Community dynamics generates complex epidemiology through self-induced amplification and suppression

The development of quantitative models of outbreaks is key to their eventual control, from human and computer viruses through to social (and antisocial) activities. Standard epidemiological models can reproduce many general features of outbreaks. Unfortunately, the large temporal fluctuations which often dominate real-world data are thought to require more complicated, system-specific models involving super-spreaders, specific social network topologies and rewirings, and birth-death processes. However we show here that these large fluctuations have a generic explanation in terms of underlying community dynamics. Communities increasing (or decreasing) in size, act as instantaneous amplifiers (or suppressors) yielding a complex temporal evolution whose features vary dramatically according to the relative timescales of the community dynamics. We uncover, and provide an analytic theory for, a novel epidemiological phase transition driven by the population's response to an outbreak. An imminent epidemic will be suppressed if individual communities start to break up more frequently or join together less frequently, but will be amplified if the reverse is true

Phenol Adsorption on Nitrogen-Enriched Activated Carbon from Wood Fiberboard Waste

Nitrogen-enriched activated carbons were prepared from wood fiberboard waste using 50% potassium hydroxide solution. Activated carbons were obtained with an impregnation ratio (gram chemical agent/gram wood fiberboard waste) of 3 in 850°C activation temperature carbonized for 60 min. Nitrogen content in activated carbon was 1.33% by analysis. Effects of contact time, pH, adsorbent dosage level, and temperature on phenol adsorption capacity of activated carbons were investigated. Adsorption equilibrium was achieved within 100 min at the given phenol concentration of 250 mg/L. When 0.1 g of the carbon absorbent and 100 mL of phenol solution at 250 mg/L were used, maximum adsorption capacity of phenol on activated carbon can reach 207 mg/g. The kinetics of phenol adsorption followed nicely the pseudo-second-order rate expression. In the adsorption isotherm, the Langmuir model fit better than the Freundlich model in phenol adsorption. This study suggests that nitrogen-enriched activated carbon prepared from wood fiberboard waste can be used effectively for removal of phenol compounds from aqueous solutions

Computational Prediction of Human Salivary Proteins from Blood Circulation and Application to Diagnostic Biomarker Identification

Proteins can move from blood circulation into salivary glands through active transportation, passive diffusion or ultrafiltration, some of which are then released into saliva and hence can potentially serve as biomarkers for diseases if accurately identified. We present a novel computational method for predicting salivary proteins that come from circulation. The basis for the prediction is a set of physiochemical and sequence features we found to be discerning between human proteins known to be movable from circulation to saliva and proteins deemed to be not in saliva. A classifier was trained based on these features using a support-vector machine to predict protein secretion into saliva. The classifier achieved 88.56% average recall and 90.76% average precision in 10-fold cross-validation on the training data, indicating that the selected features are informative. Considering the possibility that our negative training data may not be highly reliable (i.e., proteins predicted to be not in saliva), we have also trained a ranking method, aiming to rank the known salivary proteins from circulation as the highest among the proteins in the general background, based on the same features. This prediction capability can be used to predict potential biomarker proteins for specific human diseases when coupled with the information of differentially expressed proteins in diseased versus healthy control tissues and a prediction capability for blood-secretory proteins. Using such integrated information, we predicted 31 candidate biomarker proteins in saliva for breast cancer

Qualitative and quantitative analysis of catechin and quercetin in flavonoids extracted from Rosa roxburghii Tratt

Purpose: To perform a qualitative and quantitative analysis of catechin and quercetin in flavonoids extracted from Rosa roxburghii Tratt.Methods: Total flavonoids were determined using ultraviolet spectrophotometry (UV) at 500 nm. The optimal gradient program started with 15 % methanol and was kept within a period of 0 – 20 min, while 25 % methanol was kept within 20 – 33 min. Subsequently, the concentration of methanol was reduced to 15 % and was held for 10 min until the next injection. Mass spectrometry spray voltage was 4,000 V, ionization temperature 350 °C, atomizer pressure 35 psi, nitrogen flow rate 8 L/min, and mass scan range 200 – 800 m/z. The detection wavelength used for catechin and quercetin was 270 and 368 nm, respectively.Results: Based on the UV results, Rosa roxburghii Tratt content was 73.85 %, which is in agreement with the national standard. Liquid chromatography-mass spectrometry (LC-MS) results indicate that Rosa roxburghii Tratt flavonoids contained quercetin, 34.26 %, with relative standard deviation (RSD) of 2.88 % and catechin content of 2.97 % with RSD of 1.49 %.Conclusion: The proposed measurement method for determining the content of flavonoids in Rosa roxburghii Tratt has the advantage of simplicity, feasibility, good repeatability, and rapid and accurate analysis.Keywords: Rosa roxburghii Tratt, Flavonoids, Catechin, Querceti

Lusin-type approximation of Sobolev by Lipschitz functions, in Gaussian and RCD(K,∞)RCD(K,\infty) spaces

We establish new approximation results, in the sense of Lusin, of Sobolev functions by Lipschitz ones, in some classes of non-doubling metric measure structures. Our proof technique relies upon estimates for heat semigroups and applies to Gaussian and $RCD(K, \infty)$ spaces. As a consequence, we obtain quantitative stability for regular Lagrangian flows in Gaussian settings

Statistical Origin of Constituent-Quark Scaling in the QGP hadronization

Nonextensive statistics in a Blast-Wave model (TBW) is implemented to describe the identified hadron production in relativistic p+p and nucleus-nucleus collisions. Incorporating the core and corona components within the TBW formalism allows us to describe simultaneously some of the major observations in hadronic observables at the Relativistic Heavy-Ion Collider (RHIC): the Number of Constituent Quark Scaling (NCQ), the large radial and elliptic flow, the effect of gluon saturation and the suppression of hadron production at high transverse momentum (pT) due to jet quenching. In this formalism, the NCQ scaling at RHIC appears as a consequence of non-equilibrium process. Our study also provides concise reference distributions with a least chi2 fit of the available experimental data for future experiments and models.Comment: 4 pages, 3 figures; added two tables, explained a little bit more on TBW_p

An integrative approach to characterize disease-specific pathways and their coordination: a case study in cancer

BACKGROUND: The most common application of microarray technology in disease research is to identify genes differentially expressed in disease versus normal tissues. However, it is known that, in complex diseases, phenotypes are determined not only by genes, but also by the underlying structure of genetic networks. Often, it is the interaction of many genes that causes phenotypic variations. RESULTS: In this work, using cancer as an example, we develop graph-based methods to integrate multiple microarray datasets to discover disease-related co-expression network modules. We propose an unsupervised method that take into account both co-expression dynamics and network topological information to simultaneously infer network modules and phenotype conditions in which they are activated or de-activated. Using our method, we have discovered network modules specific to cancer or subtypes of cancers. Many of these modules are consistent with or supported by their functional annotations or their previously known involvement in cancer. In particular, we identified a module that is predominately activated in breast cancer and is involved in tumor suppression. While individual components of this module have been suggested to be associated with tumor suppression, their coordinated function has never been elucidated. Here by adopting a network perspective, we have identified their interrelationships and, particularly, a hub gene PDGFRL that may play an important role in this tumor suppressor network. CONCLUSION: Using a network-based approach, our method provides new insights into the complex cellular mechanisms that characterize cancer and cancer subtypes. By incorporating co-expression dynamics information, our approach can not only extract more functionally homogeneous modules than those based solely on network topology, but also reveal pathway coordination beyond co-expression

Modified Technique of Pancreaticogastrostomy for Soft Pancreas with Two Continuous Hemstitch Sutures: A Single-Center Prospective Study

Postoperative pancreatic fistula (POPF) remains a persistent problem after pancreaticoduodenectomy (PD), especially in the presence of a soft, nonfibrotic pancreas. To reduce the risk of POPF, pancreaticogastrostomy (PG) is an optional reconstruction technique for surgeons after PD. This study presents a new technique of PG for a soft, nonfibrotic pancreas with double-binding continuous hemstitch sutures and evaluates its safety and reliability. From January 2011 to June 2012, 92 cases of patients with periampullary malignancy with a soft pancreas underwent this technique. A modified technique of PG was performed with two continuous hemstitch sutures placed in the mucosal and seromuscular layers of the posterior gastric wall, respectively. Then the morbidity and mortality was calculated. This technique was applied in 92 patients after PD all with soft pancreas. The median time for the anastomosis was 12 min (range, 8–24). Operative mortality was zero, and morbidity was 16.3 % (n = 15), including hemorrhage (n = 2), biliary fistula (n = 2), pulmonary infection (n = 1), delayed gastric emptying (DGE; n = 5, 5.4 %), abdominal abscess (n = 3, one caused by PF), and POPF (n = 2, 2.2 %). Two patients developed a pancreatic fistula (one type A and one type B) classified according to the International Study Group on Pancreatic Fistula. The described technique is a simple and safe reconstruction procedure after PD, especially for patients with a soft and fragile pancreas. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s11605-013-2183-8) contains supplementary material, which is available to authorized users

TransmiR: a transcription factor–microRNA regulation database

MicroRNAs (miRNAs) regulate gene expression at the posttranscriptional level and are therefore important cellular components. As is true for protein-coding genes, the transcription of miRNAs is regulated by transcription factors (TFs), an important class of gene regulators that act at the transcriptional level. The correct regulation of miRNAs by TFs is critical, and increasing evidence indicates that aberrant regulation of miRNAs by TFs can cause phenotypic variations and diseases. Therefore, a TF–miRNA regulation database would be helpful for understanding the mechanisms by which TFs regulate miRNAs and understanding their contribution to diseases. In this study, we manually surveyed approximately 5000 reports in the literature and identified 243 TF–miRNA regulatory relationships, which were supported experimentally from 86 publications. We used these data to build a TF–miRNA regulatory database (TransmiR, http://cmbi.bjmu.edu.cn/transmir), which contains 82 TFs and 100 miRNAs with 243 regulatory pairs between TFs and miRNAs. In addition, we included references to the published literature (PubMed ID) information about the organism in which the relationship was found, whether the TFs and miRNAs are involved with tumors, miRNA function annotation and miRNA-associated disease annotation. TransmiR provides a user-friendly interface by which interested parties can easily retrieve TF–miRNA regulatory pairs by searching for either a miRNA or a TF