bluuebunny/crossref_metadata_2025_split huggingface dataset:
Prediction of histone post-translational modifications using deep learning
Authors: Baisya Dipankar Ranjan , Lonardi Stefano 
Published: December 2020

Abstract

Motivation
Histone post-translational modifications (PTMs) are involved in a variety of essential regulatory processes in the cell, including transcription control. Recent studies have shown that histone PTMs can be accurately predicted from the knowledge of transcription factor binding or DNase hypersensitivity data. Similarly, it has been shown that one can predict PTMs from the underlying DNA primary sequence.

Results
In this study, we introduce a deep learning architecture called DeepPTM for predicting histone PTMs from transcription factor binding data and the primary DNA sequence. Extensive experimental results show that our deep learning model outperforms the prediction accuracy of the model proposed in Benveniste et al. (PNAS 2014) and DeepHistone (BMC Genomics 2019). The competitive advantage of our framework lies in the synergistic use of deep learning combined with an effective pre-processing step. Our classification framework has also enabled the discovery that the knowledge of a small subset of transcription factors (which are histone-PTM and cell-type-specific) can provide almost the same prediction accuracy that can be obtained using all the transcription factors data.

Availabilityand implementation
https://github.com/dDipankar/DeepPTM.

Supplementary information
Supplementary data are available at Bioinformatics online.
The State Theory of Grotius
Authors: Bhuta Nehal 
Published: December 2020

Abstract
This article argues that Grotius has a modern theory of the state that can take its place alongside Bodin and Hobbes as one of the ways in which early modern civil philosophy sought to solve the problem of the authority and validity of political order. This is interesting because Grotius’s account of the state draws a picture of the relationship between political and legal ordering, and history, in which the interrelationship of the political and the legal allows a range of adaptive and adaptable state-forms. State authority is made possible and accountable under a system of natural legal right, even as its constitution is a historical achievement that should not readily be disturbed and in which a large range of freedom and unfreedom is lawful and should be accepted. I argue that, understood in this way, the State Theory of Grotius is not only modern, but provides in its methods and insights, a potential answer to one of the key conceptual dead ends of modern theories of sovereignty: the idea that sovereign power must be perpetually concentrated in one organ or entity if it is to retain what makes it sovereign. Along the way, I highlight the significance of state theory for contemporary discussions of international, transnational and global law.
A Random Forest Classification Algorithm Based Personal Thermal Sensation Model for Personalized Conditioning System in Office Buildings
Authors: Li Qing Yun , Han Jie , Lu Lin 
Published: December 2020

Abstract
The personal thermal sensation model is used as the main component for personalized conditioning system, which is an effective method to fulfill thermal comfort requirements of the occupants, considering the energy consumption. The Random Forest classification algorithm based thermal sensation model is developed in this study, which combines indoor air quality parameters, personal information, physiological factors and occupancy preferences on selection of 7-level of sensation: cold, cool, slightly cool, neutral, slightly warm, warm and hot. Our model shows better functionality, as well as performance and factor selection. As a result, our method has achieved 70.2% accuracy, comparing with the 57.4% accuracy of support vector machine, and 67.7% accuracy of neutral network in an ASHRAE RP-884 database. Therefore, our newly developed model can be used in personalized thermal adjustment systems with intelligent control functions.
An Attention Enhanced Cross-Modal Image–Sound Mutual Generation Model for Birds
Authors: Hao Wangli , Han Meng , Li Shancang , Li Fuzhong 
Published: December 2020

Abstract
Cross-modal bird image–audio mutual generation has appealing potential benefits for bird classification. To achieve promising cross-modal bird visual–audio mutual generation, we propose an attention enhanced cross-modal cycle adversarial generation network. Specifically, the attention module endows our model with long-term intra-modality dependency and inter-modality dependency capabilities, which can provide more information during the generation process and further improve the generation performance. Moreover, because there was no dataset concerning bird visual–audio mutual generation, the authors established a novel bird cross-modal generation dataset, called Bird_Crossmodal_Generation (BCG). Based on BCG, our model obtains promising performance and achieves significant improvement under both inception score and Frechet inception distance criteria. The experimental results validate the feasibility of the proposed task and the superiority of our model. Additionally, this investigation provides a basis for more researchers to develop cross-modality methods for bird visual–audio generation.
Cardiac arrest and COVID-19: inflammation, angiotensin-converting enzyme 2, and the destabilization of non-significant coronary artery disease—a case report
Authors: Colombier Sébastien , Mahendiran Thabodhan , Niclauss Lars , Kirsch Matthias 
Published: December 2020

Abstract

Background
The new β-coronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) appears to exhibit cardiovascular pathogenicity through use of angiotensin-converting enzyme 2 (ACE2) for cell entry and the development of a major systemic inflammation. Furthermore, cardiovascular comorbidities increase susceptibility to SARS-CoV-2 infection and the development of a severe form of COronaVIrus Disease 2019 (COVID-19).

Case summary
We describe the case of a COVID-19 patient whose inaugural presentation was a refractory cardiac arrest secondary to the destabilization of known, non-significant coronary artery disease. Patient was supported by venoarterial extracorporeal life support. After 12 h of support, cardiac function remained stable on low vasopressor support but the patient remained in a coma and brainstem death was diagnosed.

Discussion
Myocardial injury is frequently seen among critically unwell COVID-19 patients and increases the risk of mortality. This case illustrates several potential mechanisms that are thought to drive the cardiac complications seen in COVID-19. We present the potential role of inflammation and ACE2 in the pathophysiology of COVID-19.
Hemopericardium with subsequent cardiac tamponade secondary to rivaroxaban treatment: a case report
Authors: Shastri Pinang , Bhuta Sapan , Oostra Carson , Monroe Todd 
Published: December 2020

Abstract

Background
The use and utility of novel oral anticoagulants has been increasing in clinical practice due to their relatively lower incidence of side effects such as intracranial haemorrhage, particularly in the elderly, when compared with vitamin K antagonists. Rivaroxaban is a factor Xa and prothrombinase inhibitor indicated for stroke and venous thromboembolism prophylaxis in non-valvular atrial fibrillation as well as treatment of venous thromboembolism.

Case summary
A patient with history of paroxysmal atrial fibrillation on Rivaroxaban presented with generalized malaise, lightheadedness, and dizziness. The patient was found to be in profound cardiogenic shock despite unremarkable cardiac enzymes. Electrocardiogram revealed rate controlled atrial fibrillation and T-wave inversions in the inferolateral leads without associated electrical alternans. Bedside echocardiogram revealed a large pericardial effusion consistent with cardiac tamponade physiology. Following anticoagulation reversal, the patient underwent urgent pericardiocentesis yielding haemorrhagic fluid, with subsequent improvement in haemodynamic status. Despite the presence of retroperitoneal lymphadenopathy on previous computed tomography of the abdomen and concern for underlying malignant effusion secondary to lymphoma, cytology of the fluid revealed no evidence of malignant cells and follow-up flow cytometry and bone marrow biopsy were unremarkable.

Discussion
While hemopericardium is not listed as a known side effect of Rivaroxaban, previous cases of hemopericardium secondary to Rivaroxaban have been described in the literature secondary to pre-disposing risk factors including CYP450 drug interactions or cardiac device implantations. In this case, the patient experienced a spontaneous hemopericardium on Rivaroxaban without any previously elucidated risk factors or evidence of malignancy.
Incidence, prevalence, and trajectories of repetitive conduction patterns in human atrial fibrillation
Authors: van Rosmalen Frank , Maesen Bart , van Hunnik Arne , Hermans Ben J M , Bonizzi Pietro , Bidar Elham , Nijs Jan , Maessen Jos G , Verheule Sander , Delhaas Tammo , Schotten Ulrich , Zeemering Stef 
Published: December 2020

Abstract

Aims
Repetitive conduction patterns in atrial fibrillation (AF) may reflect anatomical structures harbouring preferential conduction paths and indicate the presence of stationary sources for AF. Recently, we demonstrated a novel technique to detect repetitive patterns in high-density contact mapping of AF. As a first step towards repetitive pattern mapping to guide AF ablation, we determined the incidence, prevalence, and trajectories of repetitive conduction patterns in epicardial contact mapping of paroxysmal and persistent AF patients.

Methods and results
A 256-channel mapping array was used to record epicardial left and right AF electrograms in persistent AF (persAF, n = 9) and paroxysmal AF (pAF, n = 11) patients. Intervals containing repetitive conduction patterns were detected using recurrence plots. Activation movies, preferential conduction direction, and average activation sequence were used to characterize and classify conduction patterns. Repetitive patterns were identified in 33/40 recordings. Repetitive patterns were more prevalent in pAF compared with persAF [pAF: median 59%, inter-quartile range (41–72) vs. persAF: 39% (0–51), P &lt; 0.01], larger [pAF: = 1.54 (1.15–1.96) vs. persAF: 1.16 (0.74–1.56) cm2, P &lt; 0.001), and more stable [normalized preferentiality (0–1) pAF: 0.38 (0.25–0.50) vs. persAF: 0.23 (0–0.33), P &lt; 0.01]. Most repetitive patterns were peripheral waves (87%), often with conduction block (69%), while breakthroughs (9%) and re-entries (2%) occurred less frequently.

Conclusion
High-density epicardial contact mapping in AF patients reveals frequent repetitive conduction patterns. In persistent AF patients, repetitive patterns were less frequent, smaller, and more variable than in paroxysmal AF patients. Future research should elucidate whether these patterns can help in finding AF ablation targets.
Depressive Symptoms and Loneliness Among Black and White Older Adults: The Moderating Effects of Race
Authors: Taylor Harry O , Nguyen Ann W 
Published: December 2020

Abstract

Background and Objectives
Loneliness is consistently linked to worse depression/depressive symptoms; however, there are few studies that have examined whether the relationship between loneliness and depressive symptoms varies by race. The purpose of this study was to determine whether race moderated the relationship between loneliness and depressive symptoms.

Research Design and Methods
Data come from the 2014 wave of the Health and Retirement Study (HRS) Core survey and Psychosocial Leave-Behind Questionnaire; only black and white older adults were included in the analysis (N = 6,469). Depressive symptoms were operationalized by the eight-item Center for Epidemiological Studies—Depression scale; however, the “felt lonely” item was removed given concerns with collinearity. Loneliness was operationalized using the Hughes 3-Item Loneliness Scale. Sociodemographic variables included gender, age, education, household income, employment status, marital status, and living alone or with others. Furthermore, social support and negative interactions from family members and friends, and religious service attendance were included in the analysis. Lastly, we created an interaction term between race and loneliness. All analyses used survey weights to account for the complex multistage sampling design of the HRS. Missing data were multiply imputed.

Results
In multivariable analysis, we found race significantly moderated the relationship between loneliness and depressive symptoms while controlling for sociodemographic covariates, social support and negative interaction variables, and religious service attendance.

Discussion and Implications
Our findings demonstrate a differential racial effect for loneliness and depressive symptoms. For both blacks and whites, greater loneliness affected depressive symptoms; however, the effect was stronger among whites than it was for blacks. Given this is one of the first studies to examine the differential effects of race on loneliness and depressive symptoms, more research is necessary to determine the consistency of these results.
Age at maturation predicted from scale measurements in Pacific herring (Clupea pallasii)
Authors: Miller Sara E , Dressel Sherri C , Hinds Christine M , Buettner Detlef 
Published: December 2020

Abstract
Age at maturation is linked to population productivity and directly impacts forecasts of population biomass and resultant harvest limits set by management agencies. Based on the original concept that scale growth can be used as an index of body growth (length) from Johan Hjort and his collaborators, the current study examined a new way of estimating maturity empirically using scales for Pacific herring. We hypothesized that Pacific herring that will spawn in a particular year (spring) will have reached a sufficient size and have reduced growth (length) the summer prior, compared to immature herring, as energy will be allocated to reproduction rather than somatic length. Model results suggested that there was no difference in the measurement of all scale growth prior to the last increment (growth up until the summer prior) nor in the outer ring measurement (growth the summer prior to spawning) of immature and mature female herring; using scales to estimate maturity empirically was not successful in this study. It is possible that the sample size in this study may have been too low to detect differences in growth or differences in growth may be better represented by changes in length-specific mass.
Ex situandin situtarget strength measurements of European anchovy in the Bay of Biscay
Authors: Sobradillo B , Boyra G , Pérez-Arjona I , Martinez U , Espinosa V 
Published: December 2020

AbstractThis study measures the dorsal aspect target strength (TS; dB re 1 m2) and TS–length (standard length, SL; cm) relationships for European anchovy, attained both ex situ and in situ in two different seasons across 7 years in the Bay of Biscay. The measurements were made at three frequently used acoustic frequencies (38, 120, and 200 kHz). A backscattering model for physostome fish was utilized to help interpret the results. The obtained experimental mean TS for anchovies with an SL of 3.5–19.5 cm was −44.6 (±2.3), −46.9 (±3), and −48.4 (±2.7) dB at 38, 120, and 200 kHz, respectively, yielding b20 values of −66.4, −68.7, and −70.4 dB, respectively. The results were consistent across seasons and between in situ and ex situ conditions, presenting TS–length relationships with statistically significant slopes (p-values &lt;0.05) for all frequencies. This research represents part of a series of efforts planned to obtain a comprehensive TS vs. length and depth relationship to update the acoustic assessment methodology of European anchovy in the Bay of Biscay.
Research on variable parameter power differential charge–discharge strategy of energy storage system in isolated island operating microgrid
Authors: Wu Tiezhou , Wang Jin , Qi Yibo , Rong Fumei 
Published: December 2020

Abstract
This paper proposed an improved particle swarm optimization (PSO) algorithm for the variable parameter power difference charging and discharging strategy of battery energy storage system (BESS). The charge and discharge power of the BESS under different load intervals and state of charge (SOC) intervals are distributed, and the objective functions of peak shaving and valley filling standard deviation and minimum SOC off-line rate are established. The simulation model of peak shaving and valley filling is built, and the results show that the standard deviation of peak shaving and valley filling reduced by 22.58% compared with PSO. The effectiveness and feasibility of the improved PSO are verified.
Clinical handover and handoff in healthcare: a systematic review of systematic reviews
Authors: Desmedt Melissa , Ulenaers Dorien , Grosemans Joep , Hellings Johan , Bergs Jochen 
Published: December 2020

Abstract

Purpose
The purpose of this systematic review is to appraise and summarize existing literature on clinical handover.

Data sources
We searched EMBASE, MEDLINE, Database of Abstracts of Reviews of Effects and Cochrane Database of Systematic Reviews.

Study selection
Included articles were reviewed independently by the review team.

Data extraction
The review team extracted data under the following headers: author(s), year of publication, journal, scope, search strategy, number of studies included, type of studies included, study quality assessment, used definition of handover, healthcare setting, outcomes measured, findings and finally some comments or remarks.

Results of data synthesis
First, research indicates that poor handover is associated with multiple potential hazards such as lack of availability of required equipment for patients, information omissions, diagnosis errors, treatment errors, disposition errors and treatment delays. Second, our systematic review indicates that no single tool arises as best for any particular specialty or use to evaluate the handover process. Third, there is little evidence delineating what constitutes best handoff practices. Most efforts facilitated the coordination of care and communication between healthcare professionals using electronic tools or a standardized form. Fourth, our review indicates that the principal teaching methods are role-playing and simulation, which may result in better knowledge transfer to the work environment, better health and patients’ well-being.

Conclusions
This review emphasizes the importance of staff education (including simulation-based and team training), non-technical skills and the implementation process of clinical handover in healthcare settings.
Umbilical Cord Mesenchymal Stem Cells for Inflammatory Regulation After Excision and Grafting of Severe Burn Wounds in Rats
Authors: Jian-Xing Duan , Wen-Jun Liu , Yue-Qin Zeng , Wang Di , Gao-Fei Zhang , Jia-Mei Li , Han-Xiao Lou 
Published: December 2020

Abstract
Severe burns predispose to shock and necessitate escharectomy and skin grafting. Previous studies show that mesenchymal stem cells are effective for burn wound healing and immune regulation. In this study, we combined escharectomy and skin grafting after burn injury with stem cell application, so as to examine the immune regulation of stem cells and the effect on the transplanted skin graft. SD rats were randomly divided into normal group, sham group, normal + hUCMSCs group, and normal + SB203580 group. Normal saline, hUCMSCs, and SB203580 were injected into the tail vein of each group, and serum inflammatory factors were detected by ELISA. The expression of p38 MAPK/NF-κB pathway proteins in rat liver was detected by western blot. Skin activity was detected by Trypan blue staining and western blot. Skin graft inflammatory infiltration was detected by histological analysis. We found that hUCMSCs could regulate the phosphorylation levels of P38MAPK and NF-B P65 proteins in the liver to reduce the inflammatory response. These effects could continue to reduce the production of inflammatory factors HMGB-1, IL-6, and TNF-α, and increase the anti-inflammatory factor IL-10. The infiltration of inflammatory cells in skin graft was significantly reduced in the normal + hUCMSCs group, and the macrophages in the hUCMSCs group polarized to the anti-inflammatory M2 direction in 3 days. However, the changes of skin graft activity and necroptosis markers protein RIP3 were not observed. The present study demonstrates the immunomodulatory effects of hUCMSCs on the systemic and skin graft microenvironment after excision.
A comprehensive three-phase opiate sparing multimodal pain protocol for hip arthroscopy: a retrospective review
Authors: Kolaczko Jensen G , Knapik Derrick M , Kroneberger Elisabeth , Chadha Amrita , Salata Michael J 
Published: December 2020

Abstract
The aim of this study is to assess the efficacy of a three-phase, multimodal, perioperative pain protocol for primary hip arthroscopy based on pain scores, narcotic use, time to discharge, hospital admission and complications. A retrospective study of patients undergoing primary hip arthroscopy over a 48-month time period was conducted. Patients were separated into a multimodal group consisting of non-narcotic medication, local analgesia and a peripheral nerve block (PNB) versus patients receiving only a PNB. Differences in post-anesthesia care unit (PACU) visual analog scores, PACU time to discharge, PACU opioid consumption, hospital admission and complications between protocols were recorded and analyzed. There were 422 patients who underwent 484 surgeries, with 15 patients crossing over pain protocol groups for surgery on the contralateral hip. One hundred and ninety-six patients underwent 213 procedures in the multimodal group and 241 patients underwent 271 procedures in the PNB group. No differences in baseline characteristics were appreciated between groups. Mean time to discharge was significantly shorter in the multimodal group (137.4 ± 49.3 min versus 176.3 ± 6.5 min; P &lt; 0.001) which also had less post-operative admissions (0 versus 9; P = 0.006) than the PNB group. In patients who crossed over protocol groups, a statistically shorter time to discharge was appreciated with the multimodal protocol compared with the PNB protocol (119.9 ± 32.1 min versus 187.9 ± 9.2; P = 0.012). The three-phase, multimodal pain protocol led to significantly faster discharge times and fewer hospital admissions when compared with isolated PNB in patients undergoing primary hip arthroscopy.
Laryngotracheal stenosis following intubation and tracheostomy for COVID-19 pneumonia: a case report
Authors: Vasanthan Rishi , Sorooshian Parviz , Sri Shanmuganathan Vishnu , Al-Hashim Muhannad 
Published: December 2020

Abstract
Laryngotracheal stenosis (LTS) is a rare but serious condition characterized by narrowing of the airway. Iatrogenic injury from endotracheal intubation or tracheostomy insertion is the most common cause of LTS. We present the first reported experience of managing a patient diagnosed with subglottic stenosis (a subtype of LTS) following previous intubation and tracheostomy for coronavirus disease 2019 (COVID-19). This patient required an urgent surgical tracheostomy and subsequent referral to a tertiary airway surgery unit for definitive treatment, which included microlaryngoscopy, laser excision and balloon dilatation. This case highlights that LTS should be included in the differential diagnosis for patients re-presenting with breathing difficulties after prolonged intubation or tracheostomy for COVID-19. Furthermore, it raises the concern of a rise in the incidence of this condition and an increased burden on the few units specializing in airway surgery.