bluuebunny/crossref_metadata_2025 huggingface dataset:
The Bromodomain Inhibitor, INCB057643, Targets Both Cancer Cells and the Tumor Microenvironment in Two Preclinical Models of Pancreatic Cancer
Authors: Leal Ana S. , Liu Phillip , Krieger-Burke Teresa , Ruggeri Bruce , Liby Karen T.
Published: December 2020

In pancreatic cancer the tumor microenvironment (TME) can account for up to 90% of the tumor mass. The TME drives essential functions in disease progression, invasion and metastasis. Tumor cells can use epigenetic modulation to evade immune recognition and shape the TME toward an immunosuppressive phenotype. Bromodomain inhibitors are a class of drugs that target BET (bromodomain and extra-terminal) proteins, impairing their ability to bind to acetylated lysines and therefore interfering with transcriptional initiation and elongation. INCB057643 is a new generation, orally bioavailable BET inhibitor that was developed for treating patients with advanced malignancies. KrasG12D/+; Trp53R172H/+; Pdx-1-Cre (KPC) mice mimic human disease, with similar progression and incidence of metastasis. Treatment of established tumors in KPC mice with INCB057643 increased survival by an average of 55 days, compared to the control group. Moreover, INCB057643 reduced metastatic burden in these mice. KPC mice treated with INCB057643, starting at 4 weeks of age, showed beneficial changes in immune cell populations in the pancreas and liver. Similarly, INCB057643 modified immune cell populations in the pancreas of KrasG12D/+; Pdx-1-Cre (KC) mice with pancreatitis, an inflammatory process known to promote pancreatic cancer progression. The data presented here suggest that the bromodomain inhibitor INCB057643 modulates the TME, reducing disease burden in two mouse models of pancreatic cancer. Furthermore, this work suggests that BRD4 may play a role in establishing the TME in the liver, a primary metastatic site for pancreatic cancer.
Plasma Biomarkers Screening by Multiplex ELISA Assay in Patients with Advanced Non-Small Cell Lung Cancer Treated with Immune Checkpoint Inhibitors
Authors: Costantini Adrien , Takam Kamga Paul , Julie Catherine , Corjon Alexandre , Dumenil Coraline , Dumoulin Jennifer , Ouaknine Julia , Giraud Violaine , Chinet Thierry , Rottman Martin , Emile Jean-François , Giroux Leprieur Etienne
Published: December 2020

Immune checkpoint inhibitors (ICIs) are commonly used in patients with advanced non-small cell lung cancer (NSCLC). An unmet need remains for new biomarkers associated with ICIs. In this study, consecutive patients with advanced NSCLC treated with nivolumab or pembrolizumab were included. Plasma at ICIs initiation was prospectively collected and a multiplex ELISA assay testing 48 cytokines and growth factors was performed. Exploratory endpoints were the association between plasma biomarkers with outcome and grade III–IV immune related adverse events (irAEs). Thirty-five patients were included. Patients without clinical benefit (n = 22) had higher pre-ICI soluble Hepatocyte Growth Factor (sHGF) (210.9 vs. 155.8 pg/mL, p = 0.010), lower pre-ICI soluble Fibroblast Growth Factor (sFGF) (4.0 vs. 4.8 pg/mL, p = 0.043) and lower pre-ICI interleukine-12 (IL-12) (1.3 vs. 2.2 pg/mL, p = 0.043) concentrations. Patients with early progression (n = 23) had higher pre-ICIs sHGF (206.2 vs. 155.8 pg/mL, p = 0.025) concentrations. Patients with low sHGF levels at ICIs initiation had longer progression-free survival and overall survival than those with high sHGF levels: respectively 2.5 vs. 8.0 months (p = 0.002), and 5.5 vs. 35.0 months (p = 0.001). TNF-α, IL-16, IL-12p40 and MCP3 were associated with high grade irAEs. This study shows the potential association between several plasma biomarkers with outcome and grade 3–4 IrAEs in advanced NSCLC treated with ICIs.
ACKT: A Proposal for a Novel Score to Predict Prolonged Mechanical Ventilation after Surgical Treatment of Meningioma in Geriatric Patients
Authors: Scharnböck Elisa , Weinhold Leonie , Potthoff Anna-Laura , Schäfer Niklas , Heimann Muriel , Lehmann Felix , Güresir Erdem , Bode Christian , Jacobs Andreas H. , Vatter Hartmut , Herrlinger Ulrich , Schneider Matthias , Schuss Patrick
Published: December 2020

Indication for surgical treatment in patients with intracranial meningioma must include both clinical aspects and an individual risk–benefit stratification, especially in geriatric patients. Prolonged mechanical ventilation (PMV) has not been investigated for its potential effects in patients with meningioma. We therefore analyzed the impact of PMV on mortality in geriatric patients who had undergone meningioma resection. Between 2009 and 2019, 261 patients aged ≥ 70 years were surgically treated for intracranial meningioma at our institution. PMV was defined as postoperative invasive ventilation of >7 days. Postoperative PMV was present in 17 of 261 geriatric meningioma patients (7%). Twenty-five geriatric patients (10%) died within 1 year after surgery. A scoring system (“ACKT”) based on the variables of age, preoperative C-reactive protein (CRP) value, Karnofsky performance scale and tumor size supports prediction of postoperative PMV (sensitivity 73%, specificity 84%). PMV is significantly associated with increased mortality after surgical treatment of meningiomas in geriatric patients. Furthermore, we suggest a novel score (“ACKT”) to preoperatively estimate the risk of PMV occurrence, which might help to guide future risk–benefit assessment and patient counseling in the geriatric meningioma population.
Association between Growth Differentiation Factor-15 (GDF-15) Serum Levels, Anorexia and Low Muscle Mass among Cancer Patients
Authors: Molfino Alessio , Amabile Maria Ida , Imbimbo Giovanni , Rizzo Veronica , Pediconi Federica , Catalano Carlo , Emiliani Alessandra , Belli Roberta , Ramaccini Cesarina , Parisi Claudia , Nigri Giuseppe , Muscaritoli Maurizio
Published: December 2020

The pathophysiology of cancer anorexia is complex and serum biomarkers, including growth and differentiation factor(s) (GDF), may be modulated. We explored the association(s) between GDF-15 serum levels and anorexia and, secondarily, with low muscle mass and body weight loss in cancer patients. We considered gastrointestinal and lung cancer patients (CP) and healthy BMI-matched controls. The FAACT-questionnaire was administered to diagnose anorexia and we calculated the L3-SMI by CT scan to assess low muscularity, setting their cutoff values at the lowest tertile. GDF-15 serum levels were assessed by ELISA. We enrolled 59 CP and 30 controls; among CP, 25 were affected by gastrointestinal and 34 by lung cancer. Anorexia was present in 36% of CP. Gastrointestinal CP resulted more anorexic compared to lung CP (p = 0.0067). Low muscle mass was present in 33.9% of CP and L3-SMI was lower in gastrointestinal compared to lung CP (p = 0.049). The GDF-15 levels were higher in CP vs. controls (p = 0.00016), as well as in anorexic vs. non-anorexic CP (p = 0.005) and vs. controls (p < 0.0001). Gastrointestinal CP showed higher GDF-15 levels vs. lung CP (p = 0.0004). No difference was found in GDF-15 between CP with low muscle mass and those with moderate/high muscularity and between patients with body weight loss and those with stable weight. Our data support the involvement of GDF-15 in the pathogenesis of cancer anorexia. The mechanisms of action of GDF-15 in cancer should be further clarified also regarding the changes in muscularity.
The Role of CDK5 in Tumours and Tumour Microenvironments
Authors: Do Phuong Anh , Lee Chang Hoon
Published: December 2020

Cyclin-dependent kinase 5 (CDK5), which belongs to the protein kinase family, regulates neuronal function but is also associated with cancer development and has been proposed as a target for cancer treatment. Indeed, CDK5 has roles in cell proliferation, apoptosis, angiogenesis, inflammation, and immune response. Aberrant CDK5 activation triggers tumour progression in numerous types of cancer. In this review, we summarise the role of CDK5 in cancer and neurons and CDK5 inhibitors. We expect that our review helps researchers to develop CDK5 inhibitors as treatments for refractory cancer.
Use of a Cancer Registry to Evaluate Patient-Reported Outcomes of Immune Checkpoint Inhibitors
Authors: Jim Heather S. L. , Eisel Sarah L. , Hoogland Aasha I. , Shaw Sandra , King Jennifer C. , Dicker Adam P.
Published: December 2020

Immune checkpoint inhibitors (ICIs) are increasingly used for advanced lung cancer, but few studies have reported on patient-reported outcomes (PROs) outside the context of a clinical trial. The goal of the current study was to assess PROs in participants of a lung cancer registry who had been treated with an ICI. Patients participating in the GO2 Foundation’s Lung Cancer Registry who reported receiving atezolizumab, durvalumab, nivolumab, or pembrolizumab were invited to participate in a survey about their experiences during treatment. Quality of life was evaluated using the Functional Assessment of Cancer Therapy–General (FACT-G). Common symptomatic adverse events were evaluated using an item bank generated for ICIs. Internationally, 226 patients (mean age 61, 75% female) participated. Patients reported worse quality of life at the time of assessment than U.S. population and cancer normative samples. The most common moderate to severe adverse events during ICI treatment were fatigue (41%), aching joints (27%), and aching muscles (20%). Due to toxicity, 25% reported a treatment delay, 11% an emergency room visit, and 9% a hospitalization. This study is among the first to our knowledge to report on PROs of ICIs outside the context of a clinical trial. Results suggest higher rates of adverse events than previously reported in clinical trials.
The Impact of Immunofunctional Phenotyping on the Malfunction of the Cancer Immunity Cycle in Breast Cancer
Authors: Takeshita Takashi , Torigoe Toshihiko , Yan Li , Huang Jing Li , Yamashita Hiroko , Takabe Kazuaki
Published: December 2020

The cancer-immunity cycle (CIC) is a series of self-sustaining stepwise events to fight cancer growth by the immune system. We hypothesized that immunofunctional phenotyping that represent the malfunction of the CIC is clinically relevant in breast cancer (BC). Total of 2979 BC cases; 1075 from TCGA cohort, 1904 from METABRIC cohort were analyzed. The immunofunctional phenotype was classified as follows: hot T-cell infiltrated (HTI), high immune cytolytic activity (CYT), Cold T-cell infiltrated (CTI), high frequency of CD8+ T cells and low CYT, and non-inflamed, low frequency of CD8+ T cells and low CYT. The analysis of tumor immune microenvironment in the immunofunctional phenotype revealed that not only immunostimulatory factors, but also immunosuppressive factors were significantly elevated and immunosuppressive cells were significantly decreased in HTI. Patients in HTI were significantly associated with better survival in whole cohort and patients in CTI were significantly associated with worse survival in triple negative. Furthers, HTI was inversely related to estrogen responsive signaling. We demonstrated that immunofunctional phenotype not only indicated the degree of anti-cancer immune dysfunction, but also served as a prognostic biomarker and HTI was inversely related to estrogen response.
Sex Difference and Smoking Effect of Lung Cancer Incidence in Asian Population
Authors: Park Boyoung , Kim Yeol , Lee Jaeho , Lee Nayoung , Jang Seung Hun
Published: December 2020

This study analyzed the sex difference in the effect of smoking exposure on lung cancer in terms of absolute and relative risks despite the increasing lung cancer incidence in Asian female never smokers. A retrospective cohort study was conducted on individuals aged 40–79 years who participated in the national health screening program in 2007 and 2008 with linkage to the Korea Central Cancer Registry records. We evaluated sex differences in the age-standardized incidence rate (ASR) of lung cancer by smoking history and the hazard ratio (HR) after adjusting for potential confounders. ASRs for male and female never smokers were 92.5 and 38.3 per 100,000 person-years, respectively (rate ratio (RR) = 2.4; 95% confidence interval (CI) = 2.3–2.5). ASRs for male and female current smokers with a 30 pack-year smoking history were 305.3 and 188.4 per 100,000 person-years, respectively (RR = 1.6; 95% CI = 1.3–2.0). Smoking was significantly associated with lung cancer risk for both sexes. HRs for former smokers versus never smokers were 1.27 (95% CI = 1.23–1.33) for men and 1.43 (95% CI = 1.16–1.81) for women. HRs for current smokers versus never smokers were 2.71 (95% CI = 2.63–2.79) for men and 2.70 (95% CI = 2.48–2.94) for women. HRs for lung cancer increased similarly in both men and women according to smoking status. However, among Korean individuals with comparable smoking statuses, lung cancer incidence is higher in men than in women. Sex should be considered in combination with smoking history in the selection of a lung cancer screening target population.
Mosaic Fabry Disease in a Male Presenting as Hypertrophic Cardiomyopathy
Authors: Xu Maria , Orsborne Christopher , Eden James , Wallace Andrew , Church Heather J. , Tylee Karen , Deepak Sasalu , Cassidy Christopher , Woolfson Peter , Miller Christopher , Schmitt Matthias , Jovanovic Ana , Newman William G.
Published: December 2020

We describe a 55 year old male diagnosed with cardiomyopathy due to Fabry disease. Biochemical testing of blood spot and plasma showed low-normal alpha-galactosidase A (α-Gal A) levels. Genetic testing revealed somatic mosaicism for GLA c.901C>T, p.(Arg301Ter). Usually, males with Fabry disease due to loss of function variants in GLA show symptoms of the multisystemic features of the condition early in life, and have very low levels of the α-Gal A enzyme. This demonstrates that the diagnosis of Fabry disease in males with cardiomyopathy should still be considered even in the context of a normal plasma enzyme assay.
Adsorption and Photocatalytic Reduction of Carbon Dioxide on TiO2
Authors: Shtyka Oleksandr , Shatsila Viktar , Ciesielski Radoslaw , Kedziora Adam , Maniukiewicz Waldemar , Dubkov Sergey , Gromov Dmitry , Tarasov Andrey , Rogowski Jacek , Stadnichenko Andrey , Lazarenko Petr , Ryazanov Roman , Szynkowska-Jóźwik Malgorzata I. , Maniecki Tomasz
Published: December 2020

The photocatalytic activity of TiO2 depends on numerous factors, such as the chemical potential of electrons, charge transport properties, band-gap energy, and concentration of surface-active sites. A lot of research has been dedicated to determining the properties that have the most significant influence on the photocatalytic activity of semiconductors. Here, we demonstrated that the activity of TiO2 in the gas-phase reduction of CO2 is governed mainly by the desorption rate of the reaction intermediates and final products. This indicates that the specific surface area of TiO2 and binding strength of reaction intermediates and products are the main factors affecting the photocatalytic activity of TiO2 in the investigated process. Additionally, it was shown that rutile exhibits higher photocatalytic activity than anatase/rutile mixtures mainly due to its high efficiency in the visible portion of the electromagnetic spectrum.
Human Adipose-Derived Stem Cells in Madelung’s Disease: Morphological and Functional Characterization
Authors: Caponnetto Federica , Manini Ivana , Bulfoni Michela , Zingaretti Nicola , Miotti Giovanni , Di Loreto Carla , Cesselli Daniela , Mariuzzi Laura , Parodi Pier Camillo
Published: December 2020

Madelung Disease (MD) is a syndrome characterized by the accumulation of aberrant symmetric adipose tissue deposits. The etiology of this disease is yet to be elucidated, even though the presence of comorbidities, either genetic or environmental, has been reported. For this reason, establishing an in vitro model for MD is considered crucial to get insights into its physiopathology. We previously established a protocol for isolation and culture of stem cells from diseased tissues. Therefore, we isolated human adipose-derived stem cells (ASC) from MD patients and compared these cells with those isolated from healthy subjects in terms of surface phenotype, growth kinetic, adipogenic differentiation potential, and molecular alterations. Moreover, we evaluated the ability of the MD-ASC secretome to affect healthy ASC. The results reported a difference in the growth kinetic and surface markers of MD-ASC compared to healthy ASC but not in adipogenic differentiation. The most commonly described mitochondrial mutations were not observed. Still, MD-ASC secretome was able to shift the healthy ASC phenotype to an MD phenotype. This work provides evidence of the possibility of exploiting a patient-based in vitro model for better understanding MD pathophysiology, possibly favoring the development of novel target therapies.
Pan-Cancer Molecular Patterns and Biological Implications Associated with a Tumor-Specific Molecular Signature
Authors: Rocha Darío , García Iris A. , González Montoro Aldana , Llera Andrea , Prato Laura , Girotti María R. , Soria Gastón , Fernández Elmer A.
Published: December 2020

Studying tissue-independent components of cancer and defining pan-cancer subtypes could be addressed using tissue-specific molecular signatures if classification errors are controlled. Since PAM50 is a well-known, United States Food and Drug Administration (FDA)-approved and commercially available breast cancer signature, we applied it with uncertainty assessment to classify tumor samples from over 33 cancer types, discarded unassigned samples, and studied the emerging tumor-agnostic molecular patterns. The percentage of unassigned samples ranged between 55.5% and 86.9% in non-breast tissues, and gene set analysis suggested that the remaining samples could be grouped into two classes (named C1 and C2) regardless of the tissue. The C2 class was more dedifferentiated, more proliferative, with higher centrosome amplification, and potentially more TP53 and RB1 mutations. We identified 28 gene sets and 95 genes mainly associated with cell-cycle progression, cell-cycle checkpoints, and DNA damage that were consistently exacerbated in the C2 class. In some cancer types, the C1/C2 classification was associated with survival and drug sensitivity, and modulated the prognostic meaning of the immune infiltrate. Our results suggest that PAM50 could be repurposed for a pan-cancer context when paired with uncertainty assessment, resulting in two classes with molecular, biological, and clinical implications.
Tumor Suppressors Having Oncogenic Functions: The Double Agents
Authors: Datta Neerajana , Chakraborty Shrabastee , Basu Malini , Ghosh Mrinal K.
Published: December 2020

Cancer progression involves multiple genetic and epigenetic events, which involve gain-of-functions of oncogenes and loss-of-functions of tumor suppressor genes. Classical tumor suppressor genes are recessive in nature, anti-proliferative, and frequently found inactivated or mutated in cancers. However, extensive research over the last few years have elucidated that certain tumor suppressor genes do not conform to these standard definitions and might act as “double agents”, playing contrasting roles in vivo in cells, where either due to haploinsufficiency, epigenetic hypermethylation, or due to involvement with multiple genetic and oncogenic events, they play an enhanced proliferative role and facilitate the pathogenesis of cancer. This review discusses and highlights some of these exceptions; the genetic events, cellular contexts, and mechanisms by which four important tumor suppressors—pRb, PTEN, FOXO, and PML display their oncogenic potentials and pro-survival traits in cancer.
Neuron–Glia Interaction in the Developing and Adult Enteric Nervous System
Authors: Pawolski Verena , Schmidt Mirko H. H.
Published: December 2020

The enteric nervous system (ENS) constitutes the largest part of the peripheral nervous system. In recent years, ENS development and its neurogenetic capacity in homeostasis and allostasishave gained increasing attention. Developmentally, the neural precursors of the ENS are mainly derived from vagal and sacral neural crest cell portions. Furthermore, Schwann cell precursors, as well as endodermal pancreatic progenitors, participate in ENS formation. Neural precursors enherite three subpopulations: a bipotent neuron-glia, a neuronal-fated and a glial-fated subpopulation. Typically, enteric neural precursors migrate along the entire bowel to the anal end, chemoattracted by glial cell-derived neurotrophic factor (GDNF) and endothelin 3 (EDN3) molecules. During migration, a fraction undergoes differentiation into neurons and glial cells. Differentiation is regulated by bone morphogenetic proteins (BMP), Hedgehog and Notch signalling. The fully formed adult ENS may react to injury and damage with neurogenesis and gliogenesis. Nevertheless, the origin of differentiating cells is currently under debate. Putative candidates are an embryonic-like enteric neural progenitor population, Schwann cell precursors and transdifferentiating glial cells. These cells can be isolated and propagated in culture as adult ENS progenitors and may be used for cell transplantation therapies for treating enteric aganglionosis in Chagas and Hirschsprung’s diseases.
Umbilical Cord Tissue as a Source of Young Cells for the Derivation of Induced Pluripotent Stem Cells Using Non-Integrating Episomal Vectors and Feeder-Free Conditions
Authors: Mohamed Aisha , Chow Theresa , Whiteley Jennifer , Fantin Amanda , Sorra Kersti , Hicks Ryan , Rogers Ian M.
Published: December 2020

The clinical application of induced pluripotent stem cells (iPSC) needs to balance the use of an autologous source that would be a perfect match for the patient against any safety or efficacy issues that might arise with using cells from an older patient or donor. Drs. Takahashi and Yamanaka and the Office of Cellular and Tissue-based Products (PMDA), Japan, have had concerns over the existence of accumulated DNA mutations in the cells of older donors and the possibility of long-term negative effects. To mitigate the risk, they have chosen to partner with the Umbilical Cord (UC) banks in Japan to source allogeneic-matched donor cells. Production of iPSCs from UC blood cells (UCB) has been successful; however, reprogramming blood cells requires cell enrichment with columns or flow cytometry and specialized growth media. These requirements add to the cost of production and increase the manipulation of the cells, which complicates the regulatory approval process. Alternatively, umbilical cord tissue mesenchymal stromal cells (CT-MSCs) have the same advantage as UCB cells of being a source of young donor cells. Crucially, CT-MSCs are easier and less expensive to harvest and grow compared to UCB cells. Here, we demonstrate that CT-MSCs can be easily isolated without expensive enzymatic treatment or columns and reprogramed well using episomal vectors, which allow for the removal of the reprogramming factors after a few passages. Together the data indicates that CT-MSCs are a viable source of donor cells for the production of clinical-grade, patient matched iPSCs.
Role of Cardiac Macrophages on Cardiac Inflammation, Fibrosis and Tissue Repair
Authors: Lafuse William P. , Wozniak Daniel J. , Rajaram Murugesan V. S.
Published: December 2020

The immune system plays a pivotal role in the initiation, development and resolution of inflammation following insult or damage to organs. The heart is a vital organ which supplies nutrients and oxygen to all parts of the body. Heart failure (HF) has been conventionally described as a disease associated with cardiac tissue damage caused by systemic inflammation, arrhythmia and conduction defects. Cardiac inflammation and subsequent tissue damage is orchestrated by the infiltration and activation of various immune cells including neutrophils, monocytes, macrophages, eosinophils, mast cells, natural killer cells, and T and B cells into the myocardium. After tissue injury, monocytes and tissue-resident macrophages undergo marked phenotypic and functional changes, and function as key regulators of tissue repair, regeneration and fibrosis. Disturbance in resident macrophage functions such as uncontrolled production of inflammatory cytokines, growth factors and inefficient generation of an anti-inflammatory response or unsuccessful communication between macrophages and epithelial and endothelial cells and fibroblasts can lead to aberrant repair, persistent injury, and HF. Therefore, in this review, we discuss the role of cardiac macrophages on cardiac inflammation, tissue repair, regeneration and fibrosis.
Machine Learning Based Prediction of Nanoscale Ice Adhesion on Rough Surfaces
Authors: Ringdahl Simen , Xiao Senbo , He Jianying , Zhang Zhiliang
Published: December 2020

It is widely recognized that surface roughness plays an important role in ice adhesion strength, although the correlation between the two is far from understood. In this paper, two approaches, molecular dynamics (MD) simulations and machine learning (ML), were utilized to study the nanoscale intrinsic ice adhesion strength on rough surfaces. A systematic algorithm for making random rough surfaces was developed and the surfaces were tested for their ice adhesion strength, with varying interatomic potentials. Using MD simulations, the intrinsic ice adhesion strength was found to be significantly lower on rougher surfaces, which was attributed to the lubricating effect of a thin quasi-liquid layer. An increase in the substrate–ice interatomic potential increased the thickness of the quasi-liquid layer on rough surfaces. Two different ML algorithms, regression and classification, were trained using the results from the MD simulations, with support vector machines (SVM) emerging as the best for classifying. The ML approach showed an encouraging prediction accuracy, and for the first time shed light on using ML for anti-icing surface design. The findings provide a better understanding of the role of nanoscale roughness in intrinsic ice adhesion and suggest that ML can be a powerful tool in finding materials with a low ice adhesion strength.
Recent Advances and Challenges in Halide Perovskite Crystals in Optoelectronic Devices from Solar Cells to Other Applications
Authors: Rhee Seunghyun , An Kunsik , Kang Kyung-Tae
Published: December 2020

Organic-inorganic hybrid perovskite materials have attracted tremendous attention as a key material in various optoelectronic devices. Distinctive optoelectronic properties, such as a tunable energy band position, long carrier diffusion lengths, and high charge carrier mobility, have allowed rapid progress in various perovskite-based optoelectronic devices (solar cells, photodetectors, light emitting diodes (LEDs), and lasers). Interestingly, the developments of each field are based on different characteristics of perovskite materials which are suitable for their own applications. In this review, we provide the fundamental properties of perovskite materials and categorize the usages in various optoelectronic applications. In addition, the prerequisite factors for those applications are suggested to understand the recent progress of perovskite-based optoelectronic devices and the challenges that need to be solved for commercialization.
Principles of Best Diagnostic Practice in Tissue Repair and Wound Healing: An Expert Consensus
Authors: G. Armstrong David , Bauer Karen , Bohn Greg , Carter Marissa , Snyder Robert , Serena Thomas E.
Published: December 2020

Chronic wound treatment currently relies heavily on visual assessment by clinicians; however, the clinical signs and symptoms of infection and inflammation are unreliable in chronic wounds. The specialty of wound care has witnessed the advent of advanced interventions, such as cellular and/or tissue based products (CTP). The success of advanced therapies relies on preparing the wound bed by reducing bacterial burden and inflammation. The lack of diagnostics in chronic wound care leads to uncertainty in the adequacy of wound bed preparation. Recent research suggests that two novel point-of-care diagnostic tests can assist in the detection of chronic inflammation known as elevated neutrophil derived protease activity (EPA) and bacterial pathogenesis known as bacterial protease activity(BPA) in chronic wounds. Despite the evidence, however, clinicians report that incorporating diagnostics into every day practice is challenging and across the globe, they have requested guidance on their use. Methods and Recommendations: A panel of wound care experts, experienced with these tests, met to develop guidelines on their use in wound care practice. The consensus panel concluded that the clinician should test for BPA first. The panel maintained that the risk of invasive infection resulting from the presence of pathogenic bacteria was the greatest threat to the patient’s health. If the BPA test is negative, the panel recommended testing for EPA. In addition, it was suggested that if the wound failed to progress after the elevated BPA was treated and subsequent testing was negative for BPA, the clinician should consider testing for EPA. Conclusions: In this manuscript, the consensus panel suggests pathways for testing, treating, and retesting for EPA and BPA. The panel expects that following the algorithm has the potential to improve healing outcomes, result in more cost-effective use of advanced therapies, and improve antimicrobial stewardship by guiding antimicrobial use.
A Period-Aware Routing Method for IEEE 802.1Qbv TSN Networks
Authors: Huang Kai , Wu Jingkang , Jiang Xiaowen , Xiong Dongliang , Huang Kaitian , Yao Hao , Xu Wenyuan , Peng Yonggang , Liu Zhili
Published: December 2020

The IEEE 802.1Qbv standard provides deterministic delay and low jitter guarantee for time-critical communication using a precomputed cyclic transmission schedule. Computing such transmission schedule requires routing the flows first, which significantly affects the quality of the schedule. So far off-the-shelf algorithms like load-balanced routing, which minimize the maximum scheduled traffic load (MSTL), have been used to accommodate more time-triggered traffic. However, they do not consider that the bandwidth utilization of periodic flows is decentralized and their criteria for bottleneck of scheduling are imprecise. In this paper, we firstly explore the combinability among different periods of flows, which can measure their ability to share bandwidth without conflict. Then, we propose a novel period-aware routing algorithm to reduce the scheduling bottleneck, thus more flows can be accommodated. The experiment results show that the success rate of scheduling is significantly improved compared to shortest path routing and load balanced routing.
F_Radish: Enhancing Silent Data Corruption Detection for Aerospace-Based Computing
Authors: Yang Na , Wang Yun
Published: December 2020

Radiation-induced soft errors degrade the reliability of aerospace-based computing. Silent data corruption (SDC) is the most dangerous and insidious type of soft error result. To detect SDC, program invariant assertions are used to harden programs. However, there exist redundant assertions in hardened programs, which impairs the detection efficiency. Benign errors are another type of soft error result. An assertion may detect benign errors, incurring unnecessary recovery overhead. The detection degree of an assertion represents the detection capability, and an assertion with a high detection degree can detect severe errors. To improve the detection efficiency and detection degree while reducing the benign detection ratio, F_Radish is proposed in the present work to screen redundant assertions in a novel way. At a program point, the detection degree and benign detection ratio are considered to evaluate the importance of the assertions in the program point. As a result, only the most important assertion remains in the program point. Moreover, the redundancy degree is considered to screen redundant assertions for neighbouring program points. Experimental results show that in comparison with the Radish approach, the detection efficiency of F_Radish is about two times greater. Moreover, F_Radish reduces the benign detection ratio and improves the detection degree. It can avoid more unnecessary recovery overheads and detect more serious SDC than can Radish.
Economic Valuation of Carbon Storage and Sequestration in Retezat National Park, Romania
Authors: Pache Robert-George , Abrudan Ioan Vasile , Niță Mihai-Daniel
Published: December 2020

Carbon storage and sequestration is one of the most important services provided by forest ecosystems, the most powerful tools for climate change mitigation and adaptation. Its value is not always captured and appreciated at a fair level, with people taking for granted these benefits provided by the ecosystems. Our first objective was to evaluate the amount of carbon storage and sequestration within a specific area—Retezat National Park (RNP), Romania, in a specific timeframe, using mainly the data from forest management plans. The second objective was to estimate the economic value of the carbon sequestered by the ecosystems within the national park. Based on the carbon market price, we calculated the monetary value of the sequestered carbon. The third objective was to cross-validate the model using mobile terrestrial LiDAR scanner 3D mapping technology in several field plots. Our results reveal comparable stocks of carbon with the ones modelled based on the forest management plans, enabling us to use these plans as an accurate source of information. The present study underlines that the financial effort for the management of the ecosystems which provide these services can be sustained by implementing financial mechanisms aiming to direct ecosystem services values into the management of these ecosystems.
Public Visual Preference for Dead Wood in Different Types of Landscape
Authors: Qiu Ling , Yu Na , Gao Yanan , Zhang Tian , Gao Tian
Published: December 2020

Although dead wood is considered to be one of the most reliable indicators for measuring the level of biodiversity, it was still seemingly unpopular with the public. In order to identify the public’s preferences for dead wood and explore the driving factors for it, this study investigated academic-related group and layman group preferences for a variety of forms of dead wood in different types of environment through the use of questionnaire surveys. The results showed: (a) The participants preferred the urban natural environments with dead wood, especially the layman group; (b) the existence of dead wood in semi-open/semi-closed green space and blue space was most likely to be appreciated; (c) the participants most liked the dead wood with a peculiar shape in the semi-open/semi-closed and the closed green space, and a regular shape in the open green space; (d) the information of landscape appreciation had the greatest positive influence on public’s dead wood preference, followed by the information of recreational facility and ecological education, and the information of “leading the way” was the least; (e) the present findings serve to provide a practical guidance for future optimal planning of urban environments from urban biodiversity and human recreation aspects.
Collection of Non-Timber Forest Products in Chinese Giant Panda Reserves: The Effect of Religious Beliefs
Authors: Li Mingchuan , Yu Boyang , Zheng Bin , Gao Lan
Published: December 2020

Religious belief play an irreplaceable role in the protection of natural resources. This paper explores the influence of religious beliefs on the Non-Timber Forest Products (NTFPs) collection behaviors of farmers, in order to provide new ideas on how to rationally use natural resources for nature reserves. Based on survey data of giant panda reserves in Sichuan and Shaanxi provinces in China, we analyze the differences of NTFPs collection between farmers with or without religious beliefs and those with different religious beliefs. Our results show that: (i) The SUR-Probit method can be used to overcome the endogeneity problem of the model and test the causal effect between religious belief and NTFPs collection; (ii) farmers with religious beliefs collect NTFPs to a lesser extent; and (iii) the collection of NTFPs by farmers with different religious beliefs can be distinguished. The important role of religious belief in the use of natural resources has often been neglected in previous studies. In our research, we find that religious belief can indeed guide the individual choice of resource utilization behavior, to a certain extent, ultimately achieving the mutual co-ordination of ecological protection and economic development, which can also be used as a reference for policy-making.
Ownership Patterns Drive Multi-Scale Forest Structure Patterns across a Forested Region in Southern Coastal Oregon, USA
Authors: Griffey Vivian , Kellogg Bryce , Haugo Ryan , Kane Van
Published: December 2020

Research Highlights: We used airborne lidar to assess the multi-scalar patterns of forest structure across a large (471,000 hectare), multi-owner landscape of the Oregon Coast Range, USA. The results of this study can be used in the development and evaluation of conservation strategies focused on forest management. Background and Objectives: Human management practices reflect policy and economic decisions and shape forest structure through direct management and modification of disturbance regimes. Previous studies have found that land ownership affects forest cover, patch dynamics, structure, and ecosystem function and services. However, prior assessments of forest structure across landscapes and ownerships have been limited by a lack of high-fidelity forest structure measurements across a large spatial extent. We addressed three research questions: (1) What distinct classes of forest structure exist across our study area? (2) How does the distribution and pattern of forest structure vary among types of owners at scales of patches, ownership types, and subregion, and is this independent of property size? and (3) What implications do the fine and sub-regional scale patterns have for landscape configuration goals under recent updates to the Northwest Forest Plan? Materials and Methods: We examined forest structure patterns by identifying six statistically distinct classes of forest structure and then examining their distribution across and within ownership types. We used these structure classes to examine their area within each ownership class, mean patch size, and intermixing at multiple scales. Results and Conclusion: We found that the six different forest structure classes in the study area can be interpreted as two assemblages: production-style forests, principally on private lands, and structurally complex forests, principally on public lands. We found that land ownership objectives resulted in distinct landscape patterns of forest structure as measured by mean structure class patch size and intermixing of different structure class patches. Finally, we found that forest structure differed between public and private lands but differed comparatively little among ownership types within those two broad categories.
A Crown Contour Envelope Model of Chinese Fir Based on Random Forest and Mathematical Modeling
Authors: Tian Yingze , Wu Baoguo , Su Xiaohui , Qi Yan , Chen Yuling , Min Zhiqiang
Published: December 2020

The tree crown is an important part of a tree and is closely related to forest growth status, forest canopy density, and other forest growth indicators. Chinese fir (Cunninghamia lanceolata (Lamb.) Hook) is an important tree species in southern China. A three-dimensional (3D) visualization assistant decision-making system of plantations could be improved through the construction of crown contour envelope models (CCEMs), which could aid plantation production. The goal of this study was to establish CCEMs, based on random forest and mathematical modeling, and to compare them. First, the regression equation of a tree crown was calculated using the least squares method. Then, forest characteristic factors were screened using methods based on mutual information, recursive feature elimination, least absolute shrink and selection operator, and random forest, and the random forest model was established based on the different screening results. The accuracy of the random forest model was higher than that of the mathematical modeling. The best performing model based on mathematical modeling was the quartic polynomial with the largest crown radius as the variable (R-squared (R2) = 0.8614 and root mean square error (RMSE) = 0.2657). Among the random forest regression models, the regression model constructed using mutual information as the feature screening method was the most accurate (R2 = 0.886, RMSE = 0.2406), which was two percentage points higher than mathematical modeling. Compared with mathematical modeling, the random forest model can reflect the differences among trees and aid 3D visualization of a Chinese fir plantation.
Effects of Slope Gradient on Runoff and Sediment Yield on Machine-Induced Compacted Soil in Temperate Forests
Authors: Jourgholami Meghdad , Karami Sara , Tavankar Farzam , Lo Monaco Angela , Picchio Rodolfo
Published: December 2020

There has been a severely negative impact on soil water resources in temperate forests caused by the introduction of the type of heavy machinery in the forestry sector used for forest harvesting operations. These soil disturbances increase the raindrop impact on bare mineral soil, decrease infiltration rate, detach soil particles, and enhance surface flow. According to several studies, the role of slope gradient influence on runoff and soil loss continues to be an issue, and therefore more study is needed in both laboratory simulations and field experiments. It is important to define and understand what the impacts of slope gradient in harvesting practices are, so as to develop guidelines for forest managers. More knowledge on the key factors that cause surface runoff and soil loss is important in order to limit any negative results from timber harvesting operations performed on hilly terrains in mountainous forests. A field setting using a runoff plot 2 m2 in size was installed to individualize the effects of different levels of slope gradient (i.e., 5, 10, 15, 20, 25, 30, 35, and 40%) on the surface runoff, runoff coefficient, and sediment yield on the skid trails under natural rainfall conditions. Runoff and sediment yield were measured with 46 rainfall events which occurred during the first year after machine traffic from 17 July 2015 to 11 July 2016 under natural conditions. According to Pearson correlation, runoff (r = 0.51), runoff coefficient (r = 0.55), and sediment yield (r = 0.51) were significantly correlated with slope gradient. Results show that runoff increased from 2.45 to 6.43 mm as slope gradient increased from 5 to 25%, reaching to the critical point of 25% for slope. Also, further increasing the slope gradient from 25 to 40% led to a gradual decrease of the runoff from 6.43 to 4.62 mm. Runoff coefficient was significantly higher under the plot with a slope gradient of 25% by 0.265, whereas runoff coefficient was lowest under the plot with a slope gradient of 5%. Results show that sediment yield increased by increasing the slope gradient of plot ranging 5% to 30%, reaching to the critical point of 30%, and then decreased as the slope gradient increased from 35% to 40%. Runoff plot with a slope gradient of 30% (4.08 g m−2) ≈ plot length of 25% (3.91 g m−2) had a significantly higher sediment yield, whereas sediment yield was lowest under the plot with a slope gradient of 5% and 10%. A regression analysis of rainfall and runoff showed that runoff responses to rainfall for plots with different slope gradients were linearly and significantly increased. According to the current results, log skidding operations should be planned in the skid trails with a slope gradient lower than the 25 to 30% to suppress the negative effect of skidding operations on runoff and sediment yield.
Evaluation of Deep Convolutional Generative Adversarial Networks for Data Augmentation of Chest X-ray Images
Authors: Kora Venu Sagar , Ravula Sridhar
Published: December 2020

Medical image datasets are usually imbalanced due to the high costs of obtaining the data and time-consuming annotations. Training a deep neural network model on such datasets to accurately classify the medical condition does not yield the desired results as they often over-fit the majority class samples’ data. Data augmentation is often performed on the training data to address the issue by position augmentation techniques such as scaling, cropping, flipping, padding, rotation, translation, affine transformation, and color augmentation techniques such as brightness, contrast, saturation, and hue to increase the dataset sizes. Radiologists generally use chest X-rays for the diagnosis of pneumonia. Due to patient privacy concerns, access to such data is often protected. In this study, we performed data augmentation on the Chest X-ray dataset to generate artificial chest X-ray images of the under-represented class through generative modeling techniques such as the Deep Convolutional Generative Adversarial Network (DCGAN). With just 1341 chest X-ray images labeled as Normal, artificial samples were created by retaining similar characteristics to the original data with this technique. Evaluating the model resulted in a Fréchet Distance of Inception (FID) score of 1.289. We further show the superior performance of a CNN classifier trained on the DCGAN augmented dataset.
Probably Correct: Rescuing Repeats with Short and Long Reads
Authors: Cechova Monika
Published: December 2020

Ever since the introduction of high-throughput sequencing following the human genome project, assembling short reads into a reference of sufficient quality posed a significant problem as a large portion of the human genome—estimated 50–69%—is repetitive. As a result, a sizable proportion of sequencing reads is multi-mapping, i.e., without a unique placement in the genome. The two key parameters for whether or not a read is multi-mapping are the read length and genome complexity. Long reads are now able to span difficult, heterochromatic regions, including full centromeres, and characterize chromosomes from “telomere to telomere”. Moreover, identical reads or repeat arrays can be differentiated based on their epigenetic marks, such as methylation patterns, aiding in the assembly process. This is despite the fact that long reads still contain a modest percentage of sequencing errors, disorienting the aligners and assemblers both in accuracy and speed. Here, I review the proposed and implemented solutions to the repeat resolution and the multi-mapping read problem, as well as the downstream consequences of reference choice, repeat masking, and proper representation of sex chromosomes. I also consider the forthcoming challenges and solutions with regards to long reads, where we expect the shift from the problem of repeat localization within a single individual to the problem of repeat positioning within pangenomes.