In Silico Immunogenicity Assessment of Therapeutic Peptides

The application of therapeutic peptides in clinical practice has significantly progressed in the past decades. However, immunogenicity remains an inevitable and crucial issue in the development of therapeutic peptides. The prediction of antigenic peptides presented by MHC class II is a critical approach to evaluating the immunogenicity of therapeutic peptides. With the continuous upgrade of algorithms and databases in recent years, the prediction accuracy has been significantly improved. This has made in silico evaluation an important component of immunogenicity assessment in therapeutic peptide development. In this review, we summarize the development of peptide-MHC-II binding prediction methods for antigenic peptides presented by MHC class II molecules and provide a systematic explanation of the most advanced ones, aiming to deepen our understanding of this field that requires particular attention.

Current Computational Methods for Protein-Peptide Complex Structure Prediction

Peptide-mediated protein-protein interactions (PPIs) play an important role in various biological processes. The development of peptide-based drugs to modulate PPIs has attracted increasing attention due to the advantages of high specificity and low toxicity. In the development of peptide-based drugs, one of the most important steps is to determine the interaction details between the peptide and the target protein. In addition to experimental methods, recently developed computational methods provide a cost-effective way for studying protein-peptide interactions. In this article, we carefully reviewed recently developed protein-peptide docking methods, which were classified into three groups: template-based docking, template-free docking, and hybrid method. Then, we presented available benchmarking sets and evaluation metrics for assessing protein-peptide docking performance. Furthermore, we discussed the use of molecular dynamics simulations, as well as deep learning approaches in protein-peptide complex prediction.

ACP-Dnnel: anti-coronavirus peptides' prediction based on deep neural network ensemble learning

The ongoing COVID-19 pandemic has caused dramatic loss of human life. There is an urgent need for safe and efficient anti-coronavirus infection drugs. Anti-coronavirus peptides (ACovPs) can inhibit coronavirus infection. With high-efficiency, low-toxicity, and broad-spectrum inhibitory effects on coronaviruses, they are promising candidates to be developed into a new type of anti-coronavirus drug. Experiment is the traditional way of ACovPs' identification, which is less efficient and more expensive. With the accumulation of experimental data on ACovPs, computational prediction provides a cheaper and faster way to find anti-coronavirus peptides' candidates. In this study, we ensemble several state-of-the-art machine learning methodologies to build nine classification models for the prediction of ACovPs. These models were pre-trained using deep neural networks, and the performance of our ensemble model, ACP-Dnnel, was evaluated across three datasets and independent dataset. We followed Chou's 5-step rules. (1) we constructed the benchmark datasets data1, data2, and data3 for training and testing, and introduced the independent validation dataset ACVP-M; (2) we analyzed the peptides sequence composition feature of the benchmark dataset; (3) we constructed the ACP-Dnnel model with deep convolutional neural network (DCNN) merged the bi-directional long short-term memory (BiLSTM) as the base model for pre-training to extract the features embedded in the benchmark dataset, and then, nine classification algorithms were introduced to ensemble together for classification prediction and voting together; (4) tenfold cross-validation was introduced during the training process, and the final model performance was evaluated; (5) finally, we constructed a user-friendly web server accessible to the public at http://150.158.148.228:5000/ . The highest accuracy (ACC) of ACP-Dnnel reaches 97%, and the Matthew's correlation coefficient (MCC) value exceeds 0.9. On three different datasets, its average accuracy is 96.0%. After the latest independent dataset validation, ACP-Dnnel improved at MCC, SP, and ACC values 6.2%, 7.5% and 6.3% greater, respectively. It is suggested that ACP-Dnnel can be helpful for the laboratory identification of ACovPs, speeding up the anti-coronavirus peptide drug discovery and development. We constructed the web server of anti-coronavirus peptides' prediction and it is available at http://150.158.148.228:5000/ .

Probing gigahertz coherent acoustic phonons in TiO2 mesoporous thin films

Ultrahigh-frequency acoustic-phonon resonators usually require atomically flat interfaces to avoid phonon scattering and dephasing, leading to expensive fabrication processes, such as molecular beam epitaxy. Mesoporous thin films are based on inexpensive wet chemical fabrication techniques that lead to relatively flat interfaces regardless the presence of nanopores. Here, we report mesoporous titanium dioxide-based acoustic resonators with resonances up to 90 GHz, and quality factors from 3 to 7. Numerical simulations show a good agreement with the picosecond ultrasonics experiments. We also numerically study the effect of changes in the speed of sound on the performance of the resonator. This change could be induced by liquid infiltration into the mesopores. Our findings constitute the first step towards the engineering of building blocks based on mesoporous thin films for reconfigurable optoacoustic sensors.

[Gene mutation profiles and clinicopathological features of patients with non-small cell lung cancer harboring KRAS G12C mutation: a single-center retrospective study]

Objective: To accurately screen non-small cell lung cancer (NSCLC) patients with KRAS G12C mutation and to evaluate their clinicopathological features, prognostic factors and current treatment status. Methods: A total of 19 410 NSCLC cases diagnosed at the Department of Pathology of Shanghai Chest Hospital, Shanghai, China from January 2018 to September 2021 were retrospectively reviewed, and the cases with KRAS gene mutation detected by next-generation sequencing were included. The clinicopathological and genetic mutation data of these cases were collected and analyzed. Results: A total of 1 633 (8.4%) NSCLC patients carried a KRAS gene mutation, among whom G12C was the most frequent (468 cases, 28.7%) mutant subtype. The mutation was more commonly found in males (414/468, 88.5%), patients with a history of smoking (308/468, 65.8%), and patients with a pathological type of invasive adenocarcinoma (231/468, 49.4%). The most common co-mutated genes in KRAS G12C mutant NSCLC were TP53 (52.4%, 245/468), STK11 (18.6%, 87/468) and ATM (13.2%, 62/468). The proportion of PD-L1 expression (≥1%) in KRAS G12C mutant NSCLC was significantly higher than that in patients without G12C mutation [64.3% (90/140) vs. 56.1% (193/344), P=0.014]. Immune checkpoint inhibitors (ICIs) treatment significantly prolonged progression-free survival (PFS) in NSCLC patients (10.0 months vs. 5.0 months, P=0.011). However, combination of chemotherapy and ICIs with anti-angiogenesis inhibitors or multi-target inhibitors did not significantly improve PFS in patients with KRAS G12C mutant NSCLC (P>0.05). Patients with KRAS G12C mutation NSCLC treated with ICIs and KRAS G12C patients with TP53 mutation had significantly longer median PFS than those with STK11 mutation (9.0 months vs. 4.3 months, P=0.012). Conclusions: Patients with KRAS G12C mutant NSCLC have relatively higher levels of PD-L1 expression and can benefit from ICIs treatment. The feasibility of chemotherapy, ICIs therapy and their combination needs further investigation.

Dynamic analysis of an age structure model for oncolytic virus therapy

Cancer is recognized as one of the serious diseases threatening human health. Oncolytic therapy is a safe and effective new cancer treatment method. Considering the limited ability of uninfected tumor cells to infect and the age of infected tumor cells have a significant effect on oncolytic therapy, an age-structured model of oncolytic therapy involving Holling-Ⅱ functional response is proposed to investigate the theoretical significance of oncolytic therapy. First, the existence and uniqueness of the solution is obtained. Furthermore, the stability of the system is confirmed. Then, the local stability and global stability of infection-free homeostasis are studied. The uniform persistence and local stability of the infected state are studied. The global stability of the infected state is proved by constructing the Lyapunov function. Finally, the theoretical results are verified by numerical simulation. The results show that when the tumor cells are at the appropriate age, injection of the right amount of oncolytic virus can achieve the purpose of tumor treatment.

Dynamic analysis of a predator-prey state-dependent impulsive model with fear effect in which action threshold depending on the prey density and its changing rate

In ecology, the impact of predators goes beyond killing prey, the mere presence of predators reduces the ability of prey to reproduce. In this study, we extend the predator-prey model with fear effect by introducing the state-dependent control with a nonlinear action threshold depending on the combination of the density of prey and its changing rate. We initially defined the Poincaré map of the proposed model and studied its fundamental properties. Utilizing the properties of the Poincaré map, periodic solution of the model is further investigated, including the existence and stability of the order-1 periodic solution and the existence of the order-k (k≥2) periodic solutions. In addition, the influence of the fear effect on the system's dynamics is explored through numerical simulations. The action threshold used in this paper is more consistent with the actual growth of the population than in earlier linear threshold studies, and the results show that the control objectives are better achieved using the action threshold strategy. The analytical approach used in this study provided several novel methods for analyzing the complex dynamics that rely on state-dependent impulsive.

Synchronization of Neural Networks via Periodic Self-Triggered Impulsive Control and Its Application in Image Encryption

In this article, a periodic self-triggered impulsive (PSTI) control scheme is proposed to achieve synchronization of neural networks (NNs). Two kinds of impulsive gains with constant and random values are considered, and the corresponding synchronization criteria are obtained based on tools from impulsive control, event-driven control theory, and stability analysis. The designed triggering protocol is simpler, easier to implement, and more flexible compared with some previously reported algorithms as the protocol combines the advantages of the periodic sampling and event-driven control. In addition, the chaotic synchronization of NNs via the presented PSTI sampling is further applied to encrypt images. Several examples are also utilized to illustrate the validity of the presented synchronization algorithm of NNs based on PSTI control and its potential applications in image processing.

Global dynamics for a Filippov system with media effects

In the process of spreading infectious diseases, the media accelerates the dissemination of information, and people have a deeper understanding of the disease, which will significantly change their behavior and reduce the disease transmission; it is very beneficial for people to prevent and control diseases effectively. We propose a Filippov epidemic model with nonlinear incidence to describe media's influence in the epidemic transmission process. Our proposed model extends existing models by introducing a threshold strategy to describe the effects of media coverage once the number of infected individuals exceeds a threshold. Meanwhile, we perform the stability of the equilibriua, boundary equilibrium bifurcation, and global dynamics. The system shows complex dynamical behaviors and eventually stabilizes at the equilibrium points of the subsystem or pseudo equilibrium. In addition, numerical simulation results show that choosing appropriate thresholds and control intensity can stop infectious disease outbreaks, and media coverage can reduce the burden of disease outbreaks and shorten the duration of disease eruptions.

Chimera and cluster collective states in a dispersal ecological network under state-dependent feedback control and complex habitat structure

Pest control based on an economic threshold (ET) can effectively prevent excessive pest control measures such as pesticide abuse and overharvesting. The instinctive dispersal of pest populations in biological network patches for better survival poses challenges for pest management. As long as the pest density is controlled below the economic threshold and no pest outbreak occurs, the aim of pest management can be achieved and it is not necessary to completely remove the pests. This study focuses on the issues of chimera states and cluster solutions in regular bidirectional biological networks with state-dependent impulsive pest management. We consider the influence of two different control modes on the system states, namely global control and local control. Local control is found to be more likely to induce the chimera state. In addition, in the local coupling mode, a higher coupling strength is more likely to generate a coherent state, whereas a lower coupling strength is more likely to generate chimera and incoherent states. Furthermore, the cluster size is inversely related to the coupling strength under local coupling and global control.

Activity recognition using multiplex limited penetrable visibility graph

To solve the dynamic problem of different activities in human activity recognition research, an activity recognition method based on a multiplex limited penetrable visibility graph is proposed. The 21 pressure values for each sampling are mapped to nodes in the first-layer network; then the average path length of nodes in the asynchronous periodic network is obtained, and the second-layer network used to explore different activities is built. Finally, the characteristic parameters and dynamic characteristics of different activities are explored and analyzed. The experimental results demonstrate that through the joint distribution of the average clustering coefficient and the maximum degree parameter of the node, the discrimination problems of different postures can be better realized, and it has good adaptability. It provides a new approach to gait recognition research that can be used in medical clinical diagnosis, rehabilitation training, and public health.

Polarization-independent 2×2 high diffraction efficiency beam splitter based on two-dimensional grating

Better performances of two-dimensional (2D) grating are required recently, such as polarization independence, high efficiency, wide bandwidth and so forth. In this paper, we propose a 2×2 2D silver cylindrical array grating with excellent polarization-independent high diffraction efficiency (DE) over communication band for beam splitting. The grating was calculated by rigorous coupled wave analysis (RCWA) and can achieve over 24% DE of four first diffraction orders at 1550 nm with nonuniformity of 1.43% in both transverse electric (TE) and transverse magnetic (TM) polarizations, which is a significant improvement over previous reports. The holographic exposure technology, wet chemical development process and electron beam evaporation were used to fabricate the 2D grating. The correctness and accuracy of the calculation are fully verified with the measurement result of fabricated grating. Excellent performances of the 2D splitter we proposed will have great potential for applications in optical communication, semiconductor manufacturing and displacement measurement.

Coupling the Macroscale to the Microscale in a Spatiotemporal Context to Examine Effects of Spatial Diffusion on Disease Transmission

There are many challenges to coupling the macroscale to the microscale in temporal or spatial contexts. In order to examine effects of an individual movement and spatial control measures on a disease outbreak, we developed a multiscale model and extended the semi-stochastic simulation method by linking individual movements to pathogen’s diffusion, linking the slow dynamics for disease transmission at the population level to the fast dynamics for pathogen shedding/excretion at the individual level. Numerical simulations indicate that during a disease outbreak individuals with the same infection status show the property of clustering and, in particular, individuals’ rapid movements lead to an increase in the average reproduction number \documentclass[12pt]{minimal} \usepackage{amsmath} \usepackage{wasysym} \usepackage{amsfonts} \usepackage{amssymb} \usepackage{amsbsy} \usepackage{mathrsfs} \usepackage{upgreek} \setlength{\oddsidemargin}{-69pt} \begin{document}$$R_0$$\end{document}R0, the final size and the peak value of the outbreak. It is interesting that a high level of aggregation the individuals’ movement results in low new infections and a small final size of the infected population. Further, we obtained that either high diffusion rate of the pathogen or frequent environmental clearance lead to a decline in the total number of infected individuals, indicating the need for control measures such as improving air circulation or environmental hygiene. We found that the level of spatial heterogeneity when implementing control greatly affects the control efficacy, and in particular, an uniform isolation strategy leads to low a final size and small peak, compared with local measures, indicating that a large-scale isolation strategy with frequent clearance of the environment is beneficial for disease control.

IPM strategies to a discrete switching predator-prey model induced by a mate-finding Allee effect

This paper proposes a discrete switching predator-prey model with a mate-finding Allee effect, where also switches are guided by Allee effect. One of the strategies analysed is to use a chemical in order to prevent the pest outbreak when the pest population is free of Allee effect. In this paper, we first study analytically the dynamic behaviors of the two subsystems and the equilibria and their stability of the switched system. Then we provide numerical bifurcation analyses for the switched discrete system. These show that the switched discrete system may have very complex dynamics by 2-parameter bifurcation diagrams which divide the space into regions and study equilibria, and 1-dimensional bifurcation diagrams which reveal that the system has periodic, chaotic solutions, period doubling bifurcations and so on. Furthermore, we try to refer the key parameters and initial densities of both populations associated with pest outbreaks and study their biological implications.

A general model of hormesis in biological systems and its application to pest management

Hormesis, a phenomenon whereby exposure to high levels of stressors is inhibitory but low (mild, sublethal and subtoxic) doses are stimulatory, challenges decision-making in the management of cancer, neurodegenerative diseases, nutrition and ecotoxicology. In the latter, increasing amounts of a pesticide may lead to upsurges rather than declines of pests, ecological paradoxes that are difficult to predict. Using a novel re-formulation of the Ricker population equation, we show how interactions between intervention strengths and dose timings, dose–response functions and intrinsic factors can model such paradoxes and hormesis. A model with three critical parameters revealed hormetic biphasic dose and dose timing responses, either in a J-shape or an inverted U-shape, yielding a homeostatic change or a catastrophic shift and hormetic effects in many parameter regions. Such effects were enhanced by repeated pulses of low-level stimulations within one generation at different dose timings, thereby reducing threshold levels, maximum responses and inhibition. The model provides insights into the complex dynamics of such systems and a methodology for improved experimental design and analysis, with wide-reaching implications for understanding hormetic effects in ecology and in medical and veterinary treatment decision-making. We hypothesized that the dynamics of a discrete generation pest control system can be determined by various three-parameter spaces, some of which reveal the conditions for occurrence of hormesis, and confirmed this by fitting our model to both hormetic data from the literature and to a non-hormetic dataset on pesticidal control of mirid bugs in cotton.

Long-range in situ picometer measurement of the period of an interference field

A scanning reference grating (SRG) method is proposed for high-precision in situ measuring and controlling the period of a long-range interference field. The reference grating is produced with the in situ interference field; then it is used to obtain phase shift signal when scanning in the interference field. With the phase shift signal collected by the SRG system, before the exposure process of the holographic grating fabrication, the period and the period uniformity of the holographic grating can be evaluated directly from the interference field; then optical adjustment can be applied until the grating period is tuned to any certain desired value. Experiments of measurement and adjustment are conducted, and an interference field with period value of 833.335  nm±10  pm in 60 mm range is reached. The proposed method gives an efficient way to fabricate large gratings of an accurate period; furthermore, it provides a reliable tool that may lead us to picometer-level optical metrology and fabrication for the most advanced lithographic equipment and in other scientific fields.

[Preliminary experience with transoral endoscopic thyroidectomy via vestibular approach: a report of 150 cases in a single center]

Objective: To summarize the preliminary experience with transoral endoscopic thyroidectomy via vestibular approach (TOETVA). Methods: A total of 150 consecutive patients with thyroid disease underwent TOETVA from November 2014 to February 2017 at Department of Thyroid Surgery, the Second Affiliated Hospital of Zhejiang University School of Medicine. The patients were comprised of 138 females and 12 males. The mean age of the patients was (31.7±7.6) years (ranging from 15 to 51 years). There were 108 patients of differential thyroid carcinoma (T1 or T2 ≤3 cm, cN0 or cN1a, M0) and 42 patients of benign thyroid disease (solid nodule ≤6 cm). The criteria analyzed were clinicopathologic characteristics, types of operation, operation time, complications and results of follow-up. Results: Two cases were converted into open surgery due to an incredible unexpected tumor size and tracheal invasion, respectively. One hundred and three patients with papillary carcinoma underwent transoral central neck dissection (CND), with the mean operation time of (146±34) minutes for hemithyroidectomy with CND, and (187±36) minutes for total or near total thyroidectomy with CND. The mean number of lymph node yields was 8.2±4.7, and the lymph node metastasis rate was 41.7% (43/103). Regarding postoperative complications, transient hoarseness occurred in 3 patients, and permanent recurrent laryngeal nerve occurred in 2 patients. One patient had local infection or transient mental nerve palsy. Transient hypocalcemia occurred in 31.8% of 22 patients who underwent total, near-total, or subtotalthyroidectomy, and no permanent hypocalcemia was registered. Mean hospital stay after operation was (3.5±0.6) days (ranging from 2 to 5 days). Mean follow-up period was (11.5±7.8) months (ranging from 1 to 28 months), no recurrence or metastasis occurred. Conclusions: TOETVA is feasible and safe for strictly selective patients. It brings perfect cosmetic effect. Long-term follow-up and further study is needed to assess its curative effect.

[The predictive accuracy of fine needle aspiration and BRAF V600E mutation in diagnosis of papillary thyroid carcinoma]

Objective: To evaluate the predictive accuracy of fine needle aspiration (FNA) and BRAF V600E mutation in distinguishing papillary thyroid carcinoma and other thyroid nodules. Methods: This retrospective cohort study included 93 patients with papillary thyroid carcinoma who treated at Department of Thyroid Surgery, the Second Affiliated Hospital of Zhejiang University, College of Medicine from September 2016 to May 2018. There were 21 males and 72 females with age of (43.2±11.3) years (range: 19 to 67 years). All the patients got the examinations of FNA and BRAF V600E mutation by Amplification Refractory Mutation System, and subsequently underwent thyroid surgeries. The results of cytopathology, frozen section and pathology were collected and analyzed. The predictive accuracy of FNA cytology and BRAF V600E mutation was calculated. Results: In the 93 collected cases, 91 were diagnosed as papillary thyroid carcinoma postoperation, and the accurate predictive rate was 97.8%. Subgroup analysis was performed according to Bethesda System, the predictive rates were: unsatisfactory (Ⅰ) 6/6, benign (Ⅱ) 0/0, atypia of undetermined significance or follicular lesion of undetermined significance (Ⅲ) 16/17, follicular neoplasm or suspicious for follicular neoplasm (Ⅳ) 97.2% (35/36), suspicious for malignancy (Ⅴ) 100% (28/28), and malignant (Ⅵ) 6/6, respectively. Conclusion: Thyroid nodules with BRAF V600E mutation can be strongly speculated as papillary thyroid carcinoma.

Effect of zoledronic acid therapy on postmenopausal osteoporosis between the Uighur and Han population in Xinjiang: An open-label, long-term safety and efficacy study

WHAT IS KNOWN AND OBJECTIVE

Postmenopausal osteoporosis is becoming an urgent health problem in China. A once-yearly infusion of zoledronic acid can be very effective for the treatment of postmenopausal osteoporosis in significantly reducing the risk of hip, vertebral and other fractures. This study aimed to investigate zoledronic acid treatment on postmenopausal osteoporosis in Uighur and Han patients in Xinjiang province, China.

METHODS

A self-controlled and prospective trial design was adopted. A total of 155 Uighur and 151 Han patients were enrolled. All subjects received an intravenous infusion of zoledronic acid (5 mg) at day 0 (baseline) and at 12 months. Patients were followed up for 24 months; the bone mineral density (BMD) of the left total hip and L1-L4 vertebrae was measured at day 0 and at 24 months.

RESULTS AND DISCUSSION

BMD was significantly higher after zoledronic acid treatment compared with baseline levels in all patients, as assessed at 24 months. Moreover, the BMD of left total hip increased with 2.7% in the Han group was significantly higher than that of the Uighur group with 1.4% (left total hip, 95% CI: 2.6% to 2.8% in Han group vs 1.2% to 1.4% in Uighur group). The BMD of L1-L4 vertebrae increased with 2.2% in the Han group was significantly higher than that of the Uighur group with 1.6% (L1-L4 vertebrae, 95% CI, 2.0% to 2.4% in Han group vs 1.4% to 1.7% in Uighur group); P < .001. There was no significant difference in drug-related adverse effects between the two groups (P > .05).

WHAT IS NEW AND CONCLUSION

Zoledronic acid appears to be more effective in postmenopausal osteoporosis in Han than in Uighur subjects. The reasons for this require further investigation.

Molecular Mapping of Stripe Rust Resistance Gene Yr76 in Winter Club Wheat Cultivar Tyee

Tyee, one of the wheat cultivars used to differentiate races of Puccinia striiformis f. sp. tritici in the United States, was identified to have a single gene for all-stage resistance, tentatively named YrTye. To map the gene, Tyee was crossed with 'Avocet Susceptible' (AvS). Genetic analysis of the F₁, F₂, F_2:3, and BC₁ progenies confirmed a single dominant gene for resistance to race PSTv-37 that is avirulent to YrTye. A mapping population of 135 F₂ plants was phenotyped with PSTv-37 and the derived F_2:3 lines were tested with races PSTv-37, PSTv-40, and PSTv-79. The F₂ mapping population was genotyped with simple sequence repeat (SSR) markers. A genetic map comprising 13 SSR markers located YrTye in chromosome 3AS flanked distally by SSR marker wmc11 and proximally by wmc532 at 2.6 and 3.4 cM, respectively. Amplification of Chinese Spring 3A deletion lines placed the gene in the distal bin 3AS4-0.45 to 1.00. Because YrTye is different from all formally named Yr genes in chromosomal location, we permanently name the gene Yr76. A near-isogenic line of spring common wheat was developed and selected by testing F₃ lines derived from a AvS*4/Tyee cross with Tyee-avirulent and virulent races and the flanking markers. The specific SSR alleles flanking Yr76 were validated using cultivars and breeding lines with and without the gene, and showed high polymorphisms. The specificity of Yr76 is useful in differentiating P. striiformis f. sp. tritici races, and its tightly linked markers will be useful in developing resistant cultivars when combining the gene with other genes for resistance to stripe rust.

Effects of limited medical resource on a Filippov infectious disease model induced by selection pressure

In reality, the outbreak of emerging infectious diseases including SARS, A/H1N1 and Ebola are accompanied by the common cold and flu. The selective treatment measure for mitigating and controlling the emerging infectious diseases should be implemented due to limited medical resources. However, how to determine the threshold infected cases and when to implement the selective treatment tactics are crucial for disease control. To address this, we derive a non-smooth Filippov system induced by selective treatment measure. The dynamic behaviors of two subsystems have been discussed completely, and the existence conditions for sliding segment, sliding mode dynamics and different types of equilibria such as regular equilibrium, pseudo-equilibrium, boundary equilibrium and tangent point have been provided. Further, numerical sliding bifurcation analyses show that the proposed Filippov system has rich sliding bifurcations. Especially, the most interesting results are those for the fixed parameter set as the bifurcation parameter varies, the sliding bifurcations occur sequentially: crossing → buckling → real/virtual equilibrium → buckling → crossing. The key factors which affect the selective treatment measures and the threshold value of infected cases for emerging infectious disease have been discussed in more detail.

Protective and sensitive effects of melatonin combined with adriamycin on ER+ (estrogen receptor) breast cancer

OBJECTIVE

This study aims to investigate the protective and sensitive effects of melatonin (MLT) in the treatment of breast cancer.

MATERIALS AND METHODS

ER+ breast cancer rat model was established and then rats were randomly divided into five different groups as follows: control group, Diss group, adriamycin (ADM) group, MLT group, and MLT combined with adriamycin (M+A) group. Tumor weights and one month survival rate were compared among these groups. In addition, changes of tumor tissues and expression of E-cadherin were observed under optical microscopy or electro-microscopy.

RESULTS

Tumor weights were significantly lighter in M+A group than those in ADM group (p < 0.05). Under optical and electro-microscopy, tumor cell apoptosis was obviously increased in MLT group, and tumor cell injury was more severe in M+A group than that in ADM group; additionally, expression of E-cadherin was higher in MLT group and M+A group than that in other groups. Moreover, MLT group had the highest one month survival rate (100%), there was the poorest life quality in ADM group, but the best life quality in MLT.

CONCLUSION

MLT could enhance the sensitivity of tumor to ADM in vivo and improve patient's life quality.

Measurement of quarkonium production at forward rapidity in [Formula: see text] collisions at [Formula: see text]TeV

The inclusive production cross sections at forward rapidity of [Formula: see text], [Formula: see text], [Formula: see text](1S) and [Formula: see text](2S) are measured in [Formula: see text] collisions at [Formula: see text] with the ALICE detector at the LHC. The analysis is based on a data sample corresponding to an integrated luminosity of 1.35 pb[Formula: see text]. Quarkonia are reconstructed in the dimuon-decay channel and the signal yields are evaluated by fitting the [Formula: see text] invariant mass distributions. The differential production cross sections are measured as a function of the transverse momentum [Formula: see text] and rapidity [Formula: see text], over the ranges [Formula: see text] GeV/c for [Formula: see text], [Formula: see text] GeV/c for all other resonances and for [Formula: see text]. The measured cross sections integrated over [Formula: see text] and [Formula: see text], and assuming unpolarized quarkonia, are: [Formula: see text] [Formula: see text]b, [Formula: see text] [Formula: see text]b, [Formula: see text] nb and [Formula: see text] nb, where the first uncertainty is statistical and the second one is systematic. The results are compared to measurements performed by other LHC experiments and to theoretical models.

Energy dependence of the transverse momentum distributions of charged particles in pp collisions measured by ALICE

Differential cross sections of charged particles in inelastic pp collisions as a function of p_T have been measured at [Formula: see text] at the LHC. The p_T spectra are compared to NLO-pQCD calculations. Though the differential cross section for an individual [Formula: see text] cannot be described by NLO-pQCD, the relative increase of cross section with [Formula: see text] is in agreement with NLO-pQCD. Based on these measurements and observations, procedures are discussed to construct pp reference spectra at [Formula: see text] up to p_T=50 GeV/c as required for the calculation of the nuclear modification factor in nucleus-nucleus and proton-nucleus collisions.

Directed flow of charged particles at midrapidity relative to the spectator plane in Pb-Pb collisions at √(s(NN))=2.76 TeV

The directed flow of charged particles at midrapidity is measured in Pb-Pb collisions at √(s(NN))=2.76 TeV relative to the collision symmetry plane defined by the spectator nucleons. A negative slope of the rapidity-odd directed flow component with approximately 3 times smaller magnitude than found at the highest RHIC energy is observed. This suggests a smaller longitudinal tilt of the initial system and disfavors the strong fireball rotation predicted for the LHC energies. The rapidity-even directed flow component is measured for the first time with spectators and found to be independent of pseudorapidity with a sign change at transverse momenta p(T) between 1.2 and 1.7  GeV/c. Combined with the observation of a vanishing rapidity-even p(T) shift along the spectator deflection this is strong evidence for dipolelike initial density fluctuations in the overlap zone of the nuclei. Similar trends in the rapidity-even directed flow and the estimate from two-particle correlations at midrapidity, which is larger by about a factor of 40, indicate a weak correlation between fluctuating participant and spectator symmetry planes. These observations open new possibilities for investigation of the initial conditions in heavy-ion collisions with spectator nucleons.

K(S)0 and Λ production in Pb-Pb collisions at √(s(NN))=2.76 TeV

The ALICE measurement of K(S)(0) and Λ production at midrapidity in Pb-Pb collisions at √(s(NN))=2.76 TeV is presented. The transverse momentum (p(T)) spectra are shown for several collision centrality intervals and in the p(T) range from 0.4 GeV/c (0.6 GeV/c for Λ) to 12 GeV/c. The p(T) dependence of the Λ/K(S)(0) ratios exhibits maxima in the vicinity of 3 GeV/c, and the positions of the maxima shift towards higher p(T) with increasing collision centrality. The magnitude of these maxima increases by almost a factor of three between most peripheral and most central Pb-Pb collisions. This baryon excess at intermediate p(T) is not observed in pp interactions at √s=0.9 TeV and at √s=7 TeV. Qualitatively, the baryon enhancement in heavy-ion collisions is expected from radial flow. However, the measured p(T) spectra above 2 GeV/c progressively decouple from hydrodynamical-model calculations. For higher values of p(T), models that incorporate the influence of the medium on the fragmentation and hadronization processes describe qualitatively the p(T) dependence of the Λ/K(S)(0) ratio.

RP58/ZNF238 directly modulates proneurogenic gene levels and is required for neuronal differentiation and brain expansion

Although neurogenic pathways have been described in the developing neocortex, less is known about mechanisms ensuring correct neuronal differentiation thus also preventing tumor growth. We have shown that RP58 (aka zfp238 or znf238) is highly expressed in differentiating neurons, that its expression is lost or diminished in brain tumors, and that its reintroduction blocks their proliferation. Mice with loss of RP58 die at birth with neocortical defects. Using a novel conditional RP58 allele here we show that its CNS-specific loss yields a novel postnatal phenotype: microencephaly, agenesis of the corpus callosum and cerebellar hypoplasia that resembles the chr1qter deletion microcephaly syndrome in human. RP58 mutant brains maintain precursor pools but have reduced neuronal and increased glial differentiation. Well-timed downregulation of pax6, ngn2 and neuroD1 depends on RP58 mediated transcriptional repression, ngn2 and neuroD1 being direct targets. Thus, RP58 may act to favor neuronal differentiation and brain growth by coherently repressing multiple proneurogenic genes in a timely manner.

Low prevalence of human papillomavirus (HPV) in Chinese patients with breast cancer

This retrospective study investigated the presence of human papillomavirus (HPV) in Chinese women with breast cancer, and the correlation between HPV infection and carcinogenesis. Tumour and non-cancerous breast tissue samples were obtained from 62 female patients with breast cancer; normal breast tissue samples were obtained from 46 women without breast cancer. HPV DNA was detected by nested polymerase chain reaction using consensus primers; HPV subtypes were determined by reverse dot blot and pyrosequencing analyses. HPV was found in tumour tissue samples from four of the 62 patients (6.5%), while no HPV DNA was detected in either the non-cancerous samples from patients with breast cancer or from the normal breast tissue controls. Of the four HPV-positive cases, three were HPV 16 positive (75%) and one was HPV 18 positive (25%). The low frequency of HPV detected in this study suggests that this infection is not a major risk factor in breast cancer development.

Prevalence of human papillomavirus in Chinese patients with colorectal cancer

AIM

The prevalence of human papillomavirus (HPV) was determined in Chinese patients with colorectal cancer (CRC). The study also aimed to determine whether the HPV DNA peripheral blood (PB) assay can be used to diagnose HPV-related CRC.

METHOD

Tumour tissue, noncancerous colorectal tissue and whole-blood samples were obtained from 96 patients with CRC. In addition, 32 colorectal tissue samples were harvested from patients without CRC, and 48 whole-blood samples were collected from healthy blood donors. HPV DNA was detected by means of a nested polymerase chain reaction (PCR) using consensus primers, and HPV genotypes were determined by reverse Southern blot and pyrosequencing.

RESULTS

HPV DNA was detected in 32 of the 96 patients with CRC, and colorectal tissues from the 32 control patients without CRC were negative for HPV DNA (P < 0.001). Among 48 healthy donors, three had detectable levels of HPV DNA in their PB. Patients with CRC did not have significantly higher levels of HPV DNA than controls. The HPV prevalence in tumour tissues was higher than that in noncancerous colorectal tissues (P < 0.001) or that in PB samples (P < 0.001). No correlation between the presence of HPV and demographic or medical characteristics was observed. HPV 16 was the viral type most frequently detected and was found in 33 (94%) of 35 HPV-positive patients.

CONCLUSION

HPV infection may be a risk factor for CRC. However, detection of HPV DNA in PB does not appear to reflect the HPV status of CRC.

Synthesis of PbTe nanowire arrays using lithographically patterned nanowire electrodeposition

We describe the preparation by electrodeposition of arrays of lead telluride (PbTe) nanowires using the lithographically patterned nanowire electrodeposition (LPNE) method. PbTe nanowires had a rectangular cross-section with adjustable width and height ranging between 60-400 nm (w) and 20-100 nm (h). The characterization of these nanowire arrays using X-ray diffraction, transmission electron microscopy and electron diffraction, scanning electron microscopy, atomic force microscopy, and X-ray photoelectron spectroscopy (XPS) is reported. PbTe nanowires were electrodeposited using a cyclic electrodeposition-stripping technique that produced polycrystalline, stoichiometric, face-centered cubic PbTe with a mean grain diameter of 10-20 nm. These nanowires were more than 1 mm in length and two additional processing steps permitted their suspension across 25 microm air gaps microfabricated on these surfaces. The LPNE synthesis of lithographically patterned PbTe nanowires was carried out in unfiltered laboratory air. Nanowires with lengths of 70-100 microm showed an electrical resistivity comparable to bulk PbTe. XPS reveals that exposure of PbTe nanowires to air causes the formation on the nanowire surface of approximately one monolayer of a mixed lead oxide and tellurium oxide within a few minutes.