bluuebunny/crossref_metadata_2025_split huggingface dataset:
Drug repositioning for immunotherapy in breast cancer using single-cell analysis
Authors: Mohammadi Elyas , Dashti Samira , Shafizade Neda , Jin Han , Zhang Cheng , Lam Simon , Tahmoorespur Mojtaba , Mardinoglu Adil , Sekhavati Mohammad Hadi 
Published: April 2024

Abstract
Immunomodulatory peptides, while exhibiting potential antimicrobial, antifungal, and/or antiviral properties, can play a role in stimulating or suppressing the immune system, especially in pathological conditions like breast cancer (BC). Thus, deregulation of these peptides may serve as an immunotherapeutic strategy to enhance the immune response. In this meta-analysis, we utilized single-cell RNA sequencing data and known therapeutic peptides to investigate the deregulation of these peptides in malignant versus normal human breast epithelial cells. We corroborated our findings at the chromatin level using ATAC-seq. Additionally, we assessed the protein levels in various BC cell lines. Moreover, our in-house drug repositioning approach was employed to identify potential drugs that could positively impact the relapse-free survival of BC patients. Considering significantly deregulated therapeutic peptides and their role in BC pathology, our approach aims to downregulate B2M and SLPI, while upregulating PIGR, DEFB1, LTF, CLU, S100A7, and SCGB2A1 in BC epithelial cells through our drug repositioning pipeline. Leveraging the LINCS L1000 database, we propose BRD-A06641369 for B2M downregulation and ST-4070043 and BRD-K97926541 for SLPI downregulation without negatively affecting the MHC complex as a significantly correlated pathway with these two genes. Furthermore, we have compiled a comprehensive list of drugs for the upregulation of other selected immunomodulatory peptides. Employing an immunotherapeutic approach by integrating our drug repositioning pipeline with single-cell analysis, we proposed potential drugs and drug targets to fortify the immune system against BC.
Recovery from antibody-mediated biliary ductopenia and multiorgan inflammation after COVID-19 vaccination
Authors: Chang Alan , Jeng Yung-Ming , Ho Cheng-Maw , Lee Po-Huang 
Published: April 2024

AbstractThe coronavirus disease 2019 (COVID-19) pandemic has caused significant morbidity and mortality. Spike messenger RNA (mRNA)–based vaccines against severe acute respiratory syndrome coronavirus 2 may contribute to immune-mediated injuries. Here we present a case of a previously healthy 47-year-old man, who developed progressive jaundice 2 weeks after receiving his 3rd COVID-19 vaccination (1st mRNA-based vaccine). Apart from elevated serum total bilirubin levels (peaked at >70 mg/dL), deteriorating renal (blood urea nitrogen: peak, 108.5 mg/dL; creatinine: peak, 6 mg/dL) and exocrine pancreas (amylase: peak, 1717 U/L; lipase: peak, 5784 U/L) profiles were also seen. Vanishing bile duct syndrome characterized by ductopenia and cholangiocyte vacuolation, positive C4d deposition, and high titer of anti-angiotensin II type 1 receptor antibody consistently explain the overall antibody-mediated pathogenesis resembling antibody-mediated “rejection” in the solid organ transplant setting. Corticosteroids and plasmapheresis were administered, leading to gradual resolution of the symptoms, and the jaundice completely resolved 2 months later. In conclusion, we reported a case of antibody-mediated multiorgan injury after an mRNA COVID-19 vaccine, characterized by severe cholangiopathy. The patient recovered with corticosteroids and plasmapheresis, and long-term follow-up is necessary.
Linear to circular conversion in the polarized radio emission of a magnetar
Authors: Lower Marcus E. , Johnston Simon , Lyutikov Maxim , Melrose Donald B. , Shannon Ryan M. , Weltevrede Patrick , Caleb Manisha , Camilo Fernando , Cameron Andrew D. , Dai Shi , Hobbs George , Li Di , Rajwade Kaustubh M. , Reynolds John E. , Sarkissian John M. , Stappers Benjamin W. 
Published: April 2024

AbstractRadio emission from magnetars provides a unique probe of the relativistic, magnetized plasma within the near-field environment of these ultra-magnetic neutron stars. The transmitted waves can undergo birefringent and dispersive propagation effects that result in frequency-dependent conversions of linear to circularly polarized radiation and vice versa, thus necessitating classification when relating the measured polarization to the intrinsic properties of neutron star and fast radio burst emission sites. We report the detection of such behaviour in 0.7–4 GHz observations of the P = 5.54 s radio magnetar XTE J1810−197 following its 2018 outburst. The phenomenon is restricted to a narrow range of pulse phase centred around the magnetic meridian. Its temporal evolution is closely coupled to large-scale variations in magnetic topology that originate from either plastic motion of an active region on the magnetar surface or free precession of the neutron star crust. Our model of the effect deviates from simple theoretical expectations for radio waves propagating through a magnetized plasma. Birefringent self-coupling between the transmitted wave modes, line-of-sight variations in the magnetic field direction and differences in particle charge or energy distributions above the magnetic pole are explored as possible explanations. We discuss potential links between the immediate magneto-ionic environments of magnetars and those of fast radio burst progenitors.
Tetrameric self-assembling of water-lean solvents enables carbamate anhydride-based CO2 capture chemistry
Authors: Leclaire Julien , Heldebrant David J. , Grubel Katarzyna , Septavaux Jean , Hennebelle Marc , Walter Eric , Chen Ying , Bañuelos Jose Leobardo , Zhang Difan , Nguyen Manh-Thuong , Ray Debmalya , Allec Sarah I. , Malhotra Deepika , Joo Wontae , King Jaelynne 
Published: April 2024

AbstractCarbon capture, utilization and storage is a key yet cost-intensive technology for the fight against climate change. Single-component water-lean solvents have emerged as promising materials for post-combustion CO2 capture, but little is known regarding their mechanism of action. Here we present a combined experimental and modelling study of single-component water-lean solvents, and we find that CO2 capture is accompanied by the self-assembly of reverse-micelle-like tetrameric clusters in solution. This spontaneous aggregation leads to stepwise cooperative capture phenomena with highly contrasting mechanistic and thermodynamic features. The emergence of well-defined supramolecular architectures displaying a hydrogen-bonded internal core, reminiscent of enzymatic active sites, enables the formation of CO2-containing molecular species such as carbamic acid, carbamic anhydride and alkoxy carbamic anhydrides. This system extends the scope of adducts and mechanisms observed during carbon capture. It opens the way to materials with a higher CO2 storage capacity and provides a means for carbamates to potentially act as initiators for future oligomerization or polymerization of CO2.
A systematic review and multivariate meta-analysis of the physical and mental health benefits of touch interventions
Authors: Packheiser Julian , Hartmann Helena , Fredriksen Kelly , Gazzola Valeria , Keysers Christian , Michon Frédéric 
Published: April 2024

AbstractReceiving touch is of critical importance, as many studies have shown that touch promotes mental and physical well-being. We conducted a pre-registered (PROSPERO: CRD42022304281) systematic review and multilevel meta-analysis encompassing 137 studies in the meta-analysis and 75 additional studies in the systematic review (n = 12,966 individuals, search via Google Scholar, PubMed and Web of Science until 1 October 2022) to identify critical factors moderating touch intervention efficacy. Included studies always featured a touch versus no touch control intervention with diverse health outcomes as dependent variables. Risk of bias was assessed via small study, randomization, sequencing, performance and attrition bias. Touch interventions were especially effective in regulating cortisol levels (Hedges’ g = 0.78, 95% confidence interval (CI) 0.24 to 1.31) and increasing weight (0.65, 95% CI 0.37 to 0.94) in newborns as well as in reducing pain (0.69, 95% CI 0.48 to 0.89), feelings of depression (0.59, 95% CI 0.40 to 0.78) and state (0.64, 95% CI 0.44 to 0.84) or trait anxiety (0.59, 95% CI 0.40 to 0.77) for adults. Comparing touch interventions involving objects or robots resulted in similar physical (0.56, 95% CI 0.24 to 0.88 versus 0.51, 95% CI 0.38 to 0.64) but lower mental health benefits (0.34, 95% CI 0.19 to 0.49 versus 0.58, 95% CI 0.43 to 0.73). Adult clinical cohorts profited more strongly in mental health domains compared with healthy individuals (0.63, 95% CI 0.46 to 0.80 versus 0.37, 95% CI 0.20 to 0.55). We found no difference in health benefits in adults when comparing touch applied by a familiar person or a health care professional (0.51, 95% CI 0.29 to 0.73 versus 0.50, 95% CI 0.38 to 0.61), but parental touch was more beneficial in newborns (0.69, 95% CI 0.50 to 0.88 versus 0.39, 95% CI 0.18 to 0.61). Small but significant small study bias and the impossibility to blind experimental conditions need to be considered. Leveraging factors that influence touch intervention efficacy will help maximize the benefits of future interventions and focus research in this field.
Reversible conjugation of a CBASS nucleotide cyclase regulates bacterial immune response to phage infection
Authors: Krüger Larissa , Gaskell-Mew Laura , Graham Shirley , Shirran Sally , Hertel Robert , White Malcolm F. 
Published: April 2024

AbstractProkaryotic antiviral defence systems are frequently toxic for host cells and stringent regulation is required to ensure survival and fitness. These systems must be readily available in case of infection but tightly controlled to prevent activation of an unnecessary cellular response. Here we investigate how the bacterial cyclic oligonucleotide-based antiphage signalling system (CBASS) uses its intrinsic protein modification system to regulate the nucleotide cyclase. By integrating a type II CBASS system from Bacillus cereus into the model organism Bacillus subtilis, we show that the protein-conjugating Cap2 (CBASS associated protein 2) enzyme links the cyclase exclusively to the conserved phage shock protein A (PspA) in the absence of phage. The cyclase–PspA conjugation is reversed by the deconjugating isopeptidase Cap3 (CBASS associated protein 3). We propose a model in which the cyclase is held in an inactive state by conjugation to PspA in the absence of phage, with conjugation released upon infection, priming the cyclase for activation.
Concurrent inhibition of oncogenic and wild-type RAS-GTP for cancer therapy
Authors: Holderfield Matthew , Lee Bianca J. , Jiang Jingjing , Tomlinson Aidan , Seamon Kyle J. , Mira Alessia , Patrucco Enrico , Goodhart Grace , Dilly Julien , Gindin Yevgeniy , Dinglasan Nuntana , Wang Yingyun , Lai Lick Pui , Cai Shurui , Jiang Lingyan , Nasholm Nicole , Shifrin Nataliya , Blaj Cristina , Shah Harshit , Evans James W. , Montazer Nilufar , Lai Oliver , Shi Jade , Ahler Ethan , Quintana Elsa , Chang Stephanie , Salvador Anthony , Marquez Abby , Cregg Jim , Liu Yang , Milin Anthony , Chen Anqi , Ziv Tamar Bar , Parsons Dylan , Knox John E. , Klomp Jennifer E. , Roth Jennifer , Rees Matthew , Ronan Melissa , Cuevas-Navarro Antonio , Hu Feng , Lito Piro , Santamaria David , Aguirre Andrew J. , Waters Andrew M. , Der Channing J. , Ambrogio Chiara , Wang Zhengping , Gill Adrian L. , Koltun Elena S. , Smith Jacqueline A. M. , Wildes David , Singh Mallika 
Published: April 2024

AbstractRAS oncogenes (collectively NRAS, HRAS and especially KRAS) are among the most frequently mutated genes in cancer, with common driver mutations occurring at codons 12, 13 and 611. Small molecule inhibitors of the KRAS(G12C) oncoprotein have demonstrated clinical efficacy in patients with multiple cancer types and have led to regulatory approvals for the treatment of non-small cell lung cancer2,3. Nevertheless, KRASG12C mutations account for only around 15% of KRAS-mutated cancers4,5, and there are no approved KRAS inhibitors for the majority of patients with tumours containing other common KRAS mutations. Here we describe RMC-7977, a reversible, tri-complex RAS inhibitor with broad-spectrum activity for the active state of both mutant and wild-type KRAS, NRAS and HRAS variants (a RAS(ON) multi-selective inhibitor). Preclinically, RMC-7977 demonstrated potent activity against RAS-addicted tumours carrying various RAS genotypes, particularly against cancer models with KRAS codon 12 mutations (KRASG12X). Treatment with RMC-7977 led to tumour regression and was well tolerated in diverse RAS-addicted preclinical cancer models. Additionally, RMC-7977 inhibited the growth of KRASG12C cancer models that are resistant to KRAS(G12C) inhibitors owing to restoration of RAS pathway signalling. Thus, RAS(ON) multi-selective inhibitors can target multiple oncogenic and wild-type RAS isoforms and have the potential to treat a wide range of RAS-addicted cancers with high unmet clinical need. A related RAS(ON) multi-selective inhibitor, RMC-6236, is currently under clinical evaluation in patients with KRAS-mutant solid tumours (ClinicalTrials.gov identifier: NCT05379985).
The PARTNER trial of neoadjuvant olaparib with chemotherapy in triple-negative breast cancer
Authors: Abraham Jean E. , Pinilla Karen , Dayimu Alimu , Grybowicz Louise , Demiris Nikolaos , Harvey Caron , Drewett Lynsey M. , Lucey Rebecca , Fulton Alexander , Roberts Anne N. , Worley Joanna R. , Chhabra Anita , Qian Wendi , Vallier Anne-Laure , Hardy Richard M. , Chan Steve , Hickish Tamas , Tripathi Devashish , Venkitaraman Ramachandran , Persic Mojca , Aslam Shahzeena , Glassman Daniel , Raj Sanjay , Borley Annabel , Braybrooke Jeremy P. , Sutherland Stephanie , Staples Emma , Scott Lucy C. , Davies Mark , Palmer Cheryl A. , Moody Margaret , Churn Mark J. , Newby Jacqueline C. , Mukesh Mukesh B. , Chakrabarti Amitabha , Roylance Rebecca R. , Schouten Philip C. , Levitt Nicola C. , McAdam Karen , Armstrong Anne C. , Copson Ellen R. , McMurtry Emma , Tischkowitz Marc , Provenzano Elena , Earl Helena M. 
Published: April 2024

AbstractPARTNER is a prospective, phase II–III, randomized controlled clinical trial that recruited patients with triple-negative breast cancer1,2, who were germline BRCA1 and BRCA2 wild type3. Here we report the results of the trial. Patients (n = 559) were randomized on a 1:1 basis to receive neoadjuvant carboplatin–paclitaxel with or without 150 mg olaparib twice daily, on days 3 to 14, of each of four cycles (gap schedule olaparib, research arm) followed by three cycles of anthracycline-based chemotherapy before surgery. The primary end point was pathologic complete response (pCR)4, and secondary end points included event-free survival (EFS) and overall survival (OS)5. pCR was achieved in 51% of patients in the research arm and 52% in the control arm (P = 0.753). Estimated EFS at 36 months in the research and control arms was 80% and 79% (log-rank P > 0.9), respectively; OS was 90% and 87.2% (log-rank P = 0.8), respectively. In patients with pCR, estimated EFS at 36 months was 90%, and in those with non-pCR it was 70% (log-rank P < 0.001), and OS was 96% and 83% (log-rank P < 0.001), respectively. Neoadjuvant olaparib did not improve pCR rates, EFS or OS when added to carboplatin–paclitaxel and anthracycline-based chemotherapy in patients with triple-negative breast cancer who were germline BRCA1 and BRCA2 wild type. ClinicalTrials.gov ID: NCT03150576.
A monthly gridded burned area database of national wildland fire data
Authors: Gincheva Andrina , Pausas Juli G. , Edwards Andrew , Provenzale Antonello , Cerdà Artemi , Hanes Chelene , Royé Dominic , Chuvieco Emilio , Mouillot Florent , Vissio Gabriele , Rodrigo Jesús , Bedía Joaquin , Abatzoglou John T. , Senciales González José María , Short Karen C. , Baudena Mara , Llasat Maria Carmen , Magnani Marta , Boer Matthias M. , González Mauro E. , Torres-Vázquez Miguel Ángel , Fiorucci Paolo , Jacklyn Peter , Libonati Renata , Trigo Ricardo M. , Herrera Sixto , Jerez Sonia , Wang Xianli , Turco Marco 
Published: April 2024

AbstractWe assembled the first gridded burned area (BA) database of national wildfire data (ONFIRE), a comprehensive and integrated resource for researchers, non-government organisations, and government agencies analysing wildfires in various regions of the Earth. We extracted and harmonised records from different regions and sources using open and reproducible methods, providing data in a common framework for the whole period available (starting from 1950 in Australia, 1959 in Canada, 1985 in Chile, 1980 in Europe, and 1984 in the United States) up to 2021 on a common 1° × 1° grid. The data originate from national agencies (often, ground mapping), thus representing the best local expert knowledge. Key opportunities and limits in using this dataset are discussed as well as possible future expansions of this open-source approach that should be explored. This dataset complements existing gridded BA data based on remote sensing and offers a valuable opportunity to better understand and assess fire regime changes, and their drivers, in these regions. The ONFIRE database can be freely accessed at https://zenodo.org/record/8289245.
Androgen deprivation alone versus combined with pelvic radiation for adverse events and quality of life in clinically node-positive prostate cancer
Authors: Lee Tae Hoon , Pyo Hongryull , Yoo Gyu Sang , Kim Jin Hee , Jeon Seong Soo , Seo Seong Il , Jeong Byong Chang , Jeon Hwang Gyun , Sung Hyun Hwan , Kang Minyong , Song Wan , Chung Jae Hoon , Park Won 
Published: April 2024

AbstractThe COHORT trial was conducted to compare the efficacy of androgen deprivation therapy (ADT) alone versus combined with radiation therapy (ADT + RT) for clinically node-positive prostate cancer. We reported adverse events and quality of life between the two treatment groups. Fifty-nine patients were randomized to receive ADT alone or ADT + RT and analyzed as per-protocol. Patients allocated to the ADT alone arm received ADT for at least 2 years. Patients in the ADT + RT arm received additional pelvic RT. Higher rates of grade ≥ 2 acute genitourinary (0% vs. 7.1%) and late gastrointestinal adverse events (0% vs. 14.3%) were reported in the ADT + RT arm compared with the ADT alone. However, grade ≥ 2 late genitourinary toxicity was more common in the ADT alone than the ADT + RT arm (9.7% vs. 3.6%). No grade ≥ 3 adverse events were reported. There was no statistically significant difference in EPIC scores between two treatment arms. However, the urinary and bowel domains tended to decrease and recover in the ADT + RT arm. In conclusion, ADT + RT demonstrated higher rates of adverse events compared to ADT alone. However, the addition of RT did not significantly impact the quality of life.
Development and validation of burnout factors questionnaire in the operating room nurses
Authors: Teymoori Esmaeil , Fereidouni Armin , Zarei Mohammadreza , Babajani-Vafsi Saeed , Zareiyan Armin 
Published: April 2024

AbstractNurses may experience burnout more than other professions. Occupational burnout is a serious concern considering the importance of nurses' jobs in patient care. This study was carried out with the aim of designing and validating the questionnaire of burnout factors in the operating room nurses. Mixed method study was done in two qualitative and quantitative phases in 2022 on Iranian operating room nurses. In the first stage, the concept of operating room nurses' burnout was explained using interviews and literature review, and items were generated. In the second stage, the face validity, content and construct validity of the questionnaire was examined with 342 operating room nurses, and also the reliability of the questionnaire was tested using internal consistency (Cronbach's alpha) and stability (test–retest). After conducting the interview and literature review, 65 questions were extracted. Based on face validity, 4 items were modified. After content validity, 40 items remained. In construct validity, after exploratory factor analysis, 34 items with 5 dimensions were extracted. These dimensions included Organizational, Individual, Interpersonal, Occupational Nature and Managerial factors. Cronbach's alpha and intra-class correlation coefficient were equal to 0.937 and 0.946, respectively. The designed tool based on understanding the concept of burnout in operating room nurses has appropriate and acceptable validity and reliability. Therefore, it can be used to measure burnout in operating room nurses.
Reliability and validity of handheld structured light scanners and a static stereophotogrammetry system in facial three-dimensional surface imaging
Authors: Schipper J. A. M. , Merema B. J. , Hollander M. H. J. , Spijkervet F. K. L. , Dijkstra P. U. , Jansma J. , Schepers R. H. , Kraeima J. 
Published: April 2024

AbstractSeveral new systems for three-dimensional (3D) surface imaging of the face have become available to assess changes following orthognathic or facial surgery. Before they can be implemented in practice, their reliability and validity must be established. Our aim, therefore, was to study the intra- and inter-system reliability and validity of 3dMD (stereophotogrammetry), Artec Eva and Artec Space Spider (both structured light scanners). Intra- and inter-system reliability, expressed in root mean square distance, was determined by scanning a mannequin’s head and the faces of healthy volunteers multiple times. Validity was determined by comparing the linear measurements of the scans with the known distances of a 3D printed model. Post-processing errors were also calculated. Intra-system reliability after scanning the mannequin’s head was best with the Artec Space Spider (0.04 mm Spider; 0.07 mm 3dMD; 0.08 mm Eva). The least difference in inter-system reliability after scanning the mannequin’s head was between the Artec Space Spider and Artec Eva. The best intra-system reliability after scanning human subjects was with the Artec Space Spider (0.15 mm Spider; 0.20 mm Eva; 0.23 mm 3dMD). The least difference in inter-system reliability after scanning human subjects was between the Artec Eva and Artec Space Spider. The most accurate linear measurement validity occurred with the Artec Space Spider. The post-processing error was 0.01 mm for all the systems. The Artec Space Spider is the most reliable and valid scanning system.