Evaluation of the Dietary Effect of Hallabong Peel Oil on Growth, Hematological, and Immune Gene Expression in Rock Bream, Oplegnathus fasciatus Challenged with Edwardsiella tarda

In the present study we evaluated the dietary effect of Hallabong peel oil (HPO) on growth, disease resistance, and immune gene expression of rock bream, Oplegnathus fasciatus challenged with Edwardsiella tarda after a 4 week feeding trial with 5 treatments: control-C, probiotic–P, HPO (0.1%), HPO (0.5%), and P+HPO, diets. All fish groups were assessed for growth performance, innate immune parameters, serum biochemical profile, and immune gene expression in head kidney on 2nd, and 4th week, and 1st, 3rd and 7th day post infection with Edwardsiella tarda. Fish fed the HPO enriched diets showed increased growth performance with significantly decreased (P>0.05) mortality compared with the control and probiotic diet groups. The positive effects of HPO enriched diet were also found in all assessed innate immune and biochemical parameters which included increased respiratory burst and lysozyme activity, with significantly increased erythrocyte and leukocytes counts, increased serum protein, decreased glucose, triglycerides, cholesterol level in serum compared with control diet fed fish. Moreover, the probiotic bacterial count in the intestine of fish was enhanced with the HPO diet and the P+HPO diet compared to fish fed the probiotic diet. The head kidney of HPO enriched diet fed fish showed up-regulated expression of inflammatory cytokines genes such as TNFα, IL-1β, and FST, after 4th week of feeding trial which was increased ~2 to 3 times on 1dpi and 3 dpi. These results indicate that limonene rich (91.26%), HPO enriched diets enhance growth and immunity and enhance disease resistance of Oplegnathus fasciatus challenged against E. tarda

Remarks on the Formulation of Quantum Mechanics on Noncommutative Phase Spaces

We consider the probabilistic description of nonrelativistic, spinless one-particle classical mechanics, and immerse the particle in a deformed noncommutative phase space in which position coordinates do not commute among themselves and also with canonically conjugate momenta. With a postulated normalized distribution function in the quantum domain, the square of the Dirac delta density distribution in the classical case is properly realised in noncommutative phase space and it serves as the quantum condition. With only these inputs, we pull out the entire formalisms of noncommutative quantum mechanics in phase space and in Hilbert space, and elegantly establish the link between classical and quantum formalisms and between Hilbert space and phase space formalisms of noncommutative quantum mechanics. Also, we show that the distribution function in this case possesses 'twisted' Galilean symmetry.Comment: 25 pages, JHEP3 style; minor changes; Published in JHE

A Weakly-Robust PTAS for Minimum Clique Partition in Unit Disk Graphs

We consider the problem of partitioning the set of vertices of a given unit disk graph (UDG) into a minimum number of cliques. The problem is NP-hard and various constant factor approximations are known, with the current best ratio of 3. Our main result is a {\em weakly robust} polynomial time approximation scheme (PTAS) for UDGs expressed with edge-lengths, it either (i) computes a clique partition or (ii) gives a certificate that the graph is not a UDG; for the case (i) that it computes a clique partition, we show that it is guaranteed to be within (1+\eps) ratio of the optimum if the input is UDG; however if the input is not a UDG it either computes a clique partition as in case (i) with no guarantee on the quality of the clique partition or detects that it is not a UDG. Noting that recognition of UDG's is NP-hard even if we are given edge lengths, our PTAS is a weakly-robust algorithm. Our algorithm can be transformed into an O(\frac{\log^* n}{\eps^{O(1)}}) time distributed PTAS. We consider a weighted version of the clique partition problem on vertex weighted UDGs that generalizes the problem. We note some key distinctions with the unweighted version, where ideas useful in obtaining a PTAS breakdown. Yet, surprisingly, it admits a (2+\eps)-approximation algorithm for the weighted case where the graph is expressed, say, as an adjacency matrix. This improves on the best known 8-approximation for the {\em unweighted} case for UDGs expressed in standard form.Comment: 21 pages, 9 figure

SERS-based detection of haptoglobin in ovarian cyst fluid as a point-of-care diagnostic assay for epithelial ovarian cancer

Purpose: To evaluate haptoglobin (Hp) in ovarian cyst fluid as a diagnostic biomarker for epithelial ovarian cancers (EOCs) using surface-enhanced Raman spectroscopy (SERS)-based in vitro diagnostic assay for use in an intraoperative setting. Methods: SERS-based method was used to detect and quantify Hp in archived ovarian cyst fluids collected from suspicious ovarian cysts and differentiate benign tumors from EOCs. The diagnostic performance of SERS-based assay was verified against the histopathology conclusions and compared with the results of CA125 test and frozen sections. Results: Hp concentration present in the clinical cyst fluid measured by SERS was normalized to 3.3 mg/mL of standard Hp. Normalized mean values for patients with benign cysts were 0.65 (n=57) and malignant cysts were 1.85 (n=54), demonstrating a significantly (P<0.01) higher Hp in malignant samples. Verified against histology, Hp measurements using SERS had a sensitivity of 94% and specificity of 91%. Receiver operating characteristic curve analysis of SERS-based Hp measurements resulted in area under the curve of 0.966±0.03, establishing the robustness of the method. CA125 test on the same set of patients had a sensitivity of 85% and specificity of 90%, while frozen section analysis on 65 samples had 100% sensitivity and specificity. Conclusion: With a total execution time of <10 minutes and consistent performance across different stages of cancer, the SERS-based Hp detection assay can serve as a promising intraoperative EOC diagnostic test.National Medical Research Council (NMRC), Singapore; Bio-Medical Research Council of Agency for Science, Technology and Research (A*STAR), and the NHIC Innovation to Develop (I2D

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

For a decade, The Cancer Genome Atlas (TCGA) program collected clinicopathologic annotation data along with multi-platform molecular profiles of more than 11,000 human tumors across 33 different cancer types. TCGA clinical data contain key features representing the democratized nature of the data collection process. To ensure proper use of this large clinical dataset associated with genomic features, we developed a standardized dataset named the TCGA Pan-Cancer Clinical Data Resource (TCGA-CDR), which includes four major clinical outcome endpoints. In addition to detailing major challenges and statistical limitations encountered during the effort of integrating the acquired clinical data, we present a summary that includes endpoint usage recommendations for each cancer type. These TCGA-CDR findings appear to be consistent with cancer genomics studies independent of the TCGA effort and provide opportunities for investigating cancer biology using clinical correlates at an unprecedented scale. Analysis of clinicopathologic annotations for over 11,000 cancer patients in the TCGA program leads to the generation of TCGA Clinical Data Resource, which provides recommendations of clinical outcome endpoint usage for 33 cancer types

Protein Tpr is required for establishing nuclear pore-associated zones of heterochromatin exclusion

Amassments of heterochromatin in somatic cells occur in close contact with the nuclear envelope (NE) but are gapped by channel- and cone-like zones that appear largely free of heterochromatin and associated with the nuclear pore complexes (NPCs). To identify proteins involved in forming such heterochromatin exclusion zones (HEZs), we used a cell culture model in which chromatin condensation induced by poliovirus (PV) infection revealed HEZs resembling those in normal tissue cells. HEZ occurrence depended on the NPC-associated protein Tpr and its large coiled coil-forming domain. RNAi-mediated loss of Tpr allowed condensing chromatin to occur all along the NE's nuclear surface, resulting in HEZs no longer being established and NPCs covered by heterochromatin. These results assign a central function to Tpr as a determinant of perinuclear organization, with a direct role in forming a morphologically distinct nuclear sub-compartment and delimiting heterochromatin distribution

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin