bluuebunny/crossref_metadata_2025_split huggingface dataset:
‘Hartite’ renamed branchite
Authors: Bonaccorsi Elena , Farina Simone , Biagioni Cristian , Pasero Marco 
Published: May 2022

AbstractHistorical samples of branchite, described by the Tuscan naturalist Paolo Savi (1798–1871) at the end of the 1830s, were re-examined through single-crystal X-ray diffraction, showing their identity with hartite, C20H34, a hydrocarbon mineral described by Haidinger in 1841. The refined unit-cell parameters are a = 11.4116(7), b = 20.9688(12), c = 7.4100(4) Å, α = 93.947(2), β = 100.734(2), γ = 80.524(2)°, V = 1716.99(17) Å3 and Z = 4; space group P1. The crystal structure was solved and refined up to R1 = 0.0424 for 13512 reflections with Fo > 4σ(Fo) and 1265 refined parameters. As the name ‘branchite’ has priority over ‘hartite’, the reinstatement of the former name and the discreditation of the latter were approved by the Commission on New Minerals, Nomenclature and Classification of the International Mineralogical Association (IMA–CNMNC). Branchite is one of only eleven minerals formed by C and H listed in the official IMA List of Minerals. The type locality of branchite is the Botro di Lavajano, Monte Vaso, Chianni, Pisa, Tuscany, Italy. Neotype material is kept in the Natural History Museum of the Pisa University under catalogue number 14426.
Dominant epitopes presented by prevalent HLA alleles permit wide use of banked CMVpp65 T cells in adoptive therapy
Authors: Hasan Aisha N. , Doubrovina Ekaterina , Sottile Rosa , Prockop Susan , Klatt Martin G. , Heller Glenn , Selvakumar Annamalai , Barnett Lorna , Hsu Katharine C. , O’Reilly Richard J. 
Published: May 2022

Abstract
We established and characterized a bank of 138 CMVpp65 peptide-specific T-cell (CMVpp65CTLs) lines from healthy marrow transplant donors who consented to their use for treatment of individuals other than their transplant recipient. CMVpp65CTL lines included 131 containing predominantly CD8+ T cells and 7 CD4+ T cells. CD8+ CMVpp65CTLs were specific for 1 to 3 epitopes each presented by one of only 34 of the 148 class I alleles in the bank. Similarly, the 7 predominantly CD4+ CMVpp65CTL lines were each specific for epitopes presented by 14 of 40 HLA DR alleles in the bank. Although the number of HLA alleles presenting CMV epitopes is low, their prevalence is high, permitting selection of CMVpp65CTLs restricted by an HLA allele shared by transplant recipient and hematopoietic cell transplant donor for &gt;90% of an ethnogeographically diverse population of hematopoietic cell transplant recipients. Within individuals, responses to CMVpp65 peptides presented by different HLA alleles are hierarchical. Furthermore, within groups, epitopes presented by HLA B*07:02 and HLA A*02:01 consistently elicit immunodominant CMVpp65CTLs, irrespective of other HLA alleles inherited. All dominant CMVpp65CTLs exhibited HLA-restricted cytotoxicity against epitope loaded targets and usually cleared CMV infections. However, immunodominant CMVpp65CTLs responding to epitopes presented by certain HLA B*35 alleles were ineffective in lysing CMV-infected cells in vitro or controlling CMV infections post adoptive therapy. Analysis of the hierarchy of T-cell responses to CMVpp65, the HLA alleles presenting immunodominant CMVpp65 epitopes, and the responses they induce may lead to detailed algorithms for optimal choice of third-party CMVpp65CTLs for effective adoptive therapy.
Cardiovascular outcomes in patients with chronic kidney disease and COVID-19: a multi-regional data-linkage study
Authors: Lambourg Emilie J. , Gallacher Peter J. , Hunter Robert W. , Siddiqui Moneeza , Miller-Hodges Eve , Chalmers James D. , Pugh Dan , Dhaun Neeraj , Bell Samira 
Published: May 2022

BackgroundData describing cardiovascular outcomes in patients with coronavirus disease 2019 (COVID-19) and chronic kidney disease (CKD) are lacking. We compared cardiovascular outcomes of patients with and without COVID-19, stratified by CKD status.MethodsThis retrospective, multi-regional data-linkage study utilised individual patient-level data from two Scottish cohorts. All patients tested for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in Cohort 1 between 1 February 2020 and 31 March 2021 and in Cohort 2 between 28 February 2020 and 8 February 2021 were included.ResultsOverall, 86 964 patients were tested for SARS-CoV-2. There were 36 904 patients (mean±sdage 61±21 years; 58.1% women; 15.9% CKD; 10.1% COVID-19 positive) in Cohort 1 and 50 060 patients (mean±sdage 63±20 years; 62.0% women; 16.4% CKD; 9.1% COVID-19 positive) in Cohort 2. In CKD patients, COVID-19 increased the risk of cardiovascular death by more than two-fold within 30 days (cause-specific hazard ratio (csHR) meta-estimate 2.34, 95% CI 1.83–2.99) and by 57% at the end of study follow-up (csHR meta-estimate 1.57, 95% CI 1.31–1.89). Similarly, the risk of all-cause death in COVID-19 positiveversusnegative CKD patients was greatest within 30 days (HR 4.53, 95% CI 3.97–5.16). Compared with patients without CKD, those with CKD had a higher risk of testing positive (11.5%versus9.3%). Following a positive test, CKD patients had higher rates of cardiovascular death (11.1%versus2.7%), cardiovascular complications and cardiovascular hospitalisations (7.1%versus3.3%) than those without CKD.ConclusionsCOVID-19 increases the risk of cardiovascular and all-cause death in CKD patients, especially in the short-term. CKD patients with COVID-19 are also at a disproportionate risk of cardiovascular complications than those without CKD.
A systematic review with meta-analysis of biomarkers for detection of pulmonary arterial hypertension
Authors: Smits A. Josien , Botros Liza , Mol Marijke A.E. , Ziesemer Kirsten A. , Wilkins Martin R. , Vonk Noordegraaf Anton , Bogaard Harm Jan , Aman Jurjan 
Published: May 2022

RationaleThe blood is a rich source of potential biomarkers for the diagnosis of idiopathic and hereditary pulmonary arterial hypertension (iPAH and hPAH, referred to as “PAH”). While a lot of biomarkers have been identified for PAH, the clinical utility of these biomarkers often remains unclear. Here, we performed an unbiased meta-analysis of published biomarkers to identify biomarkers with the highest performance for detection of PAH.MethodsA literature search (in PubMed, Embase.com, Clarivate Analytics/Web of Science Core Collection and Wiley/Cochrane Library) was performed up to 28 January 2021. Primary end points were blood biomarker levels in PAHversusasymptomatic controls or patients suspected of pulmonary hypertension (PH) with proven normal haemodynamic profiles.Results149 articles were identified by the literature search. Meta-analysis of 26 biomarkers yielded 17 biomarkers that were differentially expressed in PAH and non-PH control subjects. Red cell distribution width, low density lipid-cholesterol, d-dimer, N-terminal prohormone of brain natriuretic protein (NT-proBNP), interleukin-6 (IL-6) and uric acid were biomarkers with the largest observed differences, largest sample sizes and a low risk of publication bias. Receiver operating characteristic curves and sensitivity/specificity analyses demonstrated that NT-proBNP had a high sensitivity, but low specificity for PAH. For the other biomarkers, insufficient data on diagnostic accuracy with receiver operating characteristic curves were available for meta-analysis.ConclusionThis meta-analysis validates NT-proBNP as a biomarker with high sensitivity for PAH, albeit with low specificity. The majority of biomarkers evaluated in this meta-analysis lacked either external validation or data on diagnostic accuracy. Further validation studies are required as well as studies that test combinations of biomarkers to improve specificity.
Acoustic surveillance of cough for detecting respiratory disease using artificial intelligence
Authors: Gabaldón-Figueira Juan C. , Keen Eric , Giménez Gerard , Orrillo Virginia , Blavia Isabel , Doré Dominique Hélène , Armendáriz Nuria , Chaccour Juliane , Fernandez-Montero Alejandro , Bartolomé Javier , Umashankar Nita , Small Peter , Grandjean Lapierre Simon , Chaccour Carlos 
Published: May 2022

Research questionCan smartphones be used to detect individual and population-level changes in cough frequency that correlate with the incidence of coronavirus disease 2019 (COVID-19) and other respiratory infections?MethodsThis was a prospective cohort study carried out in Pamplona (Spain) between 2020 and 2021 using artificial intelligence cough detection software. Changes in cough frequency around the time of medical consultation were evaluated using a randomisation routine; significance was tested by comparing the distribution of cough frequencies to that obtained from a model of no difference. The correlation between changes of cough frequency and COVID-19 incidence was studied using an autoregressive moving average analysis, and its strength determined by calculating its autocorrelation function (ACF). Predictors for the regular use of the system were studied using a linear regression. Overall user experience was evaluated using a satisfaction questionnaire and through focused group discussions.ResultsWe followed-up 616 participants and collected >62 000 coughs. Coughs per hour surged around the time cohort subjects sought medical care (difference +0.77 coughs·h−1; p=0.00001). There was a weak temporal correlation between aggregated coughs and the incidence of COVID-19 in the local population (ACF 0.43). Technical issues affected uptake and regular use of the system.InterpretationArtificial intelligence systems can detect changes in cough frequency that temporarily correlate with the onset of clinical disease at the individual level. A clearer correlation with population-level COVID-19 incidence, or other respiratory conditions, could be achieved with better penetration and compliance with cough monitoring.
Assessment for residual disease after pulmonary endarterectomy in patients with chronic thromboembolic pulmonary hypertension
Authors: Butler Oisín , Ju Shinyoung , Hoernig Soeren , Vogtländer Kai , Bansilal Sameer , Heresi Gustavo A. 
Published: May 2022

ObjectivesPulmonary endarterectomy (PEA) is recommended for eligible patients with chronic thromboembolic pulmonary hypertension (CTEPH) and is potentially curative. However, persistent/recurrent CTEPH post-PEA can occur. Here we describe symptom and diagnostic assessment rates for residual disease post-PEA and longitudinal diagnostic patterns before and after riociguat approval for persistent/recurrent CTEPH after PEA.MethodsThis US retrospective cohort study analysed MarketScan data (1 January 2002–30 September 2018) from patients who underwent PEA following a CTEPH/pulmonary hypertension (PH) claim with at least 730 days of continuous enrolment post-PEA. Data on pre-specified PH symptoms and the types and timings of diagnostic assessments were collected.ResultsOf 103 patients (pre-riociguat approval, n=55; post-riociguat approval, n=48), residual PH symptoms >3 months after PEA were reported in 89% of patients. Overall, 89% of patients underwent one or more diagnostic tests (mean 4.6 tests/patient), most commonly echocardiography (84%), with only 5% of patients undergoing right heart catheterisation (RHC). In the post-versuspre-riociguat approval subgroup, assessments were more specific for CTEPH with an approximately two-fold increase in 6-min walk distance andN-terminal prohormone of brain natriuretic protein measurements and ventilation/perfusion scans, and a four-fold increase in RHCs.ConclusionsLow RHC rates suggest that many patients with PH symptoms post-PEA are not being referred for full diagnostic workup. Changes to longitudinal diagnostic patterns may indicate increased recognition of persistent/recurrent CTEPH post-PEA; however, there remains a need for greater awareness around the importance of continued follow-up for patients with residual PH symptoms post-PEA.
Post-Impact Motion Planning and Tracking Control for Autonomous Vehicles
Authors: Wang Cong , Wang Zhenpo , Zhang Lei , Yu Huilong , Cao Dongpu 
Published: May 2022

AbstractThere is an increasing awareness of the need to reduce traffic accidents and fatality due to vehicle collision. Post-impact hazards can be more serious as the driver may fail to maintain effective control after collisions. To avoid subsequent crash events and to stabilize the vehicle, this paper proposes a post-impact motion planning and stability control method for autonomous vehicles. An enabling motion planning method is proposed for post-impact situations by combining the polynomial curve and artificial potential field while considering obstacle avoidance. A hierarchical controller that consists of an upper and a lower controller is then developed to track the planned motion. In the upper controller, a time-varying linear quadratic regulator is presented to calculate the desired generalized forces. In the lower controller, a nonlinear-optimization-based torque allocation algorithm is proposed to optimally coordinate the actuators to realize the desired generalized forces. The proposed scheme is verified under comprehensive driving scenarios through hardware-in-loop tests.
Biclustering fMRI time series: a comparative study
Authors: Castanho Eduardo N. , Aidos Helena , Madeira Sara C. 
Published: May 2022

Abstract
Background
The effectiveness of biclustering, simultaneous clustering of rows and columns in a data matrix, was shown in gene expression data analysis. Several researchers recognize its potentialities in other research areas. Nevertheless, the last two decades have witnessed the development of a significant number of biclustering algorithms targeting gene expression data analysis and a lack of consistent studies exploring the capacities of biclustering outside this traditional application domain.

Results
This work evaluates the potential use of biclustering in fMRI time series data, targeting the Region × Time dimensions by comparing seven state-in-the-art biclustering and three traditional clustering algorithms on artificial and real data. It further proposes a methodology for biclustering evaluation beyond gene expression data analysis. The results discuss the use of different search strategies in both artificial and real fMRI time series showed the superiority of exhaustive biclustering approaches, obtaining the most homogeneous biclusters. However, their high computational costs are a challenge, and further work is needed for the efficient use of biclustering in fMRI data analysis.

Conclusions
This work pinpoints avenues for the use of biclustering in spatio-temporal data analysis, in particular neurosciences applications. The proposed evaluation methodology showed evidence of the effectiveness of biclustering in finding local patterns in fMRI time series data. Further work is needed regarding scalability to promote the application in real scenarios.
Postoperative but not preoperative depression is associated with cognitive impairment after cardiac surgery: exploratory analysis of data from a randomized trial
Authors: Lewis Choy , Dokucu Mehmet E. , Brown Charles H. , Balmert Lauren , Srdanovic Nina , Madhan Ashwin Shaan , Samra Sahej Singh , Csernansky John , Grafman Jordan , Hogue Charles W. 
Published: May 2022

Abstract
Background
In this study we hypothesize that depression is associated with perioperative neurocognitive dysfunction and altered quality of life one month after surgery.

Methods
Data were obtained as part of a study evaluating cerebral autoregulation monitoring for targeting arterial pressure during cardiopulmonary bypass. Neuropsychological testing was performed before surgery and one month postoperatively. Testing included the Beck Depression Inventory, a depression symptoms questionnaire (0–63 scale), as well as anxiety and quality of life assessments. Depression was defined as a Beck Depression Inventory score > 13.

Results
Beck Depression data were available from 320 patients of whom cognitive domain endpoints were available from 88–98% at baseline and 69–79% after surgery. This range in end-points data was due to variability in the availability of each neuropsychological test results between patients. Depression was present in 50 (15.6%) patients before surgery and in 43 (13.4%) after surgery. Baseline depression was not associated with postoperative domain-specific neurocognitive function compared with non-depressed patients. Those with depression one month after surgery, though, had poorer performance on tests of attention (p = 0.017), memory (p = 0.049), verbal fluency (p = 0.010), processing speed (p = 0.017), and fine motor speed (p = 0.014). Postoperative neurocognitive dysfunction as a composite outcome occurred in 33.3% versus 14.5% of patients with and without postoperative depression (p = 0.040). Baseline depression was associated with higher anxiety and lower self-ratings on several quality of life domains, these measures were generally more adversely affected by depression one month after surgery.

Conclusions
The results of this exploratory analysis suggests that preoperative depression is not associated with perioperative neurocognitive dysfunction, but depression after cardiac surgery may be associated with impairment in in several cognitive domains, a higher frequency of the composite neurocognitive outcome, and altered quality of life.

Trial Registration
www.clinicaltrials.gov, NCT00981474 (parent study).
Massive sympathetic nerve infiltration in advanced hepatic alveolar echinococcosis: a case report and review of the literature
Authors: Wang Zongding , Jiang Tiemin , Aji Tuerganaili , Wen Hao 
Published: May 2022

Abstract
Background
Alveolar echinococcosis is a zoonotic disease that mostly affects the liver, with vascular invasion and a protean clinical symptom. However, no reports of sympathetic nerve infiltration in hepatic alveolar echinococcosis have been reported. Here, we report a case of hepatic alveolar echinococcosis in a 33-year-old man. In this end-stage case, the lesion was heavily involved in the large vessels and biliary tract, and immunohistochemistry also incidentally revealed extensive nerve infiltration in the specimens after surgical treatment. Subsequently, neural classification was identified.

Case presentation
We herein report a case of advanced hepatic alveolar echinococcosis with macrovascular invasion and sympathetic nerve infiltration. In this case, inferior vena cava (IVC), the portal vein and bile duct were infiltrated. Ultimately, according to our experience, ex vivo liver resection and autotransplantation (ELRA) was the optimal treatment way to perform for this unresectable patient. Samples were collected from normal liver tissue, junction tissue and the lesion. Hematoxylin–eosin (HE) staining was used to confirm the diagnosis. Neural infiltration was observed by immunohistochemical staining with protein gene product 9.5 (PGP9.5). Fluorescence colocalization was determined with PGP9.5 and tyrosine hydroxylase (TH). These results suggest that a large amount of sympathetic nerve infiltration occurred at the junction.

Conclusion
This study suggests that advanced hepatic alveolar echinococcosis shows infiltrating growth, often invades the large vessels and biliary ducts, and may be accompanied by sympathetic nerve infiltration.
First case of a renal cyst infection caused by Desulfovibrio: a case report and literature review
Authors: Okamoto Yoshiki , Miyabe Yoei , Seki Momoko , Ushio Yusuke , Sato Keisuke , Kasama Eri , Akiyama Kenichi , Karasawa Kazunori , Uchida Keiko , Kikuchi Ken , Nitta Kosaku , Moriyama Takahito , Hoshino Junichi 
Published: May 2022

Abstract
Background
Genus Desulfovibrio species is a sulphate-reducing anaerobic gram-negative rod that resides in the human oral cavity and intestinal tract. It was reported as the causative pathogen of bacteraemia and abdominal infections, but not renal cyst infection, and Desulfovibrio fairfieldensis has higher pathogenicity than other Desulfovibrio species.

Case presentation
A 63-year-old man was on haemodialysis for end-stage renal failure due to autosomal dominant polycystic kidney disease. On admission, he had a persistent high-grade fever, right lumbar back pain, and elevated C-reactive protein levels. His blood and urine cultures were negative. He received ciprofloxacin and meropenem; however, there was no clinical improvement. Contrast-enhanced computed tomography and plain magnetic resonance imaging revealed a haemorrhagic cyst at the upper pole of the right kidney. The lesion was drained. Although the drainage fluid culture was negative, D. fairfieldensis was detected in a renal cyst using a polymerase chain reaction. After the renal cyst drainage, he was treated with oral metronidazole and improved without any relapse.

Conclusions
To the best of our knowledge, this is the first reported case of a renal cyst infection with Desulfovibrio species. D. fairfieldensis is difficult to detect, and polymerase chain reaction tests can detect this bacterium and ensure better management for a successful recovery.
Dissemination and implementation strategies for physical activity guidelines among adults with disability, chronic conditions, and pregnancy: a systematic scoping review
Authors: Morgan T. L. , Romani C. , Ross-White A. , Latimer-Cheung A. , Tomasone J. R. 
Published: May 2022

Abstract
Background
Physical activity guidelines for adults with disability, chronic conditions, and pregnancy (i.e., specific populations) have been developed to provide guidance for engaging in physical activity. However, specific populations remain considerably less physically active compared to the general population, presenting a knowledge-practice gap.

Purpose
The purpose of this systematic scoping review was to identify and evaluate strategies for disseminating and implementing physical activity guidelines among specific populations and/or stakeholders (e.g., healthcare professionals) in Canada.

Methods
Five search approaches (peer-reviewed literature databases, grey literature database, custom Google search engines, targeted web-based searches, and content expert consultation) identified records documenting and/or evaluating strategies that had been used to disseminate or implement guidelines from a predetermined list. Systematic and scoping review protocols were followed. Risk of bias assessments were conducted for all studies that evaluated strategies.

Results
Eighty-one records reported dissemination strategies (n = 42), implementation strategies (n = 28), or both (n = 11). Twenty-two studies reporting on 29 evaluated strategies were deemed “serious” or “high” risk of bias. Common guideline dissemination and implementation strategies are deliberated and recommendations for future practice are made.

Conclusions
Findings may inform future dissemination and implementation efforts for physical activity guidelines in Canada or similar countries.