bluuebunny/crossref_metadata_2025 huggingface dataset:
A Model and Data Dual-Driven Framework for Lithium-Ion Battery Cycle Life Prediction Integrating Uncertainty Model
Authors: Shen Kemeng , Lei Jiazhi , Liu Zhao , Wang Tao , Yu Feng
Published: February 2025

To address the shortcomings of single model-based or data-driven methods in battery life prediction, this paper proposes a model and data dual-driven framework for lithium-ion battery (LIB) cycle life prediction integrating uncertainty model. First, a cloud model is used to quantify the uncertainty inherent in the empirical model and construct a capacity degradation uncertainty model. Next, health features highly correlated with capacity are extracted from historical data to train a convolutional neural network, forming an online estimation model that guides subsequent parameter correction. Then, based on the prediction discrepancy between the two models, the error-feedback gate recurrent unit with improved attention model is developed for the online dynamic correction of empirical model parameters, realizing a closed-loop prediction framework. Finally, a rolling correction strategy based on statistical error is proposed to dynamically adjust the cloud model parameters, with the corrections fed back to the capacity degradation uncertainty model to further refine prediction uncertainty and accuracy. Experimental results indicate that the proposed method achieves high accuracy across various battery datasets, with relative error remaining below 2%, and provides uncertainty-quantified remaining useful life prediction, which effectively supports the online health monitoring and maintenance strategy formulation of LIBs in diverse scenarios.
Designing a Lithium-Ion Cell for Studies of a Single Degradation Mechanism Over a Wide Temperature Range
Authors: Floras Claire , Martin Maher Sasha , Tuul Kenneth , Harlow Jessie , Bauer Michael , Dahn J. R.
Published: February 2025

18650-sized cylindrical cells containing single crystal Li[Ni0.6Mn0.4Co0.0]O2, Li[Ni0.6Mn0.35Co0.05]O2, and Li[Ni0.6Mn0.3Co0.1]O2 positive electrodes along with artificial graphite negative electrodes were constructed to be balanced at 4.05 V. These cells were designed so that they would have only the single degradation mode of lithium inventory loss due to the solid-electrolyte interphase layer growth. Cells were cycled both at C/3 and C/20 over a wide temperature range from 20 to 100 °C in order to accelerate degradation processes at higher temperatures and more rapidly predict low-temperature behaviour. A low upper cutoff voltage of 4.0 V was selected to avoid electrolyte oxidation, and an electrolyte composition incorporating pure lithium bis(fluorosulfonyl)imide salt was chosen based on the temperature and voltage range of operation. A thorough post-cycling analysis was performed to verify the elimination of all degradation modes except inventory loss and minor impedance growth, which enabled the application of a simple square root time model to make accurate lifetime predictions. In addition, the capacity retention of these cells at elevated temperature is incredible, with the best cells retaining 87% capacity after 1400 C/3 cycles (one year) continuously at 85 °C.
Pt-Doped Reduced Graphene Oxide-Porphyrin-CNT Composite-Based Electrochemical Sensor for Simultaneous Detection of Dopamine, Serotonin and Norepinephrine
Authors: Elshafie Hashim , Changalasetty Suresh Babu , A. Alavudeen Basha , Mubarakali Azath , M. Venkatesh , P. Parthasarathy
Published: February 2025

A novel electrochemical sensor for simultaneous and selective detection of dopamine (DA), serotonin (5-HT), and Norepinephrine (NE) was developed using a platinum-doped reduced graphene oxide-porphyrin-carbon nanotube (Pt-doped rGO-P-CNT) composite. This composite leverages the synergistic effects of its individual components: the aromatic π–π interactions and electrostatic attraction provided by porphyrin-functionalized graphene, the enhanced electron transfer capability from platinum doping, and the high surface area and conductivity of carbon nanotubes. The composite was synthesized in a multi-step process, starting with the oxidation of graphite to produce graphene oxide (GO), followed by reduction of GO and functionalization with porphyrin. Platinum nanoparticles were incorporated using a chemical reduction method, and carbon nanotubes were introduced to further improve conductivity and surface area. Electrochemical characterization demonstrated excellent separation of oxidation peak potentials for DA, 5-HT, and NE, allowing for precise multiplexed detection. The Pt-doped rGO-P-CNT composite showed high electrocatalytic activity and selectivity, with minimal interference from ascorbic acid. The sensor achieved a detection limit as low as 0.012 μM for DA & 5-HT and 0.015 μM for NE. Real-sample analyses in human urine and serum demonstrated the sensor’s practicality, achieving satisfactory recoveries and reproducibility. This Pt-doped rGO-P-CNT composite addresses key limitations in electrochemical biosensing.
Structural and Spectroscopic Properties of Hydrothermally Synthesized α-GaO(OH) Structures: Impact of Annealing Temperatures
Authors: Balkhtb Alaa Omar , Al-Hardan Naif H. , Abdul Hamid Muhammad Azmi , Jalar Azman
Published: February 2025

This work investigated the structural and spectroscopic properties of α-GaO(OH) prepared via a hydrothermal method. The film was heat treated at three different temperatures, which are 350, 450, and 550 °C. The films were characterized by X-ray diffraction, field-emission scanning electron microscopy, UV–vis spectroscopy, Raman spectroscopy, and X-ray photoelectron spectroscopy. The morphology of the prepared α-Ga2O3 films shows rhombus nanorod structure, which is a favorable morphology for advanced applications. Raman spectroscopy confirmed the rhombus structure of α-Ga2O3 nanocrystals at lower temperatures and indicated adjustments in the lattice vibrations and crystal structure with increasing annealing temperature up to 550 °C. The optical band gap of α-Ga2O3 was estimated using diffused reflectance and Tauc plot analysis. The results showed that the band gap decreased from 5.24 eV to 4.58 eV with increased heat treatment due to reduced defects and improved crystalline structure.
The Interplay Between Viral Infection and Cell Death: A Ping‐Pong Effect
Authors: Nourazarian Alireza , Yousefi Hadi , Biray Avci Cigir , Shademan Behrouz , Behboudi Emad
Published: February 2025

Programmed cell death (PCD) is a well‐studied cellular mechanism that plays a critical role in immune responses, developmental processes, and the maintenance of tissue homeostasis. However, viruses have developed diverse strategies to bypass or manipulate the host apoptotic machinery to enhance their replication and survival. As a result, the interaction between PCD pathways and viruses has garnered increased interest, leading to many studies being published in recent years. This study aims to provide an overview of the current understanding of PCD pathways and their significance in viral infections. We will discuss various forms of cell death pathways, including apoptosis, autophagy, necroptosis, and pyroptosis, as well as their corresponding molecular mechanisms. In addition, we will show how viruses manipulate host PCD pathways to prevent or delay cell death or facilitate viral replication. This study emphasizes the importance of investigating the mechanisms by which viruses control the host’s PCD machinery to gain insight into the evolutionary dynamics of host‐pathogen interactions and to develop new approaches for predicting and managing viral threats. Overall, we aimed to highlight new research areas in PCD and viruses, including introduction of new targets for the development of new antiviral drugs to modulate the cellular apoptotic machinery and novel inhibitors of host cell death pathways.
A Rare Case of Solitary Fibrous Tumor of the Breast in a Healthy 40‐Year‐Old Woman
Authors: Yaldo Marissa , Musa Arif , Aulicino Michael , Berryhill Brigitte
Published: February 2025

Solitary fibrous tumor (SFT) is a rare neoplasm of mesenchymal origin that is primarily found in the lungs but can be found in other locations such as the retroperitoneum, deep soft tissues of the proximal extremities, abdominal cavity, head, and neck. Moreover, SFTs found in the breast are extremely rare and, oftentimes, are found incidentally during screening mammography. Our case presents an exceptionally rare occurrence of a SFT in the breast of a 40‐year‐old woman. This rarity is underscored by its classification as a SFT and its unusual location within the breast tissue as well as this patient’s young age. This case emphasizes the importance of a thorough evaluation with both imaging and histopathology for diagnosing SFTs. It also addresses the potential difficulties that may arise during this process, especially for radiologists who may have limited experience encountering SFTs.
Clinic Examination and Gene Diagnosis for a Birt–Hogg–Dubé Syndrome Family With a Novel flcn Frameshift Mutation Causing Nonsense‐Mediated mRNA Degradation
Authors: Xu Yang , Gao Jie , An Yang , Zou Chenxi , Ding Guoqing , Yang Guohua
Published: February 2025

Background: Birt–Hogg–Dubé syndrome (BHD) was an autosomal dominant disorder caused by a mutation in the folliculin (FLCN) gene and characterized by benign cutaneous fibrofolliculomas in the head and neck, pulmonary cysts, spontaneous pneumothorax, and combined renal tumors.

Methods: This study reported a familial case presenting multiple pulmonary bullae, recurrent spontaneous pneumothorax, diffuse cystic lesions in both lungs, and renal cysts. To further clarify the diagnosis, next‐generation sequencing (NGS) was performed in conjunction with the clinical diagnostic criteria for Birt–Hogg–Dubé. The eukaryotic recombinant expression vectors of pEGFP‐C1‐FLCN and knock‐in FLCN mutation by CRISPR/Cas9 were conducted in 293 T and BEAS‐2B cell lines. The mRNA and protein expression of the FLCN mutation were verified by fluorescence quantitative PCR and Western blot assay. Nonsense‐mediated mRNA decay (NMD) assays and immunohistochemical assays were conducted to elucidate the pathogenicity of the mutation and explore potential mechanisms.

Results: A unique, novel, unspecified significance FLCN mutation NM_144997.7: c.21_22del (p. Cys8 Profs ∗28) in Exon 4 was detected in both patients. The results demonstrated that the newly identified FLCN frameshift mutation significantly decreased FLCN mRNA and protein expression. The NMD complex recognized and degraded mRNAs containing a premature termination codon (PTC) in the open reading frame of the FLCN frameshift mutation, resulting in haploinsufficiency and ultimately contributing to the manifestation of BHD. Protein expression on the AMP‐activated protein kinase (AMPK), Wnt/β‐catenin, and mammalian target of rapamycin (mTOR) signaling pathways by immunohistochemistry indicated that FLCN frameshift mutations were responsible for BHD through the activation of AMPK, Wnt/β‐catenin, and mTOR signaling pathways.

Conclusion: The study demonstrated that a novel FLCN frameshift mutation was responsible for the pathogenesis of BHD and preliminarily demonstrated that FLCN causes BHD through the AMPK, Wnt/β‐catenin, and mTOR signaling pathways.
Effects of Model‐Specific Parameters on the Development of Custom Module in PX4 Autopilot Software‐in‐the‐Loop
Authors: Tullu Abera , Jung Sunghun , Lee Sangchul , Ko Sangho
Published: February 2025

Software‐in‐the‐loop simulation tools have been extensively used in the development of safety‐critical software. Utilizing these tools substantially accelerates software development, eliminating potential risks and resource costs of physical experiments. This paper investigates the effects of model‐specific parameters on the development and testing of custom modules in a simulation environment. Models of a fixed‐wing unmanned aerial vehicle with vertical takeoff and landing capabilities and a steerable sensor platform/gimbal are used as a case study for this investigation. The effects of parameters of these aerial vehicle and sensor platform models are taken into consideration in the development of a custom module that is incorporated into PX4 Autopilot and controls the dynamics of the steerable sensor platform mounted on the vehicle model. The work also presents steps necessary to customize the PX4 Autopilot software‐in‐the‐loop tool and Gazebo simulation environment to incorporate parameters of the vehicle and sensor platform models in the development and testing process of the custom module. Based on these instances, simulation results are obtained and discussed. The results show that the effective use of the PX4 Autopilot software‐in‐the‐loop simulation framework is justified by its proper customization and integration with the Gazebo simulator.
Exploring Vaccine Hesitancy Levels Among Turkish Parents in 2024 After Pandemic; Key Influencing Factors: A Cross‐Sectional Study
Authors: Kılınç Zehra , Beycur Işık Songül
Published: February 2025

Objectives: This study aimed to evaluate the level of vaccine hesitancy and related factors regarding childhood vaccines among parents with children under 5 years of age receiving services from a health center in Turkey.

Materials and Methods: This cross‐sectional study was conducted with parents with children under 5 years of age who applied to a primary care family health center in Diyarbakır province between 1 November and 1 December 2023. The number of children under 5 years of age registered at the family health center was approximately 800, and the minimum sample size was calculated as 219 using the Open Epi program with a 13% vaccine hesitancy frequency, 99% confidence interval, and 80% power. A total of 214 parents who had no communication problems and voluntarily agreed to participate were included in the study. Data were collected through face‐to‐face interviews using a data form including demographic information of parents and their children, vaccination knowledge, the impact of the COVID‐19 pandemic on vaccination attitudes, and the Parents’ Attitudes Toward Childhood Vaccines Scale (PACV) Scale. Data were analyzed using SPSS (Version 24.0).

Findings: The mean age of the participants was 32.2 ± 5.9 years, 73.4% were mothers, 70.1% and 62.6% of their spouses had high school education or less, and 60.7% were not employed. A total of 65.9% of the parents were at the middle‐income level and 76.6% stated that they had sufficient knowledge about child vaccines. They mostly received vaccine information from family health center nurses or physicians (84.1%). The vaccine hesitation rate was 16.8% and the PACV Scale’s mean score was 34.38 ± 15.60. No significant difference was found between the hesitation levels of the parents. While the rate of hesitation was 36.1% in parents with sufficient knowledge about vaccination, this rate was 63.9% in those with insufficient knowledge, and this difference was found to be statistically significant (p = 0.01). In addition, vaccine hesitancy was found to be higher in parents who did not have a negative impact of the COVID‐19 pandemic on the vaccination decision. Parents with university and higher education level had higher and statistically significant safety‐effectiveness scale subdimension scores (p < 0.001).

Conclusions: In this study, vaccine hesitation was found in 16.8% of the parents and the level of hesitation was found to be associated with knowledge and education levels. The hesitation rate was found to be lower in parents who had sufficient knowledge about childhood vaccines. The higher hesitation levels of parents who reported that the pandemic did not negatively affect their vaccination decisions suggest the effect of social and psychological factors. The findings emphasize the importance of education and awareness‐raising activities for parents to reduce vaccine hesitancy.
Suitability of Bentonite‐Stabilized Laterite for Use as a Material for Nuclear Waste Containment in Sub‐Saharan Africa
Authors: Arinze Emmanuel E. , Davie Colin T.
Published: February 2025

This article investigates the potential use of a bentonite‐stabilized laterite mixture as a material for nuclear waste containment in sub‐Saharan Africa. The study analyzes the engineering properties of the composite material, including its compaction properties, permeability, swelling properties, and specific gravity. The article discusses the increasing importance of effective management of radioactive waste and the use of deep geological repositories (DGRs) for long‐term storage. However, the high swelling pressure of bentonite poses risks to the structural integrity of DGRs. To address this issue, researchers have explored the use of bentonite–laterite mixtures as barrier materials. In sub‐Saharan Africa, laterite has been considered as a potential solution for reducing the swelling potential of bentonite. The study conducts tests on commercially sourced MX bentonite and laterite to assess their engineering properties. Permeabilities of the mixes increased to 4.3E − 12, 5.5E − 12, 3.8E − 11, and 2.5E − 11 m/s, respectively, with 10%, 20%, 30%, and 40% of laterite in the composite. Similarly, the swelling pressure improved from 0.8 MPa to 1.7, 2.1, 2.5, and 2.8 MPa, respectively, with 60%, 70%, 80%, 90%, and 100% bentonite content. The results reveal that the addition of laterite improves the compaction properties of the mixture, decreases the clay concentration, increases permeability, reduces water absorption, and lowers swelling capacity. The recommended mixture for nuclear waste containment in sub‐Saharan Africa is 85% bentonite and 15% laterite, meeting required specifications while considering cost‐effectiveness and material availability. This research contributes to the understanding of the swelling properties of bentonite stabilized with laterite and provides valuable insights for the design and construction of DGRs for nuclear waste.
Non‐probabilistic Structural Damage Identification With Uncertainties by Phase Space–Based CNN
Authors: Zhong Yue , Li Jun , Hao Hong , Li Ling
Published: February 2025

Considering the critical role of uncertainties in structural damage detection, primarily arising from measurement errors and finite element model discrepancies, a nonprobabilistic approach based on interval analysis is proposed. This nonprobabilistic approach integrates phase space matrices with convolutional neural networks (CNNs) for damage identification. The compatibility of the phase space matrix data format with CNN allows for high sensitivity in detecting damage. Unlike probabilistic methods, this approach does not rely on specific probability distributions but considers the upper and lower bounds of uncertainties, making it highly applicable to real‐world applications. The proposed method employs the phase space matrix as the input for the CNN and the elemental stiffness parameter (ESP) as the output. When accounting for uncertainties, distinct networks are developed from the upper and lower bounds of the input phase space matrix. Both the undamaged state and the state under assessment are processed through these networks. The resulting outputs enable the computation of the possibility of damage existence (PoDE) and the damage measure index (DMI), which collectively provide a comprehensive assessment of the level and probability of damage. Validation using a numerical model and experimental data confirms the effectiveness of this method in accurately determining the location and level of damage while considering uncertainties.
Substructural Damage Identification by Reduced‐Order Substructural Boundaries and Improved Particle Filter With Unknown Input for Non‐Gaussian Measurement Noises
Authors: Lei Ying , Yin Chang , Lai Junlong , Wang Shiyu
Published: February 2025

Substructural identification has shown privileges compared with direct identification of structures. However, unknown substructural interface forces between adjacent substructures are the key but difficult issues in substructural identification. Current substructural identification methods with full‐order substructural models still encounter ill‐posed identification problems when there are many unknown substructural interaction forces. Thus, it is necessary to study the identification of substructures with reduced‐order substructural boundaries. In addition, current substructural identification based on Kalman filtering still assumes that measurement noises are random Gaussian processes. In this paper, a method is proposed for the identification of substructural damage by reduced‐order substructural boundaries and an improved particle filter with unknown input for non‐Gaussian measurement noises. First, the boundary degrees of freedom of substructural boundaries together with the number of unknown boundary interaction forces are reduced by the characteristic constraint mode approach. Then, based on the reduced‐order model of substructure in modal coordinate, an improved particle filter with unknown inputs is proposed, in which the importance density function and particle generation in particle filtering are established by the unscented Kalman filter with unknown inputs. Finally, substructural damage can be identified without the full observations of acceleration responses at the substructure boundaries. The effectiveness of the proposed method is verified through a numerical substructural damage of a planar frame model.
The Relationship Between Clinicopathological Features and Prognosis of 22 Cases of Tubular Breast Carcinoma
Authors: Tian Lin , Meng Xiangchao , Si Huiyan , Qiu Yue , Qu Rui , Chen Hongye
Published: February 2025

Background: Breast tubular carcinoma is a special pathological type of invasive breast cancer, accounting for about 0.8% to 10.0% of breast cancer cases, and it is a rare type of breast cancer. Currently, there is still a lack of relevant diagnostic and treatment consensus. Exploring the relationship between the pathological characteristics, molecular subtypes, and prognosis of ductal breast cancer is of great scientific value and clinical significance for improving patients’ survival rate and quality of life.

Methods: The clinical data of 22 patients with tubular breast carcinoma diagnosed by pathology in The First Medical Center of PLA General Hospital from January 2001 to December 2021 were collected, and their pathological features, molecular classification, and prognosis were analyzed retrospectively.

Results: The clinicopathological features of 22 patients with tubular breast carcinoma were age ≥ 35 years, married, tumor ≤ 2 cm, single focal, mixed type, no lymph node metastasis, estrogen receptor (ER) positive, progesterone receptor (PR) positive, Ki‐67 ≤ 14%, CyclinD1 negative, less recurrence, and metastasis. Twenty‐two patients with breast tubular carcinoma were followed up for 5 years after surgery, and the survival rate of disease‐free survival (DFS) was 90.9% (20/22). The positive rates of ER, PR, and human epidermal growth factor receptor‐2 (HER‐2) are 100.0%, 100.0%, and 40.9%, respectively. The proportion of tumor cells expressing Ki‐67 is 45.4%. Among them, the difference of HER‐2 level, recurrence and metastasis, and postoperative comprehensive treatment showed different prognoses.

Conclusion: Tubular breast carcinoma is a kind of tumor with a low malignant degree. The prognosis is significantly related to its HER‐2 level, recurrence and metastasis, and postoperative comprehensive treatment by univariate analysis, in which HER‐2 is an independent risk factor, postoperative comprehensive treatment is a protective factor, but postoperative recurrence and metastasis have nothing to do with the prognosis by the multivariate analysis.
The Lignicolous Fungus Hericium erinaceus (Lion’s Mane Mushroom): A Promising Natural Source of Antiradical and DPPH Inhibitory Agents
Authors: Jahedi Akbar , Ahmadifar Saeideh , Mohammadi Rahman , Goltapeh Ebrahim Mohammadi
Published: February 2025

Nowadays, the importance of the genus Hericium is increasing due to its nutraceutical and pharmaceutical properties. The main idea of this study is to ingenious management of these wastes to achieve the highest performance of nutrients, minerals, and antioxidant properties using enriched agricultural waste. After preparing mushroom samples, the amount of mineral and mycochemical substances have been respectively evaluated by the Association of Official Analytical Chemists and Folin–Ciocalteu assay. In conclusion, among the fruiting bodies’ samples harvested from 19 substrates, the substrates sawdust 30% + wheat straw 30% + bagasse 15% + rice bran 15% + corn flour 10% recorded the highest phenol and flavonoid contents, with values of 27 mg GAE/g DW ext. and 8 mg QE/g DW ext. as well as the IC50 (88.7 μg/mL). P and K’s highest amounts were recorded with the values of 1833 and 1600 mg/100 g DW, and Fe was recorded with values of 77.7 mg/100 g DW. This study, therefore, provides understandings on the biological technologies for the valorization of organic solid waste into valuable and useful bio‐based products.
Anti‐Inflammatory and Antimicrobial Effects of Herbal Formulation Called Apo‐Taat Using Extended‐Spectrum ß‐Lactamase‐Producing Escherichia coli Isolates
Authors: Kitnithiprapha Thanakan , Panthong Sumalee , Sakpakdeejaroen Intouch , Kondo Sumalee
Published: February 2025

Pathogens contaminate drinking water in tropical countries causing diarrheal diseases. The conventional treatment for diarrhea is antibiotics. However, overuse and misuse of antibiotics has enabled pathogens to adapt, causing global antibiotic resistance and proliferation of extended‐spectrum ß‐lactamase‐producing Escherichia coli (ESBL‐E. coli), which causes diarrhea and high levels of inflammatory cytokines. Apo‐taat, consisting of equal proportions of Phyllanthus emblica and Caesalpinia sappan, has been used to treat diarrhea and bloody diarrhea. Its antibacterial activity against E. coli ATCC 25922 has been reported, but its inhibitory effect against ESBL‐E. coli has yet to be documented. This study investigated the antibacterial effect of Apo‐taat extract against ESBL‐E. coli and its anti‐inflammatory activity. Antibacterial activity was determined by the microtiter plate–based method. HPLC was used to determine the brazilin and gallic acid contents in Apo‐taat extract. Effects of herbal extracts on nitric oxide, IL‐6, and TNF‐α were investigated in RAW 264.7 cells. Results were that Apo‐taat extract showed MIC values against ESBL‐E. coli in the range of 0.625 to 2.5 mg/mL. Its 50% inhibitory concentration against nitric oxide and IL‐6 production was 83.96 ± 10.60 and 83.06 ± 2.07 μg/mL, respectively, and it had slight inhibition against TNF‐α. These findings suggest that Apo‐taat may have an antibacterial impact on ESBL‐E. coli and anti‐inflammatory activity. Furthermore, safety and clinical trials should be conducted in the future.
Supplementary Tables S1-S17 from Antitumor Activity and Biomarker Analysis for TROP2 Antibody–Drug Conjugate Datopotamab Deruxtecan in Patient-Derived Breast Cancer Xenograft Models
Authors: Meric-Bernstam Funda , Yuca Erkan , Evans Kurt W. , Zhao Ming , Maejima Takanori , Karibe Tsuyoshi , Raso Maria Gabriela , Tang Ximing , Zheng Xiaofeng , Rizvi Yasmeen Qamar , Akcakanat Argun , Scott Stephen M. , Wang Bailiang , Byers Lauren A. , Tripathy Debu , Okajima Daisuke , Damodaran Senthil
Published: February 2025

Supplementary Table 1. Antibodies used for immunohistochemistry. Supplementary Table 2. Additional Antibodies used for immunohistochemistry at Daiichi Sankyo. Supplementary Table 3. Biomarker and clinical history of PDX models. Supplementary Table 4. Treatment/control ratios of treated PDX models. Supplementary Table 5. Event-free survival (time to tumor doubling) of treated PDX models. Supplementary Table 6. Mutations in actionable genes in the BCXs. Supplementary Table 7. Copy number alterations in actionable genes in the BCXs. Supplementary Table 8. Mutations in DNA damage repair genes in the BCXs. Supplementary Table 9. Copy number alterations in DNA damage repair genes in the BCXs. Supplementary Table 10. Expression of SLFN11 by IHC. Supplementary Table 11. RPPA Results-Responder vs Non-responder PDX Models. Supplementary Table 12. Treatment/control ratios of BCX.011-CL control and TROP2 models. Supplementary Table 13. Event-free survival (time to tumor doubling) of BCX.011-CL control and TROP2 models. Supplementary Table 14. RPPA Results-Signaling changes common to the responder models. Red changes are common to responders and non-responders. Supplementary Table 15. RPPA Results- Signaling changes common to the Non-Responder models. Red changes are common to responders and non-responders. Supplementary Table 16. Treatment/control ratios of Dato-DXd and Olaparib combination experiments. Supplementary Table 17. Event-free survival (time to tumor doubling) of of Dato-DXd and Olaparib combination experiments.
Supplementary Figures S1-S15 from Antitumor Activity and Biomarker Analysis for TROP2 Antibody–Drug Conjugate Datopotamab Deruxtecan in Patient-Derived Breast Cancer Xenograft Models
Authors: Meric-Bernstam Funda , Yuca Erkan , Evans Kurt W. , Zhao Ming , Maejima Takanori , Karibe Tsuyoshi , Raso Maria Gabriela , Tang Ximing , Zheng Xiaofeng , Rizvi Yasmeen Qamar , Akcakanat Argun , Scott Stephen M. , Wang Bailiang , Byers Lauren A. , Tripathy Debu , Okajima Daisuke , Damodaran Senthil
Published: February 2025

Supplementary Figure 1. Comparison of TROP2 membrane expression between patient tumors and matched patient derived xenografts. Supplementary Figure 2. Representative images of TROP2 IHC in the breast cancer xenografts shown in Figure 2. Images represent one of three cores of a TMA assessed, with IHC shown at 20X. Supplementary Figure 3. Genomic alterations in genes associated with DNA damage repair. Supplementary Figure 4 BRCAness in BCX models Supplementary Figure 5. Violin plot of BRCAness signature in responders and non-responders. Supplementary Figure 6. Homologous repair in BCX models Supplementary Figure 7. Antitumor activity of Datopotamab deruxtecan (Dato-DXd) and PARP inhibitor talazoparib Supplementary Figure 8. IHC of TROP2 Supplementary Figure 9. Necrosis analysis Supplementary Figure 10. Internalization assay Supplementary Figure 11. (A) Immunoblotting of TROP2 expression in xenografts of BCX.011CL-control and BCX.011-TROP2. The first two on the left are cell line samples as controls for immunoblotting. The remaining are PDX tumor samples. PDX tumors (treated as shown) were collected on day 25-day 28 of treatment. TROP2 IHC was perform and scored. All BCX.011CL-TROP2 tumors formed TROP2 positive xenograft except for a single tumor that grew back after regressing with the first 10 mg/kg Dato-DXd treatment (B). Supplementary Figure 12. Effect of exogenous TROP2 expression on Dato-DXd sensitivity. Supplementary Figure 13. TROP2 expression in isogenic cell lines Supplementary Figure 14. Conjugated DXd in BCXs Supplementary Figure 15. Additional immunohistochemistry analysis of pharmacodynamic changes associated with Dato-DXd treatment
Supplementary Table S4 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 Table S4. Other molecular alterations reported.
Supplementary Data S1 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 Data S1. Definition of response, Description of response criteria used by sites to evaluate tumor response, Definition of extend of resection, Definition of extend of resection used by sites.
Supplementary Table 1 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 1: Representativeness of Study Participants.
Supplementary Figure 4 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 4: Flow cytometric analysis of T cell phenotypes in apheresis, infusion products and EGFRt + CAR T cells at peak of expansion.
Supplementary Figure 1 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 1: Strobe Flow Diagram.
Supplementary Table S8 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 S8: Protein changes by patient.
Supplementary Table 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 Table S7: Phospho-eIF4E Immunohistochemistry. Results Demonstrating Changes in Phospho eIF4E From Baseline Biopsy for 14 Patients.
Supplementary Table 3 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 Table 3. Rates of HCC radiological progression or clinical hepatic decompensation as first event.
Supplementary Table 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 Table S5: Adverse events by CTCAE toxicity grade ≥ 3.
Supplementary Table S3 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 S3: Prior treatments. Summary of breast cancer surgery, radiation therapy, and systemic anti-cancer therapy.
Supplementary Table S2 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 S2. Representativeness of Study Participants.
Supplementary Fig. S8 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. S8: Imaging mass cytometry. (A) Representative images showing marker expression used for our classification. (B) Proportion of immune clusters defined by IMC per patient.
Supplementary Fig. S4 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. S4: Proteomic profiling. Heatmap showing the Normalized Enrichment Score (NES) for the main independent pathways enriched in at least 2 of the patients in the cohort.
Supplementary Fig. S3 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. S3: Proteomic profiling. Heatmap showing proteins with a moderate consensus across the patient cohort (|FC| > 20% and uncorrected p-value < 0.05). Peptide coverage for each TMT plex is shown on the left.
Supplementary Table S3 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. 3A-3C: Pro-B (A), Second Messenger (B), and CAF2 (C) leading edge genes unique to non-responders, shared between non-responders and responders, and unique to responders.
Table 4 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

Safety results: grade ≥3 and total AESIa and SAE. Multiarm study (mITT population).
Supplementary Table S5 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 S5. Statistical comparisons of effector and suppressor immune cell populations in patients with de novo resistance (DR) and acquired resistance (AR) to anti-PD1 therapy.
Supplementary Table 3 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 Table 3. Grade ≥3 and total TEAEs
Supplementary Table 1 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 Table 1. Key eligibility criteria
Supplementary Figure 3 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 3. Multi-arm study – Patient disposition