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https://www.readbyqxmd.com/read/29790911/panda-view-an-easy-to-use-tool-for-statistical-analysis-and-visualization-of-quantitative-proteomics-data
#1
Cheng Chang, Kaikun Xu, Chaoping Guo, Jinxia Wang, Qi Yan, Jian Zhang, Fuchu He, Yunping Zhu
Summary: Compared with the numerous software tools developed for identification and quantification of -omics data, there remains a lack of suitable tools for both downstream analysis and data visualization. To help researchers better understand the biological meanings in their -omics data, we present an easy-to-use tool, named PANDA-view, for both statistical analysis and visualization of quantitative proteomics data and other -omics data. PANDA-view contains various kinds of analysis methods such as normalization, missing value imputation, statistical tests, clustering and principal component analysis, as well as the most commonly-used data visualization methods including an interactive volcano plot...
May 22, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29788895/synthesis-of-nucleosides-and-non-nucleosides-based-4-6-disubstituted-2-oxo-dihydropyridine-3-carbonitriles-as-antiviral-agents
#2
Tarek S Ibrahim, Hassan A El-Sayed, Maan T Khayat, Amany M M Al-Mahmoudy, Ahmed H Moustafa, Ayat K Saad El-Deen, Sherif A F Rostom, Siva S Panda
BACKGROUND: Viral diseases are considered main threats that face the humanity worldwide. The emergence of new viruses like influenza viruses emphasizes the significance of designing novel antiviral drugs. METHOD: The aim of this work is to synthesize a new set of nucleoside and non-nucleoside cyanopyridine, characterized and evaluated for their in vitro antiviral properties against various strains. CONCLUSION: More than compounds showed variable antiviral potential against a panel of eighteen DNA and RNA viruses...
May 22, 2018: Medicinal Chemistry
https://www.readbyqxmd.com/read/29785183/evaluation-of-reirradiation-in-locally-advanced-head-and-neck-cancers-toxicity-and-early-clinical-outcomes
#3
Amit Bahl, Arun Singh Oinam, Arun Elangovan, Satinder Kaur, Gaurav Trivedi, Roshan Verma, Sudhir Bhandari, Sushmita Ghoshal, Naresh Kumar Panda
Objectives: Locoregional recurrence is the predominant pattern of treatment failure in advanced head and neck cancers. Reirradiation is a useful modality to treat inoperable head and neck cancer patients with recurrent disease. The aim of the present study was to analyze the treatment toxicity and early clinical outcomes in patients undergoing reirradiation. Methods: Twenty patients of head and neck cancers with recurrences or second cancers were evaluated. Reirradiation was done using simultaneous integrated boost volumetric modulated arc therapy (SIB VMAT), intensity modulated radiotherapy (IMRT), or conventional radiotherapy using 6MV photons...
2018: Journal of Oncology
https://www.readbyqxmd.com/read/29784829/short-chain-dehydrogenase-reductase-governs-steroidal-specialized-metabolites-structural-diversity-and-toxicity-in-the-genus-solanum
#4
Prashant D Sonawane, Uwe Heinig, Sayantan Panda, Netta Segal Gilboa, Meital Yona, S Pradeep Kumar, Noam Alkan, Tamar Unger, Samuel Bocobza, Margarita Pliner, Sergey Malitsky, Maria Tkachev, Sagit Meir, Ilana Rogachev, Asaph Aharoni
Thousands of specialized, steroidal metabolites are found in a wide spectrum of plants. These include the steroidal glycoalkaloids (SGAs), produced primarily by most species of the genus Solanum , and metabolites belonging to the steroidal saponins class that are widespread throughout the plant kingdom. SGAs play a protective role in plants and have potent activity in mammals, including antinutritional effects in humans. The presence or absence of the double bond at the C-5,6 position (unsaturated and saturated, respectively) creates vast structural diversity within this metabolite class and determines the degree of SGA toxicity...
May 21, 2018: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29783938/biochemical-and-molecular-characterisation-of-exogenous-cytokinin-application-on-grain-filling-in-rice
#5
Binay Bhushan Panda, Sudhanshu Sekhar, Sushant Kumar Dash, Lamboder Behera, Birendra Prasad Shaw
BACKGROUND: Poor filling of grains in the basal spikelets of large size panicles bearing numerous spikelets has been a major limitation in attempts to increase the rice production to feed the world's increasing population. Considering that biotechnological intervention could play important role in overcoming this limitation, the role of cytokinin in grain filling was investigated based on the information on cell proliferating potential of the hormone and reports of its high accumulation in immature seeds...
May 21, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/29781134/response-letter-perplexing-role-of-galectin-9-in-lupus-experimental-models-comment-on-article-by-zeggar-et-al
#6
Jun Wada, Sonia Zeggar
We greatly appreciate Drs. Aditya K Panda and Bidyut K Das for their interests to our work reporting the beneficial effects of the deficiency of Lgals9 in pristine-induced lupus model of BALB/c mice(1). They have focused on the discrepancy of results between ours and recently published publication, repoting the protective effects of the administration of recombinant galectin-9 into BXSB/MpJ and NZB/W F1 mice(2). Since we identified galectin-9 and have been demonstrating the therapeutic efficacy of recombinant galectin-9 in nephrotoxic serum nephritis in Wistar Kyoto rats, diabetic nephropathy in db/db mice, and type 1 diabetes in NOD mice, we initially hypothesized that the deficiency of Lgals9 might cause the exacerbation of lupus or lupus nephritis in pristine-induced lupus model in BALB/c mice and MRL/Mpj-Faslpr /J mice...
May 21, 2018: Arthritis & Rheumatology
https://www.readbyqxmd.com/read/29780744/employing-dimensional-disparity-of-teeth-to-establish-the-gender-in-odisha-population-a-dimorphic-study
#7
Kailash Chandra Dash, Abikshyeet Panda, Shyam Sundar Behura, Sujatha Ramachandra, Lipsa Bhuyan, Alokenath Bandopadhyay
Aims and Objectives: Determination of sex is one of the most important and crucial steps in forensic science. Sexual dimorphism using odontometric analysis is found to vary in different populations making it necessary to attain values of a specific population which helps the identification possible. This present study attempts to establish sexual dimorphism using odontometric analysis in Odisha population. Materials and Methods: A total of 200 subjects (100 male and 100 female) between ages 18 and 25 years were included in the study...
March 2018: Journal of International Society of Preventive & Community Dentistry
https://www.readbyqxmd.com/read/29779955/linking-genomic-and-metabolomic-natural-variation-uncovers-nematode-pheromone-biosynthesis
#8
Jan M Falcke, Neelanjan Bose, Alexander B Artyukhin, Christian Rödelsperger, Gabriel V Markov, Joshua J Yim, Dominik Grimm, Marc H Claassen, Oishika Panda, Joshua A Baccile, Ying K Zhang, Henry H Le, Dino Jolic, Frank C Schroeder, Ralf J Sommer
In the nematodes Caenorhabditis elegans and Pristionchus pacificus, a modular library of small molecules control behavior, lifespan, and development. However, little is known about the final steps of their biosynthesis, in which diverse building blocks from primary metabolism are attached to glycosides of the dideoxysugar ascarylose, the ascarosides. We combine metabolomic analysis of natural isolates of P. pacificus with genome-wide association mapping to identify a putative carboxylesterase, Ppa-uar-1, that is required for attachment of a pyrimidine-derived moiety in the biosynthesis of ubas#1, a major dauer pheromone component...
May 14, 2018: Cell Chemical Biology
https://www.readbyqxmd.com/read/29778081/molecular-aspect-of-silver-nanoparticles-regulated-embryonic-development-in-zebrafish-danio-rerio-by-oct-4-expression
#9
Biplab Sarkar, Suresh K Verma, Javed Akhtar, Surya Prakash Netam, Sanjay Kr Gupta, Pritam Kumar Panda, Koel Mukherjee
With the enhancement of commercial manifestation of silver nanoparticles, concerned has risen on their accumulation in aquatic system and consequent effects on fish development and metabolism. In this study, experiments were conducted to assess the impacts of silver nanoparticles on early life cycles of fish considering Zebrafish (Danio rerio) as experimental model. Silver nanoparticles were synthesized through chemical reduction method and characterized through UV-visible spectroscopy, dynamic light scattering (DLS), and HR-TEM...
May 4, 2018: Chemosphere
https://www.readbyqxmd.com/read/29778036/polymeric-nanoparticles-as-a-platform-for-permeability-enhancement-of-class-iii-drug-amikacin
#10
Saman Fatima, Zeenat Iqbal, A K Panda, M Samim, Sushama Talegaonkar, Farhan Jalees Ahmad
Amikacin (A), a water soluble aminoglycoside antibiotic is commercially available for intravenous administration only. Present investigation is aimed at the development of poly-lactic-co-glycolic acid (PLGA) nanoparticles (A-NPs).1 for oral permeability enhancement of amikacin. The pharmaceutical attributes of the A-NPs revealed particle size, 260.3 ± 2.05 nm, zeta potential, -12.9 ± 1.12 mV and drug content, 40.10 ± 1.87 μg/mg with spherical shape and smooth surface. In vitro antibacterial studies showed that the A-NPs were active against P...
May 16, 2018: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/29777858/cd44-targeted-plga-nanomedicines-for-cancer-chemotherapy
#11
REVIEW
Ankit Saneja, Divya Arora, Robin Kumar, Ravindra Dhar Dubey, Amulya K Panda, Prem N Gupta
In recent years scientific community has drawn a great deal of attention towards understanding the enigma of cluster of differentiation-44 (CD44) in order to deliver therapeutic agents more selectively towards tumor tissues. Moreover, its over-expression in variety of solid tumors has attracted drug delivery researchers to target this receptor with nanomedicines. Conventional nanomedicines based on biodegradable polymers such as poly(lactide-co-glycolide) (PLGA) are often associated with insufficient cellular uptake by cancer cells, due to lack of active targeting moiety on their surface...
May 16, 2018: European Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/29776696/single-layer-centrifugation-improves-the-quality-of-frozen-thawed-sperm-of-giant-panda-ailuropoda-melanoleuca
#12
Z G Cai, J H An, Y L Liu, S M Yie, Y Zhang, F P Li, J S Chen, X Wang, J M Morrell, R Hou
The reproductive capacity of captive giant pandas is poor and sperm cryopreservation is necessary for the reproduction and conservation of this species. Cryopreservation, however, leads to a significant decrease in sperm quality, including sperm motility, acrosome integrity and DNA integrity. In the present study, a method was developed based on colloid single layer centrifugation that could significantly improve frozen-thawed sperm quality. Two colloids were compared for post-thaw giant panda sperm preparation; the sperm samples had greater total motility (Colloid 1: 44...
May 15, 2018: Animal Reproduction Science
https://www.readbyqxmd.com/read/29769339/differential-responses-by-human-respiratory-epithelial-cell-lines-to-respiratory-syncytial-virus-reflect-distinct-patterns-of-infection-control
#13
Philippa Hillyer, Rachel Shepard, Megan Uehling, Mina Krenz, Faruk Sheikh, Kalyn R Thayer, Lei Huang, Lihan Yan, Debasis Panda, Cindy Luongo, Ursula J Buchholz, Peter L Collins, Raymond P Donnelly, Ronald L Rabin
RSV infects small foci of respiratory epithelial cells via infected droplets. Infection induces expression of types I and III interferons (IFNs) and pro-inflammatory cytokines, the balance of which may restrict viral replication and affect disease severity. We explored this balance by infecting two respiratory epithelial cell lines with low doses of recombinant RSV expressing green fluorescent protein (rgRSV). A549 cells were highly permissive whereas BEAS-2B cells restricted infection to individual cells or small foci...
May 16, 2018: Journal of Virology
https://www.readbyqxmd.com/read/29768737/providence-of-cd25-kir-cd127-foxp3-cd8-t-cell-subset-determines-the-dynamics-of-tumor-immune-surveillance
#14
Sreeparna Chakraborty, Pushpak Bhattacharjee, Abir K Panda, Kirti Kajal, Sayantan Bose, Gaurisankar Sa
CD8+ T-regulatory cells are progressively emerging as crucial components of immune system. The previous report suggests the presence of FOXP3-positive CD8+ Treg cells, similar to CD4+ Tregs, in cancer patients which produce high levels of IL10 and TGFβ for its immunosuppressive activities. At an early stage of tumor development, we have identified a subset of FOXP3-negative CD8+ CD25+ KIR+ CD127- a Treg-like subset which is essentially IFNγ-positive. However, this early induced CD8+ CD25+ CD127- T cell subset certainly distinct from the IFNγ+ CD8+ T-effecter cells...
May 16, 2018: Immunology and Cell Biology
https://www.readbyqxmd.com/read/29767094/effect-of-dietary-incorporation-of-n-3-polyunsaturated-fatty-acids-rich-oil-sources-on-fatty-acid-profile-keeping-quality-and-sensory-attributes-of-broiler-chicken-meat
#15
Sridhar Kalakuntla, Nalini K Nagireddy, Arun K Panda, Narasimha Jatoth, Raghunandan Thirunahari, Ravinder R Vangoor
The present study was undertaken to investigate the effect of dietary replacement of commonly used vegetable oil (sunflower oil, SFO) with n-3 polyunsaturated fatty acids (PUFA) rich oil sources on broiler chicken performance, carcass yield, meat fatty acid composition, keeping quality and sensory attributes of meat. In the current experiment, 300 day-old Krishibro broiler chicks were randomly distributed to 5 dietary groups (50 replicates with 6 chicks in each) prepared by replacing SFO (2% and 3% of diet during starter and finisher periods, respectively) with n-3 PUFA rich soybean oil (SO), mustard oil (MO), linseed oil (LO) or fish oil (FO) on weight basis...
December 2017: Animal nutrition
https://www.readbyqxmd.com/read/29766929/sleep-disorders-in-amyotrophic-lateral-sclerosis-a-questionnaire-based-study-from-india
#16
Samhita Panda, Mandaville Gourie-Devi, Ankkita Sharma
Background: Amyotrophic lateral sclerosis (ALS) is a relatively rare neurological disorder affecting upper and lower motor neurons in the brain and spinal cord with survival for 3-5 years and rarely beyond 10 years. Sleep disturbances in ALS are underreported and undertreated and there is no related data from India. This study aimed to assess the frequency of sleep disorders in patients of ALS and their determinants. Methods: Patients with definite and probable ALS as per the El Escorial criteria were recruited from May 2014 to April 2016...
May 2018: Neurology India
https://www.readbyqxmd.com/read/29760216/-plasmodium-falciparum-msp3-exists-in-a-complex-on-the-merozoite-surface-and-generates-antibody-response-during-natural-infection
#17
Arunaditya Deshmukh, Bishwanath Kumar Chourasia, Sonali Mehrotra, Ikhlaq Hussain Kana, Gourab Paul, Ashutosh Panda, Inderjeet Kaur, Susheel Kumar Singh, Sumit Rathore, Aparup Das, Priya Gupta, Kalamuddin Md, S K Ghakar, Asif Mohmmed, Michael Theisen, Pawan Malhotra
Plasmodium falciparum merozoite surface protein 3 (MSP3) is an abundantly expressed secreted merozoite surface protein and a leading malaria vaccine candidate antigen. However, it is unclear how MSP3 is retained on the surface of merozoites without a GPI anchor or a transmembrane domain. In the present study, we identified an MSP3 associated network on the Plasmodium merozoite surface by Immunoprecipitation of Plasmodium merozoite lysate using anti-MSP3N antibodies followed by mass spectrometry analysis. The results suggested the association of MSP3 with other merozoite surface proteins; MSP1, MSP6, MSP7, RAP2 and SERA5...
May 14, 2018: Infection and Immunity
https://www.readbyqxmd.com/read/29755548/ameliorative-effect-of-beraprost-sodium-on-celecoxib-induced-cardiotoxicity-in-rats
#18
Shafique Ahmad, Bibhu Prasad Panda, Mohammad Fahim, Neha Dhyani, Kiran Dubey
Selective COX-2 inhibitors are most widely used analgesic and anti-inflammatory drugs; however, its maximal use is highly associated with various serious abnormal cardiovascular events. Beraprost sodium (BPS), prostacyclin analogue has been shown to vasodilatory, antiplatelates, anti-inflmmatory, and antioxidant activity. The objective of the present study was to evaluate the effect of BPS on celecoxib cardiotoxicity in rats. Toxicity was induced in male Albino rats (250-280 g) by celecoxib (100 mg/kg/day)...
2018: Iranian Journal of Pharmaceutical Research: IJPR
https://www.readbyqxmd.com/read/29751488/should-the-endangered-status-of-the-giant-panda-really-be-reduced-the-case-of-giant-panda-conservation-in-sichuan-china
#19
Ben Ma, Shuo Lei, Qin Qing, Yali Wen
The International Union for Conservation of Nature (IUCN) reduced the threat status of the giant panda from “endangered” to “vulnerable” in September 2016. In this study, we analyzed current practices for giant panda conservation at regional and local environmental scales, based on recent reports of giant panda protection efforts in Sichuan Province, China, combined with the survey results from 927 households within and adjacent to the giant panda reserves in this area...
May 3, 2018: Animals: An Open Access Journal From MDPI
https://www.readbyqxmd.com/read/29749378/frequency-and-associated-factors-of-bone-fractures-in-russians-the-ural-eye-and-medical-study
#20
Mukharram M Bikbov, Rinat R Fayzrakhmanov, Gyulli M Kazakbaeva, Rinat M Zainullin, Venera F Salavatova, Timur R Gilmanshin, Inga I Arslangareeva, Nikolai A Nikitin, Songhomitra Panda-Jonas, Svetlana R Mukhamadieva, Dilya F Yakupova, Renat I Khikmatullin, Said K Aminev, Ildar F Nuriev, Artur F Zaynetdinov, Yulia V Uzianbaeva, Jost B Jonas
With information about frequency of bone fractures in Russia mostly missing, we assessed the frequency of previous bone fractures in a Russian population. The population-based study Ural Eye and Medical Study included 5899 (80.5%) out of 7328 eligible individuals (mean age: 59.0 ± 10.7 years; range: 40-94 years). The history of previous bone fractures was assessed in a standardized interview for 5397 (91.5%) individuals. Mean frequency of any previous bone fracture was 1650/5397 (30.6%; 95% confidence interval (CI): 29, 3, 31...
May 10, 2018: Scientific Reports
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