bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prognostic significance of CD56 antigen in newly diagnosed multiple myeloma: A real-world retrospective study
Authors: Li Liping , Li Xiaofeng , Shang An , Zhao Yan , Jin Lifang , Zhao Meng , Shen Weizhang 
Published: October 2022

The prognostic value of plasma cell CD56 expression of patients with multiple myeloma (MM) has been reported in many studies, but the results are controversial. This study aimed to examine the prognostic significance of CD56 in MM patients.
Eighty seven patients with newly diagnosed MM were enrolled in this study, and their clinical characteristics, immunophenotypes, and cytogenetics were retrospectively analyzed to explore the prognostic significance of CD56 expression. Multiparameter flow cytometry was used to detect MM in bone marrow samples from all patients. Patients were divided into 2 groups based on whether they expressed CD56: CD56 + group and CD56 − group.
After 4 cycles of chemotherapy, the overall response rate of the CD56 − patients was lower than that of the CD56 + patients (60.0% vs 81.1%, P = .036). Survival analysis showed that the median progression-free survival (PFS) was 10 months for the CD56 − group and 27 months for the CD56 + group (P = .007). The median overall survival (OS) of patients for the CD56 − group was 25 months versus not reached in the CD56 + group (P = .010). In addition, among the high-risk patients detected by fluorescence in situ hybridization (FISH), the median PFS was 4 months for the CD56 − group and 16 months for the CD56 + group (P = .012). The median OS of the CD56 + group and CD56 − group was 36 months and 15 months, respectively, with statistically significant differences (P = .017).
Our study confirmed that CD56 − patients with MM had a worse prognosis than that of CD56 + patients with MM. Among the patients with ≥ 2 high-risk cytogenetics, the existence of the CD56 negativity can further identify MM patients with poor PFS and OS.
Effect of erbium family laser etching on shear bond strength of enamel surfaces: A meta-analysis-PRISMA
Authors: Jiang Tao , Gong Qi , Liu Ying , Zhang Pan-Pan , Zhang Li 
Published: October 2022

Background:
Recently, laser etching has appealed to people’s attention. It is meaningful to compare the effect of erbium-doped yttrium-aluminum-garnet (Er:YAG) and erbium-chromium; yttrium-scandium-gallium-garnet (Er,Cr:YSSG) laser etching parameters with acid etching on bond strength of enamel surfaces. As far as we know, there still remains no related meta-analysis. To evaluate the efficacy of Er:YAG and Er,Cr:YSSG lasers etching on shear bond strength (SBS) of brackets bonded to enamel. The meta-analysis was performed according to the Preferred Reporting Items for Systematic Reviews and Meta-Analyses, conducted with literature search.

Methods:
Twelve relevant randomized controlled trials (RCTs) were included.

Results:
The pooled analysis of SBS showed that there were no significant differences between erbium family lasers and acid etching. In the mass, we noticed they did not achieve statistical significance in the lasers etching and acid etching. However, pooled analysis of 5 studies showed the SBS bonding to enamel was lower in Er,Cr:YAG laser group compared with acid group. As a whole, there were statistical significance between erbium lasers groups and acid etching group in adhesive remnant index (ARI) aspects, which less adhesives remained can reduce damage to enamel. With regard to the rate of teeth with ARI score ≤2, the results in Er:YAG laser etching group were obviously higher than acid etching group.

Conclusion:
Our data indicated that erbium lasers may be considered bonding of brackets to enamel instead of acid etching bonding to enamel.
The number of beds occupied is an independent risk factor for discharge of trauma patients
Authors: Halvachizadeh Sascha , Leibovitz Daniel , Held Leonhard , Jensen Kai Oliver , Pape Hans-Christoph , Muller Dominik , Neuhaus Valentin 
Published: October 2022

Reducing the burden of limited capacity on medical practitioners and public health systems requires a time-dependent characterization of hospitalization rates, such that inferences can be drawn about the underlying causes for hospitalization and patient discharge. The aim of this study was to analyze non-medical risk factors that lead to the discharge of trauma patients. This retrospective cohort study includes trauma patients who were treated in Switzerland between 2011 and 2018. The national Swiss database for quality assurance in surgery (AQC) was reviewed for trauma diagnoses according to the ICD-10 code. Non-medical risk factors include seasonal changes, daily changes, holidays, and number of beds occupied by trauma patients across Switzerland. Individual patient information was aggregated into counts per day of total patients, as well as counts per day of levels of each categorical variable of interest. The ARIMA-modeling was utilized to model the number of discharges per day as a function of auto aggressive function of all previously mentioned risk factors.
This study includes 226,708 patients, 118,059 male (age 48.18, standard deviation (SD) 22.34 years) and 108,649 female (age 62.57, SD 22.89 years) trauma patients. The mean length of stay was 7.16 (SD 14.84) days and most patients were discharged home (n = 168,582, 74.8%). A weekly and yearly seasonality trend can be observed in admission trends. The mean number of occupied trauma beds ranges from 3700 to 4000 per day. The number of occupied beds increases on weekdays and decreases on holidays. The number of occupied beds is a positive, independent risk factor for discharge in trauma patients; as the number of occupied beds increases at any given time, so does the risk for discharge.
The number of beds occupied represents an independent non-medical risk factor for discharge. Capacity determines triage of hospitalized patients and therefore might increase the risk of premature discharge.
Interaction of basic diseases and low red blood cell count as critical murderer of wound infection after osteosarcoma resection: Wound infection after osteosarcoma resection
Authors: Chen Fei , Wang Jie , Zhao Xin , Lv Xian-qiang 
Published: October 2022

Background:
Surgical wound infection is one of the common complications in patients after osteosarcoma resection. It is imperative to grasp the risk factors comprehensively. Therefore, this study aimed to explore the risk factors of wound infection and deeply analyze the correlation between risk factors and wound infection.

Methods:
The study subjects were 101 patients who underwent osteosarcoma resection between April 2018 and August 2021. The diagnosis of postoperative wound infection was confirmed by postoperative observation of the incision, ultrasound imaging, and pathogenic examination. This study included a series of potential factors, mainly laboratory examination indicators and patients’ general information. The statistical methods had Pearson Chi-square test, Spearman-rho correlation test, multifactorial linear regression model, logistic regression analysis, and receiver operating characteristic (ROC) curve.

Results:
Pearson Chi-square test and Spearman correlation test showed that red blood cell (RBC) count (P = .033) and basic diseases (P = .020) were significantly correlated with a surgical wound infection after osteosarcoma resection. Logistic regression analysis manifested that basic disease (OR = 0.121, 95% CI: 0.015‐0.960, P = .046) and RBC (OR = 0.296, 95% CI: 0.093‐0.944, P = .040) have a clear correlation with whether the patients have surgical wound infection after osteosarcoma resection. And the interaction of basic diseases and RBC could diagnose the surgical wound infection sensitively and accurately (AUC = 0.700, P = .014, 95% CI = 0.564‐0.836) via the ROC analysis.

Conclusion:
Patients with basic diseases and low RBC were risk factors for surgical wound infection after osteosarcoma resection.
Counseling for the man with severe male infertility
Authors: Belladelli Federico , Muncey Wade , Seranio Nicolas , Eisenberg Michael L. 
Published: October 2022

Purpose of review
This review summarize the proper counseling for men with severe male factor infertility.

Recent findings
Men who are experiencing infertility should have a semen analysis, the results of which may imply additional investigations, including genetic and hormonal. Moreover, possible modifiable factors that may harm men's reproductive health should be carefully evaluated. Finally, different treatment options are available.

Summary
Approximately 15% of couples struggle with infertility. Complete evaluations of both men and women are required to determine the etiology of infertility and determine appropriate treatment.
Role of microbiome in kidney stone disease
Authors: Galán-Llopis Juan A. , Sánchez-Pellicer Pedro , Navarro-López Vicente 
Published: October 2022

Purpose of review
The process of renal stone formation is complex, multifactorial, and variable depending on the type of stone. The microbiome, whether by direct or indirect action, is a factor that both promotes the formation and protects from developing of renal stones. It is a highly variable factor due to the great interindividual and intraindividual variability that it presents. In recent years, with the incorporation of nonculture-based techniques such as the high-throughput sequencing of 16S rRNA bacterian gene, both intestinal and urinary microbiota have been deeply studied in various diseases such as the kidney stone disease.

Recent findings
This review has examined the new insights on the influence of the intestinal and urinary microbiome in nephrolithiasis disease and its usefulness as a diagnostic and prognostic tool, highlighting its contribution to the pathogenesis, its ability to modulate it and to influence disease development.

Summary
The incidence of urolithiasis has been increasing considerably. These patients represent a significant expense for national health systems. With the knowledge of the influence of the urobiome and intestinal microbiota on the urolithiasis, it could be possible to modulate it to interrupt its development.
Correlation of Global and Regional Amyloid Burden by 18F-Florbetaben PET/CT With Cognitive Impairment Profile and Severity
Authors: Pena Pardo Francisco José , García Vicente Ana María , Amo-Salas Mariano , Mondéjar Marín Beatriz , Navarro Muñoz Santiago , García Hortelano Piedad , Rueda Medina Ignacio , García Pérez Eloy , Padilla-Bermejo Amanda , Poblete García Víctor Manuel , Marsal Alonso Carlos , Soriano Castrejón Ángel 
Published: October 2022

Purpose
To assess the correlation between profile and severity deterioration in the neuropsychological assessment and the most affected regions in amyloid PET semiquantification. The influence of vascular risk and other potential confounding factors was also evaluated.

Methods
A retrospective, observational, and multicenter study including all patients referred for amyloid PET in daily practice was conducted. Patients underwent neuropsychological assessment, and cognitive decline severity and domain(s) affected were recorded. The patients were grouped according to cognitive impairment (CI) profile and severity: (A) no CI, single-domain amnestic CI, multiple-domain amnestic CI, and nonamnestic CI; and (B) mild CI, moderate and severe dementia. An adapted Framingham Stroke Risk Profile was calculated for each individual. Depression and parkinsonism were also recorded. Standardized quantitative analysis software was used to obtain standardized uptake value ratio (SUVR) values from PET/CT images. The corresponding associations were assessed with the most appropriate statistical tests.

Results
One hundred twenty-nine patients were included (62 men, 67 women; 64.67 ± 7.47 years old). Significant differences in global and regional amyloid load were exclusively found in women between non-CI and moderate dementia (P = 0.006, for total-cerebellum SUVR). Posterior and anterior cingulates and prefrontal cortex best represented CI severity (P = 0.003, 0.006, and 0.006, respectively). No relationship between the CI profile and the regional amyloid load was shown. A significantly high positive correlation was found between age and vascular risk and between these variables and amyloid load in nearly all regions, especially in women with moderate dementia.

Conclusion
Semiquantitative analysis of amyloid PET by SUVR values revealed a significant correlation between amyloid burden and CI severity, although only in women.
Successful Electroconvulsive Therapy in Idiopathic Intracranial Hypertension With Mood Disorder and Partial Empty Sella Syndrome
Authors: Parker Maxwell T. , Putinta Kevin M. , Carr Brent R. 
Published: October 2022

Abstract
Patients with idiopathic intracranial hypertension (IIH) often experience significant burden from psychiatric comorbidities. Mood disorders are present in up to half of all patients with IIH, and they are often refractory to treatment by psychopharmacologic agents. Electroconvulsive therapy (ECT) is the criterion standard for treatment of patients with the most severe psychiatric burden but has relative contraindications in those possessing pathologies that raise intracranial pressure (ICP). There is a growing body of literature that a multidisciplinary care model would allow for patients with elevated ICP to receive ECT safely. Despite the high prevalence of mood disorders in patients with IIH, there are only 2 published case reports describing ECT delivery to patients from this cohort. We report our own case of a patient with IIH and major depressive disorder who received 38 bitemporal treatments with a positive response and no change in baseline ICP. Her positive response, along with the absence of elevation of ICP, aligns with the prior reports; however, her IIH symptoms have not responded as reported in the 2 cases—despite receiving more than 4 times the amount of treatments. Moreover, our patient possessed unique imaging for a partial empty sella syndrome, which has recently been found to be the only significant finding in patients who had a mood disorder before IIH diagnosis, versus a mood disorder developing after IIH diagnosis. This case serves to provide evidence of the safety and success of ECT in patients with IIH, relying on multidisciplinary care from psychiatry, neurology, and neuro-ophthalmology.
Postanesthesia Recovery Unit Optimization for Patients With Postictal Agitation Secondary to Electroconvulsive Therapy
Authors: Arora Vivek , Tuttle Kelsey , Borisovskaya Anna 
Published: October 2022

Objectives
The occurrence of postictal agitation (PIA) can rapidly alter and intensify the level of care that electroconvulsive therapy (ECT) patients require during their recovery in the postanesthesia care unit (PACU). This operational analysis was undertaken to determine the impact PIA has on phase 1 PACU resources.

Methods
This operational analysis was undertaken at the Seattle Division of the US Department of Veterans Affairs Puget Sound Health Care System. From August 2019 to April 2020, we prospectively collected data on the recovery from ECT of 61 unique patients who underwent a total of 334 ECT sessions. Utilization of PACU resources was assessed by determining the PACU length of stay (LOS), onset of PIA, severity of PIA, and duration of agitation in encounters complicated by PIA.

Results
Seventy-nine occurrences of PIA occurred during the 334 ECT encounters. The mean ± SD PACU LOS was longer in encounters complicated by the occurrence of PIA compared with those not complicated by PIA (72 ± 32 and 59 ± 18 minutes respectively; P-value <0.05). Postanesthesia care unit LOS and mean duration of agitation increased as severity of PIA increased.

Conclusions
The occurrence of PIA can rapidly alter and intensify the level of care that ECT patients may require. Postictal agitation has a significant impact on the phase 1 PACU LOS of patients undergoing ECT. Phase 1 PACU staffing models should factor in the acute and prolonged care needs of patients who develop PIA during the recovery from ECT.
DeepCIP: a multimodal deep learning method for the prediction of internal ribosome entry sites of circRNAs
Authors: Zhou Yuxuan , Wu Jingcheng , Yao Shihao , Xu Yulian , Zhao Wenbin , Tong Yunguang , Zhou Zhan 
Published: October 2022

AbstractMotivationCircular RNAs (circRNAs) have been found to have the potential to code proteins. Internal ribosome entry sites (IRESs) are key RNA regulatory elements for the translation of proteins by circRNAs through a cap-independent mechanism. IRES can be identified by bicistronic assay, but the method is time-consuming and laborious. Therefore, it is important to develop computational methods for facilitating IRES identification, evaluation, and design in circRNAs.ResultsIn this study, we proposed DeepCIP, a multimodal deep learning approach for circRNA IRES prediction, by exploiting both sequence and structure information. As far as we know, DeepCIP is the first predictor for circRNA IRESs, which consists of an RNA processing module, an S-LSTM module, a GCN module, a feature fusion module, and an ensemble module. The comparative studies show that DeepCIP outperforms other comparative methods and justify the effectiveness of the sequence model and structure model of DeepCIP for extracting features. We found that the integration of structural information on the basis of sequence information effectively improves predictive performance. For the real circRNA IRES prediction, DeepCIP also outperforms other methods. DeepCIP may facilitate the study of the coding potential of circRNAs as well as the design of circRNA drugs. DeepCIP as a standalone program is freely available athttps://github.org/zjupgx/DeepCIP.
Diverse photoperiodic gene expression patterns are likely mediated by distinct transcriptional systems in Arabidopsis
Authors: Leung Chun Chung , Tarté Daniel A. , Oliver Lilijana S. , Gendron Joshua M. 
Published: October 2022

ABSTRACTPhotoperiod is an annual cue measured by biological systems to align growth and reproduction with the seasons. In plants, photoperiodic flowering has been intensively studied for over 100 years, but we lack a complete picture of the transcriptional networks and cellular processes that are photoperiodic. We performed a transcriptomics experiment on Arabidopsis plants grown in 3 different photoperiods, and find that nearly one-third of the known genes show photoperiodic alteration in gene expression. Gene clustering, daily expression integral calculations and cis-element analysis then separate photoperiodic genes into co-expression subgroups that display 19 diverse seasonal expression patterns, opening the possibility that many photoperiod measurement systems work in parallel in Arabidopsis. Then, functional enrichment analysis predicts co-expression of important cellular pathways. To test these predictions, we generated a comprehensive catalog of genes in the phenylpropanoid biosynthesis pathway, overlaid gene expression data and demonstrated that photoperiod intersects with the two major phenylpropanoid pathways differentially, controlling flavonoids but not lignin. Finally, we describe the development of a new app that visualizes photoperiod transcriptomic data for the wider community.
Using machine learning and clinical registry data to uncover variation in clinical decision making
Authors: James Charlotte , Allen Michael , James Martin , Everson Richard 
Published: October 2022

AbstractClinical registry data contains a wealth of information on patients, clinical practice, outcomes and interventions. Machine learning algorithms are able to learn complex patterns from data. We present methods for using machine learning with clinical registry data to carry out retrospective audit of clinical practice. Using a registry of stroke patients, we demonstrate how machine learning can be used to: investigate whether patients would have been treated differently had they attended a different hospital; group hospitals according to clinical decision making practice; identify where there is variation in decision making between hospitals; characterise patients that hospitals find it hard to agree on how to treat. Our methods should be applicable to any clinical registry and any machine learning algorithm to investigate the extent to which clinical practice is standardized and identify areas for improvement at a hospital level.
Live Cell Lineage Tracing of Dormant Cancer Cells
Authors: Kim Hyuna , Wirasaputra Anna , Kundu Aritra Nath , Esteves Jennifer A.E. , Peyton Shelly R. 
Published: October 2022

AbstractBreast cancer is a leading cause of global cancer-related deaths, and metastasis is the overwhelming culprit of poor patient prognosis. The most nefarious aspect of metastasis is dormancy, a prolonged period between primary tumor resection and relapse. Current therapies are insufficient at killing dormant cells; thus, they can remain quiescent in the body for decades until eventually undergoing a phenotypic switch, resulting in metastases that are more adaptable and more drug resistant. Unfortunately, dormancy has fewin vitromodels, largely because lab-derived cell lines are highly proliferative. Existing models address tumor dormancy, not cellular dormancy, because tracking individual cells is technically challenging. To combat this problem, we adapted a live cell lineage approach to find and track individual dormant cells, distinguishing them from proliferative and dying cells over multiple days. We applied this approach across a range of differentin vitromicroenvironments. Our approach revealed that the proportion of cells that exhibited long-term quiescence was regulated by both cell intrinsic and extrinsic factors, with the most dormant cells found in 3D collagen gels. We hope this approach will prove useful to biologists and bioengineers in the dormancy community to identify, quantify, and study dormant tumor cells.Abstract Figure
Spatially Multiplexed Single-molecule Translocations through a Nanopore at Controlled Speeds
Authors: Leitao S.M. , Navikas V. , Miljkovic H. , Drake B. , Marion S. , Blanchet G. Pistoletti , Chen K. , Mayer S. F. , Keyser U. F. , Kuhn A. , Fantner G. E. , Radenovic A. 
Published: October 2022

AbstractNanopores are one of the most successful label-free single-molecule techniques with several sensing applications such as biological screening, diagnostics, DNA and protein sequencing1–4. In current nanopore technologies, stochastic processes influence both the selection of the translocating molecule, translocation rate and translocation velocity5,6. As a result, single-molecule translocations are difficult to control spatially and temporally. Here we present a novel method where we engineer precise spatial and temporal control into the single-molecule experiment. We use a glass nanopore mounted on a 3D nanopositioner to spatially select molecules, deterministically tethered on a glass surface, for controlled translocations. By controlling the distance between the nanopore and the glass surface, we can actively select the region of interest on the molecule and scan it a controlled number of times and at controlled velocity. Decreasing the velocity and averaging thousands of consecutive readings of the same molecule increases the signal-to-noise ratio (SNR) by two orders of magnitude compared to free translocations. We applied our method to various DNA constructs, achieving down to single nucleotide gap resolution. The spatial multiplexing combined with the sub-nanometer resolution could be used in conjunction with micro-array technologies to enable screening of DNA, improving point of care devices, or enabling high-density, addressable DNA data storage.