Detection and verification of glycosylation patterns of glycoproteins from clinical specimens using lectin microarrays and lectin-based immunosorbent assays

Aberrant glycosylation is a fundamental characteristic of progression of diseases such as cancer. Therefore, characterization of glycosylation patterns of proteins from disease tissues may identify changes specific to the disease development and improve diagnostic performance. Thus, analysis strategies with sufficient sensitivity for evaluation of glycosylation patterns in clinical specimens are needed. Here, we describe an analytical strategy for detection and verification of glycosylation patterns. It is based on a two-phase platform including a pattern discovery phase to identify the glycosylation changes using high-density lectin microarrays and a verification phase by developing lectin-based immunosorbent assays using the identified lectins. We evaluated the analytical performance of the platform using the glycoprotein standard and found that the lectin microarray could detect specific bindings of glycoprotein to lectins at the nanogram level and the lectin-based immunosorbent assay could be used for verification of protein glycosylation. We then applied the approach to the analysis of glycosylation patterns of two glycoproteins, which are highly expressed in prostate cancer in our prior studies, prostate specific antigen (PSA) and membrane metallo-endopeptidase (MME), from aggressive (AC) and nonaggressive prostate cancer (NAC) tissues. The observed differences in glycosylation patterns of PSA and MME may represent a significant clinical importance and could be used to develop multiplex assays for diagnosis of aggressive prostate cancer.     

An experimental study quantifying pulmonary ventilation on inhalation of aerosol under steady and episodic emission

Estimating inhalation dose accurately under realistic conditions can enhance the accuracy of risk assessment. Conventional methods to quantify aerosol concentration that susceptible victims in contaminated environments are exposed to use real time particle counters to measure concentrations in environments without occupancy.Breathing-induced airflow interacts and influences concentration around nostrils or mouth and alter the ultimate exposure. This subject has not yet been systematically studied, particularly under transient emission. In this work, an experimental facility comprising two manikins was designed and fabricated. One of them mimicked realistic breathing, acting as a susceptible victim. Both steady and episodic emissions were generated in an air-conditioned environmental chamber in which two different ventilation schemes were tested. The scaled-dose of the victim under different expiratory velocities and pulmonary ventilation was measured.Inferring from results obtained from comprehensive tests, it can be concluded that breathing has very significant influence on the ultimate dose compared with that without breathing. Majority of results show that breathing reduces inhalation quantity and the reduction magnitude increases with breathing rate. This is attributed to the fact that the exhalation process plays a more significant role in reducing the dose level than the enhanced effect during inhalation period. The higher the breathing rate, the sharper the decline of the resultant concentration would be leading to lower dose. Nevertheless, under low pulmonary ventilation, results show that breathing increases dose marginally. Results also reveals that ventilation scheme also affects the exposure.     

Clustering scientific documents with topic modeling

Topic modeling is a type of statistical model for discovering the latent “topics” that occur in a collection of documents through machine learning. Currently, latent Dirichlet allocation (LDA) is a popular and common modeling approach. In this paper, we investigate methods, including LDA and its extensions, for separating a set of scientific publications into several clusters. To evaluate the results, we generate a collection of documents that contain academic papers from several different fields and see whether papers in the same field will be clustered together. We explore potential scientometric applications of such text analysis capabilities.     

A new UVC-LED system for disinfection of pathogens generated by toilet flushing

A new disinfection system utilizing UVC-LED irradiation was developed. The system was affixed to the toilet seat, and it was challenged by three bacteria strains. Different configurations were tested: 3-LEDs, 5-LEDs (two variants), and 8-LEDs. To determine the arrangement designs of LEDs with the optimum efficacy, two variants of 5-LEDs configurations were additionally considered—uniform and concentrated (2-sided) distributions. It was noticed that disinfection efficacy initially increased with the number of LEDs, but with 8-LEDs, the trend became almost non-obvious for surface disinfection and just marginally increased for airborne disinfection. The mean efficiencies for the surface disinfection ranged from 55.17 ± 23.89% to 72.80 ± 4.13% for E. coli; 36.65 ± 2.99% to 50.05 ± 13.38% for S. typhimurium; and 8.81 ± 3.23% to 39.43 ± 9.33% for S. epidermidis. Likewise, the mean efficiencies for airborne disinfection ranged from 42.17 ± 8.18% to 70.70 ± 4.80%; 40.40 ± 17.90% to 58.31 ± 13.87%; and 24.16 ± 3.81% to 42.79 ± 10.20% for E. coli; S. typhimurium; and S. epidermidis, respectively. Furthermore, the efficacy of the uniform irradiation was nearly twice that of the concentrated irradiation for surface disinfection and 17.70% higher for airborne disinfection, when tested against E coli. Collectively, these very promising results showcased that this compact, sustainable, and localized disinfection system has a high potential for the next generation of disinfection devices.     

Characterization of Untreated and Alkaline-Treated Salago Fibers (Genus Wikstroemia Spp.)

Salago fiber (genus wikstroemia spp.) is a bast natural fiber native of the Philippines. This fiber is found all over this country and has various applications, e.g. as handmade paper, currency paper, or bank notes. In this study, untreated and 5 wt% NaOH-treated Salago fibers was characterized chemically, physically, thermally, and morphologically for the first time. It was found that the treatment increases density and improves the mechanical properties of the fiber. Fourier transform infrared spectroscopy analysis revealed stretching O–H and C–H alkane groups at 3330 cm^?1 and 2918 cm^?1 respectively and confirmed lignin reduction for the treated fiber. Thermogravimetric analysis showed that treated fibers possessed greater thermal stability. Scanning electron micrographs used to measure fiber diameters showed the rugged surfaces of untreated fibers and the glossier but more distorted surfaces of the treated ones.     

Cognitive and personality factors in suicidal behavior.

Studied the role of aggression in suicidal behavior. The personality functioning of 20 suicide attempters, 20 nonsuicidal psychiatric controls, and 20 suicide completers was assessed using the Rorschach. There were 11 female and 9 male 21–63 yr old Ss in each group. M. Feffer's role-taking task (see record 1960-04380-001) provided a test of the cognitive functioning of the 1st 2 groups. All 3 groups experienced the breakthrough of more aggressive than libidinal drive derivatives, but no significant differences between the groups were found. Only the suicide attempters' aggressive responses were more primitive than their libidinal responses. On the role-taking task, the suicidal group's cognitive functioning in the neutral situation was superior to their functioning in the aggressive one. The control group yielded no such difference. The suicidal group's performance in the aggressive situation was also significantly inferior to the control group. Results are interpreted as underscoring the role of cognition in symptom choice. (15 ref) (PsycINFO Database Record (c) 2010 APA, all rights reserved)     

Keyword guessing attacks on secure searchable public key encryption schemes with a designated tester

The first searchable public key encryption scheme with designated testers (dPEKS) known to be secure against keyword guessing attacks was due to Rhee et al. [H.S. Rhee, W. Susilo, and H.J. Kim, Secure searchable public key encryption scheme against keyword guessing attacks, IEICE Electron. Express 6(5) (2009), pp. 237–243]. Recently, some dPEKS schemes, including the Rhee et al. scheme, were found to be vulnerable to keyword guessing attacks by a malicious server. However, the Rhee et al. dPEKS scheme and its improved variants are still known to be secure against keyword guessing attack by the outsider attacker to date. In this paper, we present a keyword guessing attack by the outsider attacker on the existing dPEKS schemes. We first describe the attack scenario which is possible in the current nature of the Internet and public key encryption with keyword search applications, e.g. email routing. We then demonstrate the detailed attack steps on the Rhee et al. scheme as an attack instance. We emphasize that our attack is generic and it equally applies to all existing dPEKS schemes that claim to be secure against keyword guessing attacks by the outsider attacker.     

Residue-specific mass signatures for the efficient detection of protein modifications by mass spectrometry

Currently available mass spectrometric (MS) techniques lack specificity in identifying protein modifications because molecular mass is the only parameter used to characterize these changes. Consequently, the suspected modified peptides are subjected to tandem MS/MS sequencing that may demand more time and sample. We report the use of stable isotope-enriched amino acids as residue-specific "mass signatures" for the rapid and sensitive detection of protein modifications directly from the peptide mass map (PMM) without enrichment of the modified peptides. These mass signatures are easily recognized through their characteristic spectral patterns and provide fingerprints for peptides containing the same content of specific amino acid residue(s) in a PMM. Without the need for tandem MS/MS sequencing, a peptide and its modified form(s) can readily be identified through their identical fingerprints, regardless of the nature of modifications. In this report, we demonstrate this strategy for the detection of methionine oxidation and protein phosphorylation. More interestingly, the phosphorylation of a histone protein, H2A.X, obtained from human skin fibroblast cells, was effectively identified in response to low-dose radiation. In general, this strategy of residue-specific mass tagging should be applicable to other posttranslational modifications.