented by blocking BAX
Authors: Singh Rumani , Yu Stacey , Osman Marwa , Inde Zintis , Fraser Cameron , Cleveland Abigail H. , Almanzar Nicole , Lim Chuan Bian , Joshi Gaurav N. , Spetz Johan , Qin Xingping , Toprani Sneh M. , Nagel Zachary , Hocking Matthew C. , Cormack Robert A. , Yock Torunn I. , Miller Jeffrey W. , Yuan Zhi-Min , Gershon Timothy , Sarosiek Kristopher A.
Published: September 2024

Supplementary Figure S3
Supplementary Data from Allosteric regulation of switch-II domain controls KRAS oncogenicity
Authors: Yang Moon Hee , Tran Timothy H. , Hunt Bethany , Agnor Rebecca , Johnson Christian W. , Shui Bing , Waybright Timothy J. , Nowak Jonathan A. , Stephen Andrew G. , Simanshu Dhirendra K. , Haigis Kevin M.
Published: September 2024

Supplementary Figures 1-5, Tables 1-3
Supplementary Tables from Targeting BCL6 in gastrointestinal stromal tumor promotes p53-mediated apoptosis to enhance the antitumor activity of imatinib
Authors: Zeng Xiangyu , Zhao Fei , Jia Jie , Ma Xianxiong , Jiang Qi , Zhang Ruizhi , Li Chengguo , Wang Tao , Liu Weizhen , Hao Yalan , Tao Kaixiong , Lou Zhenkun , Zhang Peng
Published: September 2024

Supplementary Tables
Data from Metabolic reprogramming driven by IGF2BP3 promotes acquired resistance to EGFR inhibitors in non-small cell lung cancer
Authors: Lin Ziyou , Li Jingwei , Zhang Jian , Feng Weineng , Lu Jiaye , Ma Xiaofan , Ding Wen , Ouyang Shumin , Lu Jin-Jian , Yue Peibin , Wan Guohui , Liu Peiqing , Zhang Xiaolei
Published: September 2024

Abstract
Acquired resistance represents a bottleneck for effective molecular targeted therapy in lung cancer. Metabolic adaptation is a distinct hallmark of human lung cancer that might contribute to acquired resistance. In this study, we discovered a novel mechanism of acquired resistance to EGFR tyrosine kinase inhibitors (TKIs) mediated by IGF2BP3-dependent crosstalk between epigenetic modifications and metabolic reprogramming through the IGF2BP3-COX6B2 axis. IGF2BP3 was upregulated in TKI-resistant non-small cell lung cancer patients, and high IGF2BP3 expression correlated with reduced overall survival. Upregulated expression of the RNA binding protein IGF2BP3 in lung cancer cells reduced sensitivity to TKI treatment and exacerbated the development of drug resistance via promoting oxidative phosphorylation (OXPHOS). COX6B2 mRNA bound IGF2BP3, and COX6B2 was required for increased OXPHOS and acquired EGFR-TKI resistance mediated by IGF2BP3. Mechanistically, IGF2BP3 bound to the 3’-untranslated region of COX6B2 in an m6A-dependent manner to increase COX6B2 mRNA stability. Moreover, the IGF2BP3-COX6B2 axis regulated nicotinamide metabolism, which can alter OXPHOS and promote EGFR-TKI acquired resistance. Inhibition of OXPHOS with IACS-010759, a small-molecule inhibitor, resulted in strong growth suppression in vitro and in vivo in a gefitinib-resistant patient-derived xenograft model. Collectively, these findings suggest that metabolic reprogramming by the IGF2BP3-COX6B2 axis plays a critical role in TKI resistance and confers a targetable metabolic vulnerability to overcome acquired resistance to EGFR-TKIs in lung cancer.
Data from Hypoxia-responsive lncRNA AC115619 encodes a micropeptide that suppresses m6A modifications and hepatocellular carcinoma progression
Authors: Zhang Qiangnu , Wei Teng , Yan Lesen , Zhu Siqi , Jin Wen , Bai Yu , Zeng Yuandi , Zhang Xiaofei , Yin Zexin , Yang Jilin , Zhang Wenjian , Wu Meilong , Zhang Yusen , Liu Liping
Published: September 2024

Abstract
Long non-coding RNAs (lncRNAs) regulate a number of aspects of cancer biology. Recent research has shown that lncRNAs can encode micropeptides that mediate their functions in tumors. Here, we revealed that the liver-specific putative lncRNA, AC115619, is expressed at low levels in hepatocellular carcinoma (HCC) and encodes a micropeptide, designated as AC115619-22aa. AC115619 played a crucial role in the regulation of tumor progression and was a prognostic indicator in HCC. The encoded micropeptide AC115619-22aa inhibited the progression of HCC by binding to WTAP and impeding the assembly of the N6-methyladenosine (m6A) methyltransferase complex, which regulates the expression of tumor-associated genes, such as SOCS2 and ATG14. AC115619 was co-transcribed with the adjacent upstream coding gene APOB, and hypoxia induced transcriptional repression of both APOB and AC115619 by controlling HIF1A/HDAC3 and HNF4A signaling. In animal and patient-derived models, AC115619-22aa reduced global m6A levels and suppressed tumor growth. In conclusion, this study establishes AC115619 and its encoded micropeptide as potential prognostic markers and therapeutic targets for patients with HCC