bluuebunny/crossref_metadata_2025_split huggingface dataset:
Locked and loaded: correlates of in-home firearm storage beliefs and behaviours
Authors: Warner Tara D 
Published: February 2024

ObjectivesTo understand how crime and victimisation fears and risks operate alongside social status threats and motivations to shape unsafe in-home firearm storage practices and beliefs.MethodsUsing data from firearm owners identified in a nationwide sample surveyed in 2023, this study examined how in-home loaded firearm accessibility, firearm storage practice and firearm safety beliefs are associated with: fear of crime and victimisation; perceived and personal victimisation; racial resentment; cultural and status threats; and masculinity threats. Regression models also accounted for the role of gender, race, marital status, political affiliation, geographic region and protective motivation for firearm ownership.ResultsOver 40% of firearm owners reported having a loaded firearm ‘always accessible’ at home, and almost half think homes with firearms are safer than those without. About one-third of owners reported storing firearms locked but still loaded. Crime and victimisation fears and threats were unrelated to firearm storage behaviours and beliefs; however, firearm owners who experience higher levels of sociocultural anxiety are more likely to always have a loaded firearm accessible at home, store firearms locked and loaded, and believe that firearms make homes safer.ConclusionsIdentifying the barriers to safer storage beliefs and behaviours is essential for refining and enhancing effective firearm injury prevention strategies. Sociocultural anxieties may not reflect concrete threats to physical safety, but they can be experienced as feelings of insecurity, instability and distress that—for some Americans—may be managed by knowing they have a (loaded) firearm within reach.
Improved sensitivity for detection of pathogenic variants in familialNF2-related schwannomatosis
Authors: Perez-Becerril Cristina , Burghel George J , Hartley Claire , Rowlands Charles F , Evans D Gareth , Smith Miriam J 
Published: February 2024

PurposeTo determine the impact of additional genetic screening techniques on the rate of detection of pathogenic variants leading to familialNF2-related schwannomatosis.MethodsWe conducted genetic screening of a cohort of 168 second-generation individuals meeting the clinical criteria forNF2-related schwannomatosis. In addition to the current clinical screening techniques, targeted next-generation sequencing (NGS) and multiplex ligation-dependent probe amplification analysis, we applied additional genetic screening techniques, including karyotype and RNA analysis. For characterisation of a complex structural variant, we also performed long-read sequencing analysis.ResultsAdditional genetic analysis resulted in increased sensitivity of detection of pathogenic variants from 87% to 95% in our second-generationNF2-related schwannomatosis cohort. A number of pathogenic variants identified through extended analysis had been previously observed after NGS analysis but had been overlooked or classified as variants of uncertain significance.ConclusionOur study indicates there is added value in performing additional genetic analysis for detection of pathogenic variants that are difficult to identify with current clinical genetic screening methods. In particular, RNA analysis is valuable for accurate classification of non-canonical splicing variants. Karyotype analysis and whole genome sequencing analysis are of particular value for identification of large and/or complex structural variants, with additional advantages in the use of long-read sequencing techniques.
Competitive leptomeningeal flow impact on thrombectomy reperfusion grade rating
Authors: Aboul-Nour Hassan , Dolia Jaydevsinh , Tarek Mohamed A , Grossberg Jonathan A , Pabaney Aqueel , Damiani Mateus , Al-Bayati Alhamza R , Nogueira Raul G , Haussen Diogo C 
Published: February 2024

Background
Competitive leptomeningeal flow (CLF) can be observed immediately after mechanical thrombectomy (MT) reperfusion with retrograde contrast clearing of the distal leptomeningeal branches from non-contrast opacified flow through different vascular territories. We aim to evaluate the frequency of the CLF phenomenon, to determine if it has an association with the degree of leptomeningeal collateral status, and to understand the potentia impact it may have on the final expanded Treatment in Cerebral Ischemia (eTICI) score rating.

Methods
Retrospective analysis of a prospective MT database spanning November 2020 to December 2021. Consecutive cases of intracranial internal carotid (i-ICA) or middle cerebral artery (MCA) M1 occlusions were included. CLF was defined by the observation of retrograde clearing of distal MCA branches that were previously opacified by antegrade reperfusion. The clearance of the distal branches is presumed to occur due to CLF via non-contrast opacified posterior cerebral artery or anterior cerebral artery flow. The washout was considered CLF if it cleared abruptly with or without forward reconstitution of antegrade opacification.

Results
A total of 125 patients met the inclusion criteria. The median age was 64 years (IQR 52.5–75) and 64 (51%) were men. The baseline median National Institutes of Health Stroke Scale score was 17 (IQR 12–22) and the Alberta Stroke Program Early CT Score was 9 (IQR 8–10). Median last known well time to puncture was 7 hours (IQR 4–13.1) and 30.4% received tissue plasminogen activator. Final eTICI 2c–3 was achieved in 80%. CLF was present in 32 (25.6%) patients, who had comparable baseline characteristics to patients without CLF. Twelve (37.5%) patients had regional CLF and 20 (62.5%) had focal CLF. The CLF arm had better leptomeningeal single-phase CTA collaterals than the non-CLF arm (P=0.01). The inter-rater agreement for the eTICI score was moderate when CLF was present and strong in its absence (Krippendorf’s alpha=0.65 and 0.81, respectively). There was minimal agreement (Kappa=0.3) for the presence versus absence of CLF between the two operators, possibly related to reader experience.

Conclusion
CLF was observed in 32% of patients, was associated with better collateral flow, and impacted the reported procedural eTICI rating.
The influence of epigenetic biological age on key complications and outcomes in aneurysmal subarachnoid haemorrhage
Authors: Macias-Gómez Adrià , Jiménez-Balado Joan , Fernández‑Pérez Isabel , Suárez‑Pérez Antoni , Vallverdú-Prats Marta , Guimaraens Leopoldo , Vivas Elio , Saldaña Jesus , Giralt-Steinhauer Eva , Guisado-Alonso Daniel , Villalba Gloria , Gracia Maria-Pilar , Esteller Manel , Rodriguez-Campello Ana , Jiménez-Conde Jordi , Ois Angel , Cuadrado-Godia Elisa 
Published: February 2024

Background
We aimed to investigate the association between DNA-methylation biological age (B-age) calculated as age acceleration (ageAcc) and key aneurysmal subarachnoid haemorrhage (aSAH) complications such as vasospasm, delayed cerebral ischaemia (DCI), poor outcome, and mortality.

Methods
We conducted a prospective study involving 277 patients with aSAH. B-age was determined in whole blood samples using five epigenetic clocks: Hannum’s, Horvath’s, Levine’s and both versions of Zhang’s clocks. Age acceleration was calculated as the residual obtained from regressing out the effect of C-age on the mismatch between C-age and B-age. We then tested the association between ageAcc and vasospasm, DCI and 12-month poor outcome (mRS 3–5) and mortality using linear regression models adjusted for confounders.

Results
Average C-age was 55.0 years, with 66.8% being female. Vasospasm occurred in 143 cases (51.6%), DCI in 70 (25.3%) and poor outcomes in 99 (35.7%), with a mortality rate of 20.6%. Lower ageAcc was linked to vasospasm in Horvath’s and Levine’s clocks, whereas increased ageAcc was associated with 12-month mortality in Hannum’s clock. No significant differences in ageAcc were found for DCI or poor outcome at 12 months with other clocks.

Conclusions
Our study indicates that B-age is independently associated with vasospasm and 12-month mortality in patients with aSAH. These findings underscore the potential role of epigenetics in understanding the pathophysiology of aSAH-related complications and outcomes.
Novel multiclass classification machine learning approach for the early-stage classification of systemic autoimmune rheumatic diseases
Authors: Wang Yun , Wei Wei , Ouyang Renren , Chen Rujia , Wang Ting , Yuan Xu , Wang Feng , Hou Hongyan , Wu Shiji 
Published: February 2024

ObjectiveSystemic autoimmune rheumatic diseases (SARDs) encompass a diverse group of complex conditions with overlapping clinical features, making accurate diagnosis challenging. This study aims to develop a multiclass machine learning (ML) model for early-stage SARDs classification using accessible laboratory indicators.MethodsA total of 925 SARDs patients were included, categorised into SLE, Sjögren’s syndrome (SS) and inflammatory myositis (IM). Clinical characteristics and laboratory markers were collected and nine key indicators, including anti-dsDNA, anti-SS-A60, anti-Sm/nRNP, antichromatin, anti-dsDNA (indirect immunofluorescence assay), haemoglobin (Hb), platelet, neutrophil percentage and cytoplasmic patterns (AC-19, AC-20), were selected for model building. Various ML algorithms were used to construct a tripartite classification ML model.ResultsPatients were divided into two cohorts, cohort 1 was used to construct a tripartite classification model. Among models assessed, the random forest (RF) model demonstrated superior performance in distinguishing SLE, IM and SS (with area under curve=0.953, 0.903 and 0.836; accuracy= 0.892, 0.869 and 0.857; sensitivity= 0.890, 0.868 and 0.795; specificity= 0.910, 0.836 and 0.748; positive predictive value=0.922, 0.727 and 0.663; and negative predictive value= 0.854, 0.915 and 0.879). The RF model excelled in classifying SLE (precision=0.930, recall=0.985, F1 score=0.957). For IM and SS, RF model outcomes were (precision=0.793, 0.950; recall=0.920, 0.679; F1 score=0.852, 0.792). Cohort 2 served as an external validation set, achieving an overall accuracy of 87.3%. Individual classification performances for SLE, SS and IM were excellent, with precision, recall and F1 scores specified. SHAP analysis highlighted significant contributions from antibody profiles.ConclusionThis pioneering multiclass ML model, using basic laboratory indicators, enhances clinical feasibility and demonstrates promising potential for SARDs classification. The collaboration of clinical expertise and ML offers a nuanced approach to SARDs classification, with potential for enhanced patient care.
Safety and efficacy of colchicine in crystal-induced arthritis flare in 54 patients with severe chronic kidney disease
Authors: Bausson Johanna , Keller Nicolas , Von Hunolstein Jean-Jacques , Sacrez Matthieu , Michel Bruno , Gourieux Bénédicte , Fourtage Marion , Felten Renaud 
Published: February 2024

IntroductionColchicine, commonly used in gout flare, is contraindicated in severe chronic kidney disease (CKD) (estimated glomerular filtration rate <30 mL/min). However, in this context, there are few alternatives, and colchicine use persists. We evaluated the tolerance of colchicine and its efficacy in patients with severe CKD.Patients and methodsAll prescriptions of colchicine for managing crystal-induced arthritis flare (gout or calcium pyrophosphate deposition (CPPD) disease) in a hospitalised patient with severe CKD were screened from September 2020 to September 2021. After patient consent and treatment information, clinical and biological safety and efficacy data were prospectively collected from day 1 (D1) to D11.ResultsWe included 54 patients (median age 75 years (IQR 67–83)) with 62 colchicine prescriptions (cases). Twelve (22%) patients were on dialysis. The main reason for hospitalisation was heart failure (31.5%), acute renal failure (22.2%), infection (18.5%) or an acute joint episode (9.3%). In total, 59.3% of patients had diabetes. The prescriptions concerned 58 cases of gout flares, 1 case of CPPD and 3 cases of both. Initial colchicine dosages were ≤0.5 mg/day in 47/62 (75.8%) cases; no dosage exceeded 1 mg/day (median duration of 6 days (IQR 3–11)). Colchicine was well tolerated in 47/61 (77%) cases. No serious adverse event was reported. Colchicine was considered completely effective by the medical team in 48/58 (83%) of cases.ConclusionThe use of colchicine, at reduced doses, was mostly effective to treat crystal-induced arthritis flare in 54 patients with severe CKD and was well tolerated, without any serious adverse events.
Classical and quantum cosmology for two scalar field Brans–Dicke type theory: a Noether symmetry approach
Authors: Hembrom Shriton , Bhaumik Roshni , Dutta Sourav , Chakraborty Subenoy 
Published: February 2024

AbstractThe paper deals with a cosmological model containing two scalar fields which can be considered as an extension of the Brans–Dicke scalar field model. Due to highly coupled non linear field equations, Noether symmetry analysis has been imposed and as a result the Lagrangian as well as the field equations become much simple in form to have the classical solutions. The relevant cosmological parameters are analyzed graphically. Finally, quantum cosmology has been studied by constructing the Wheeler–DeWitt equation and the solution of this second order partial differential equation has been done using this symmetry analysis.
Non-perturbative suppression of chiral vortical effect in hot (s)QGP for hyperons spin polarization in heavy ion collisions
Authors: Abramchuk Ruslan A. , Selch Maik 
Published: February 2024

AbstractWith the field correlator method (FCM) for QCD, we show that the chiral vortical effect (CVE) in hot (strongly-interacting) quark-gluon plasma ((s)QGP) is modified by non-perturbative interactions – by color-magnetic confinement, and by remnant color-electric interaction, which is encoded in the Polyakov line. The obtained result demonstrates numerical suppression of CVE comparable to the phenomenological suppression used for numerical simulations of RHIC-STAR data on hyperons spin polarization in non-central heavy ion collision (HIC). The parameters range in the temperature – quark chemical potential plane is expected to cover ALICE and RHIC data. The chiral current is calculated for the rigidly rotating model of (s)QGP in the linear order in angular velocity at the rotation axis with account of non-perturbative interactions.
Lipofibromatous Hamartoma of the Median Nerve – A Rare Condition in the Hand
Authors: JIANMONGKOL Surut , HOMKLAI Kittiphong , SUMANANONT Chat , VINITPAIROT Chaiyos 
Published: February 2024

Lipofibromatous hamartoma (LFH) of the median nerve is a rare condition in the hand and often remains asymptomatic for a significant period. MRI imaging can reveal unique tumour characteristics; however, the definitive diagnosis is confirmed through a tissue biopsy. In this report, a 38-year-old male presented with a gradually growing mass on his right hand. Physical examination revealed a large soft tissue mass extending from the thenar area to the wrist, causing compression of the median nerve. MRI confirmed the presence of a distinct soft tissue mass on the volar side of the hand. The mass was excised along with a fascicle and confirmed by histological examination. One year after surgery, sensation has improved, but weakness remains and opponensplasty was offered to the patient. Although the treatment strategy of LFH of the median nerve remains controversial, delayed treatment can result in severe compressive neuropathy and irreversible nerve damage. Level of Evidence: Level V (Therapeutic)
Abstract A051: Mitochondrial metabolism and fission as dynamic drivers of breast cancer metastasis
Authors: Savage Hannah , Ma Dennis , Lawson Devon 
Published: February 2024

Abstract
Approximately 30% of women with early-stage breast cancer will develop metastatic disease, making efforts to define drivers of metastasis critical. Our group found that metastatic breast cancer cells express an oxidative phosphorylation (OXPHOS) gene signature. Further, inhibiting OXPHOS reduced metastatic seeding, thus revealing the functional role of mitochondrial metabolism in breast cancer metastasis. It is understood that mitochondria are highly dynamic organelles that are regulated by a balance of fission and fusion proteins; however, it remains poorly understood how mitochondrial metabolism and their dynamics promote cancer spreading. To interrogate mitochondrial heterogeneity within primary tumors, we sorted tumor cells from patient derived xenograft (HCI010) and murine (4T1) breast tumors stratified by low or high uptake of tetramethylrhodamine methyl ester (TMRM, a dye that accumulates in active mitochondria undergoing OXPHOS). Low or high cell fractions were re-injected intravenously in new cohorts of mice. We found greater metastatic burden in the lungs of mice injected with the TMRM high fraction. Furthermore, we uncovered that the TMRM high cells had greater mitochondria abundance than TMRM low cells. We hypothesized the differences in mitochondrial content we observed in primary tumor cells is caused by shifts in cellular expression of mitochondria fission and fusion proteins. Consistent with this hypothesis, we found that TMRM high, metastatic tumor cells had greater expression of mitochondria fission gene, DRP1, and lower expression of fusion gene, MFN2. Collectively, our results revealed heterogeneity in tumor cell mitochondrial content within a primary tumor that appears to influence the fitness of a cell to metastasize. Lastly, our data supports a role for mitochondrial fission in breast cancer metastasis. Future directions for our studies will include genetic and pharmacological modulation of mitochondrial fission and fusion to better understand why it influences metastasis and at what point during the metastatic cascade.
Citation Format: Hannah Savage, Dennis Ma, Devon Lawson. Mitochondrial metabolism and fission as dynamic drivers of breast cancer metastasis [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Breast Cancer Research; 2023 Oct 19-22; San Diego, California. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_1):Abstract nr A051.
Abstract IA05: Leveraging preclinical models of triple negative breast cancer for translational research
Authors: Rosen Jeffrey M , Pedroza Diego , Zhao Na , Zhang Xiang H-F , Perou Charles M 
Published: February 2024

Abstract
We have developed multiple novel preclinical syngeneic triple negative breast cancer(TNBC) genetically engineered mouse (GEM) models, which have been characterized genomically and with respect to their immune microenvironments. By integrating the immunological characterization of murine syngeneic mammary tumor models with analyses of human breast cancer datasets, we have demonstrated a relationship between EMT and myeloid cells, specifically tumor-associated macrophages (TAMs). We also have leveraged our syngeneic GEM models to define the response to immune checkpoint blockade therapy (ICBT) with emphasis on the myeloid cell environment. We have used our GEM models to test single agent drugs along with standard-of-care therapies for appropriate durations. Finally, we have tested these treatment regimens on established metastases with sufficient tumor burdens. Specifically, we will present results illustrating how CSF-1R targeting therapy combined with metronomic chemotherapy enhances a B and T cell response for the treatment of metastatic TNBC. In additional we well discuss how targeting the RNA helicase eIF4A that unwinds the secondary structures in the 5’UTR of mRNAs to facilitate translation initiation triggers an interferon response to suppress TNBC.
Citation Format: Jeffrey M Rosen, Diego Pedroza, Na Zhao, Xiang H-F Zhang, Charles M Perou. Leveraging preclinical models of triple negative breast cancer for translational research [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Advances in Breast Cancer Research; 2023 Oct 19-22; San Diego, California. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_1):Abstract nr IA05.
Abstract A029: Merlin/NF2 inhibits pancreatic cancer metastasis by activation of AMPK-dependent autophagic degradation of p62
Authors: Zhang Yuxia , Ojeda Virginia , Wang Xiaobo , Dunner Ken , Giancotti Filippo , Zhou Hao , Hernandez Jonathan , Xu Steven Q. 
Published: February 2024

Abstract
This abstract is being presented as a short talk in the scientific program. A full abstract is printed in the Proffered Abstracts section (PR004) of the Conference Program/Proceedings.
Citation Format: Yuxia Zhang, Virginia Ojeda, Xiaobo Wang, Ken Dunner, Filippo Giancotti, Hao Zhou, Jonathan Hernandez, Steven Q. Xu. Merlin/NF2 inhibits pancreatic cancer metastasis by activation of AMPK-dependent autophagic degradation of p62 [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Translating Cancer Evolution and Data Science: The Next Frontier; 2023 Dec 3-6; Boston, Massachusetts. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_2):Abstract nr A029.
Abstract A032: Cellos: High-throughput deconvolution of 3D organoid dynamics at cellular resolution for cancer pharmacology
Authors: Mukashyaka Patience , Kumar Pooja , Mellert David J. , Nicholas Shadae , Noorbakhsh Javad , Brugiolo Mattia , Anczukow Olga , Liu Edison T. , Chuang Jeffrey H. 
Published: February 2024

Abstract
Three-dimensional (3D) culture models, such as organoids, are flexible systems to interrogate cellular evolution, cellular growth and morphology, multicellular spatial architecture, and cell interactions in response to drug treatment. However, new computational methods to segment and analyze 3D models at cellular resolution with sufficiently high throughput are needed to realize these possibilities. Here we report Cellos (Cell and Organoid Segmentation), an accurate, high throughput image analysis pipeline for 3D organoid and nuclear segmentation analysis. Cellos segments organoids in 3D using classical algorithms and segments nuclei using a Stardist-3D convolutional neural network which we trained on manually annotated dataset of 3,862 cells. To evaluate the capabilities of Cellos we then analyzed 74,450 organoids with 1.65 million cells, from multiple experiments on triple negative breast cancer organoids containing clonal mixtures with complex cisplatin sensitivies. Cellos was able to accurately distinguish ratios of distinct fluorescently labeled cell populations in organoids, with &lt; 3% deviation from seeding ratios in each well and was effective for both fluorescently labelled nuclei and independent Hoechst stained datasets. Cellos was able to recapitulate traditional luminescence-based drug response quantification by analyzing 3D images, including parallel analysis of multiple cancer clones in the same well. Moreover, Cellos was able to identify organoid and nuclei morphology features associated with treatment and unique to each of the clones. Finally, Cellos enables 3D analysis of cell spatial relationships, which we used to detect ecological affinity between cancer clones beyond what arises from local cell division and organoid composition. Cellos provides powerful tools to perform high throughput analysis for pharmacological testing and biological investigation of organoids based on 3D imaging.
Citation Format: Patience Mukashyaka, Pooja Kumar, David J. Mellert, Shadae Nicholas, Javad Noorbakhsh, Mattia Brugiolo, Olga Anczukow, Edison T. Liu, Jeffrey H. Chuang. Cellos: High-throughput deconvolution of 3D organoid dynamics at cellular resolution for cancer pharmacology [abstract]. In: Proceedings of the AACR Special Conference in Cancer Research: Translating Cancer Evolution and Data Science: The Next Frontier; 2023 Dec 3-6; Boston, Massachusetts. Philadelphia (PA): AACR; Cancer Res 2024;84(3 Suppl_2):Abstract nr A032.