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https://www.readbyqxmd.com/read/28718798/co-expression-network-and-pathway-analyses-reveal-important-modules-of-mirnas-regulating-milk-yield-and-component-traits
#1
Duy N Do, Pier-Luc Dudemaine, Ran Li, Eveline M Ibeagha-Awemu
Co-expression network analyses provide insights into the molecular interactions underlying complex traits and diseases. In this study, co-expression network analysis was performed to detect expression patterns (modules or clusters) of microRNAs (miRNAs) during lactation, and to identify miRNA regulatory mechanisms for milk yield and component traits (fat, protein, somatic cell count (SCC), lactose, and milk urea nitrogen (MUN)) via miRNA target gene enrichment analysis. miRNA expression (713 miRNAs), and milk yield and components (Fat%, Protein%, lactose, SCC, MUN) data of nine cows at each of six different time points (day 30 (D30), D70, D130, D170, D230 and D290) of an entire lactation curve were used...
July 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28641919/prevalence-of-candida-africana-and-candida-dubliniensis-in-vulvovaginal-candidiasis-first-turkish-candida-africana-isolates-from-vulvovaginal-candidiasis
#2
G Hazirolan, H U Altun, R Gumral, N C Gursoy, B Otlu, B Sancak
INTRODUCTION: Candida africana and C. dubliniensis are closely related species of C. albicans. Current phenotypic methods are not suitable to accurately distinguish all the species belonging to the C. albicans complex. Several molecular-based methods have recently been designed for discriminating among closely related Candida species. The aim of this study was to establish the prevalence of C. dubliniensis and C. africana in vulvovaginal samples with phenotypic and genotypic methods...
June 19, 2017: Journal de Mycologie Médicale
https://www.readbyqxmd.com/read/28498915/adults-of-lasioderma-serricorne-and-stegobium-paniceum-anobiidae-coleoptera-are-attracted-to-ultraviolet-uv-over-blue-light-leds
#3
Mantaro Hironaka, Toru Kamura, Midori Osada, Rikiya Sasaki, Kazutaka Shinoda, Takahiko Hariyama, Takahisa Miyatake
Two species, the cigarette beetle Lasioderma serricorne (F.) and the drugstore beetle Stegobium paniceum (L.), are particularly important stored-product pests because they damage dry food. A previous study showed that L. serricorne adults are attracted more to ultraviolet (UV) and blue light wave ranges more than others such as turquoise, green, yellow, red, and warm white. However, the previous study did not equalize the amounts of light. The study also evaluated the attractiveness by the numbers of L. serricorne individuals that were lured to LED lights in a small box in the laboratory...
May 12, 2017: Journal of Economic Entomology
https://www.readbyqxmd.com/read/28440025/identifying-key-genes-in-rheumatoid-arthritis-by-weighted-gene-co-expression-network-analysis
#4
Chunhui Ma, Qi Lv, Songsong Teng, Yinxian Yu, Kerun Niu, Chengqin Yi
PURPOSE: This study aimed to identify rheumatoid arthritis (RA) related genes based on microarray data using the WGCNA (weighted gene co-expression network analysis) method. METHODS: Two gene expression profile datasets GSE55235 (10 RA samples and 10 healthy controls) and GSE77298 (16 RA samples and seven healthy controls) were downloaded from Gene Expression Omnibus database. Characteristic genes were identified using metaDE package. WGCNA was used to find disease-related networks based on gene expression correlation coefficients, and module significance was defined as the average gene significance of all genes used to assess the correlation between the module and RA status...
April 25, 2017: International Journal of Rheumatic Diseases
https://www.readbyqxmd.com/read/28329334/turquoise-i-part-1b-ombitasvir-paritaprevir-ritonavir-and-dasabuvir-with-ribavirin-for-hepatitis-c-virus-infection-in-hiv-1-coinfected-patients-on-darunavir
#5
RANDOMIZED CONTROLLED TRIAL
David Wyles, Michael Saag, Rolando M Viani, Jacob Lalezari, Oluwatoyin Adeyemi, Laveeza Bhatti, Amit Khatri, Jennifer R King, Yiran B Hu, Roger Trinh, Nancy S Shulman, Peter Ruane
Background: Ombitasvir/paritaprevir/ritonavir with dasabuvir (OBV/PTV/r + DSV) ± ribavirin (RBV) is approved for hepatitis C virus (HCV) genotype 1 (GT1) treatment in HIV-1 coinfected patients. In healthy controls, coadministration of OBV/PTV/r + DSV + darunavir (DRV) lowered DRV trough concentration (Ctrough) levels. To assess the clinical significance of this change, TURQUOISE-I, Part 1b, evaluated the efficacy and safety of OBV/PTV/r + DSV + RBV in coinfected patients on stable, DRV-containing antiretroviral therapy (ART)...
February 15, 2017: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/28242446/an-efficient-ionoluminescence-analysis-of-turquoise-gemstone-as-a-weakly-luminescent-mineral
#6
T Nikbakht, O Kakuee, M Lamehi-Rachti
The unique ionization pattern of MeV-energy ion beam is applied for efficient luminescence analysis of a collection of natural turquoise samples. The considerable penetration depth of tens of micrometer and enhancement of energy deposition with depth, suggests ionoluminescence as an appropriate technique for studying weakly luminescent minerals. Herein, the luminescence induced in deeper parts of turquoise samples is extracted through their relatively transparent adjacent host stones. The resulting intense spectra reveal the vibrational structure of the broad green luminescence band of turquoise which probably originates from O2(-) centers...
February 21, 2017: Spectrochimica Acta. Part A, Molecular and Biomolecular Spectroscopy
https://www.readbyqxmd.com/read/28193224/microrna-mir-29-controls-a-compensatory-response-to-limit-neuronal-iron-accumulation-during-adult-life-and-aging
#7
Roberto Ripa, Luca Dolfi, Marco Terrigno, Luca Pandolfini, Aurora Savino, Valeria Arcucci, Marco Groth, Eva Terzibasi Tozzini, Mario Baumgart, Alessandro Cellerino
BACKGROUND: A widespread modulation of gene expression occurs in the aging brain, but little is known as to the upstream drivers of these changes. MicroRNAs emerged as fine regulators of gene expression in many biological contexts and they are modulated by age. MicroRNAs may therefore be part of the upstream drivers of the global gene expression modulation correlated with aging and aging-related phenotypes. RESULTS: Here, we show that microRNA-29 (miR-29) is induced during aging in short-lived turquoise killifish brain and genetic antagonism of its function induces a gene-expression signature typical of aging...
February 13, 2017: BMC Biology
https://www.readbyqxmd.com/read/27959423/comparative-analysis-of-hepatocellular-carcinoma-and-cirrhosis-gene-expression-profiles
#8
COMPARATIVE STUDY
Mingming Jiang, Qingfang Zeng, Suiping Dai, Huixia Liang, Fengying Dai, Xueling Xie, Kunlin Lu, Chunfang Gao
Gene expression data of hepatocellular carcinoma (HCC) was compared with that of cirrhosis (C) to identify critical genes in HCC. A total of five gene expression data sets were downloaded from Gene Expression Omnibus. HCC and healthy samples were combined as dataset HCC, whereas cirrhosis samples were included in dataset C. A network was constructed for dataset HCC with the package R for performing Weighted Gene Co‑expression Network Analysis. Modules were identified by cluster analysis with the packages flashClust and dynamicTreeCut...
January 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/27879479/identify-signature-regulatory-network-for-glioblastoma-prognosis-by-integrative-mrna-and-mirna-co-expression-analysis
#9
Zhi-Tong Bing, Guang-Hui Yang, Jie Xiong, Ling Guo, Lei Yang
Glioblastoma multiforme (GBM) is the most common and aggressive type of primary brain tumor in adults. Patients with this disease have a poor prognosis. The objective of this study is to identify survival-related individual genes (or miRNAs) and miRNA -mRNA pairs in GBM using a multi-step approach. First, the weighted gene co-expression network analysis and survival analysis are applied to identify survival-related modules from mRNA and miRNA expression profiles, respectively. Subsequently, the role of individual genes (or miRNAs) within these modules in GBM prognosis are highlighted using survival analysis...
December 2016: IET Systems Biology
https://www.readbyqxmd.com/read/27836413/development-of-a-new-field-test-procedure-for-cocaine
#10
Kenji Tsujikawa, Yuko T Iwata, Hiroki Segawa, Tadashi Yamamuro, Kenji Kuwayama, Tatsuyuki Kanamori, Hiroyuki Inoue
The Scott test, widely used as the field test for cocaine, is performed in three steps. If a sample contains cocaine, blue precipitates appear in step 1, the precipitates are dissolved and the solution turns pink in step 2, and the lower layer turns blue in step 3. However, some pyrrolidine-type cathinones produce cocaine-like results when tested, necessitating modification of the test procedure. Filtration of the second-step mixture weakened the blue color in step 3; however, the blue color did not completely disappear...
November 1, 2016: Forensic Science International
https://www.readbyqxmd.com/read/27819873/hydrophilic-polymer-associated-ischemic-enterocolitis
#11
Jesus A Chavez, Wei Chen, Wendy L Frankel, Christina A Arnold
Hydrophilic polymer coating of medical devices serves to lubricate the device and prevent device-related complications. The coating can be mechanically disrupted and result in downstream injury via presumed thromboembolism. This process has been reported in the brain, heart, lung, and skin, and has been replicated through animal studies and in vitro histologic processing of the polymer coating. We report the first description of hydrophilic polymer-associated ischemic enterocolitis in a series of 7 specimens (small bowel=2, colon=4, aortic thrombus=1) from 3 patients...
February 2017: American Journal of Surgical Pathology
https://www.readbyqxmd.com/read/27732689/activity-dependent-changes-in-gene-expression-in-schizophrenia-human-induced-pluripotent-stem-cell-neurons
#12
Panos Roussos, Boris Guennewig, Dominik C Kaczorowski, Guy Barry, Kristen J Brennand
Importance: Schizophrenia candidate genes participate in common molecular pathways that are regulated by activity-dependent changes in neurons. One important next step is to further our understanding on the role of activity-dependent changes of gene expression in the etiopathogenesis of schizophrenia. Objective: To examine whether neuronal activity-dependent changes of gene expression are dysregulated in schizophrenia. Design, Setting, and Participants: Neurons differentiated from human-induced pluripotent stem cells derived from 4 individuals with schizophrenia and 4 unaffected control individuals were depolarized using potassium chloride...
November 1, 2016: JAMA Psychiatry
https://www.readbyqxmd.com/read/27571956/weighted-gene-co-expression-network-analysis-of-colorectal-cancer-liver-metastasis-genome-sequencing-data-and-screening-of-anti-metastasis-drugs
#13
Bo Gao, Qin Shao, Hani Choudhry, Victoria Marcus, Kung Dong, Jiannis Ragoussis, Zu-Hua Gao
Approximately 9% of cancer-related deaths are caused by colorectal cancer (CRC). CRC patients are prone to liver metastasis, which is the most important cause for the high CRC mortality rate. Understanding the molecular mechanism of CRC liver metastasis could help us to find novel targets for the effective treatment of this deadly disease. Using weighted gene co-expression network analysis on the sequencing data of CRC with and with metastasis, we identified 5 colorectal cancer liver metastasis related modules which were labeled as brown, blue, grey, yellow and turquoise...
September 2016: International Journal of Oncology
https://www.readbyqxmd.com/read/27571920/the-biological-methane-forming-reaction-mechanism-confirmed-through-spectroscopic-characterization-of-a-key-intermediate
#14
Seigo Shima
Find your path: Methyl-coenzyme M reductase (MCR, turquoise) reversibly catalyzes the reduction of methyl-coenzyme M (methyl-S-CoM) with coenzyme B (CoB-SH) to form methane and the heterodisulfide. Recently, spectroscopic methods were used to detect trapped intermediates in a stopped-flow system, and CoM-S-Ni(II) was identified after half a turnover of the MCR reaction (F430 =nickel porphinoid). This finding supports a methyl-radical catalytic mechanism.
October 24, 2016: Angewandte Chemie
https://www.readbyqxmd.com/read/27431786/smart-windows-application-of-carbazole-and-triazine-based-star-shaped-architecture
#15
Merve Guzel, Tugba Soganci, Rukiye Ayranci, Metin Ak
A novel triazine-based, star shape and electroactive monomer, 2,4,6-tris(2-(9H-carbazol-9-yl)ethoxy)-1,3,5-triazine (TCZ) which contains 2,4,6-trichloro-1,3,5-triazine as the core and 2-(9H-carbazol-9-yl)ethanol as the arms, was successfully synthesized. After electrochemical polymerization of the TCZ monomer, called PTCZ, the polymer shows superior optoelectronic and thermal properties due to its unique three-dimensional shape and highly-branched structure in comparison with linear analogues. Electrochromic studies exhibited that PTCZ has turquoise color in the oxidized state and is transparent in the neutral state...
August 3, 2016: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/27423541/outgroups-and-positive-selection-the-nothobranchius-furzeri-case
#16
Arne Sahm, Matthias Platzer, Alessandro Cellerino
Applications of positive selection analysis increase with the number of species for which genome/transcriptome sequences become available. Using the recently sequenced turquoise killifish (Nothobranchius furzeri) genome as an example, we compare two different approaches based on different outgroup selection. The combination of these two methods allows the origin of positively selected sites in aging-related genes of the N. furzeri genome to be determined.
September 2016: Trends in Genetics: TIG
https://www.readbyqxmd.com/read/27395240/a-new-dune-dwelling-lizard-of-the-genus-leiocephalus-iguania-leiocephalidae-from-the-dominican-republic
#17
Gunther Köhler, Marcos J Rodríguez Bobadilla, S Blair Hedges
We describe a new species of Leiocephalus from the coastal dunes of Bahía de las Calderas in the southwestern Dominican Republic. In external morphology, Leiocephalus sixtoi sp. nov. is most similar to L. schreibersii and L. inaguae. Leiocephalus sixtoi differs from L. inaguae in having a U-shaped bony parietal table (vs. V-shaped in L. inaguae), 3 or 4 enlarged postcloacal scales in males (vs. 2 in L. inaguae), most scales on snout posterior to internasal scales rugose to keeled scales (vs. smooth in L. inaguae), and a patternless throat in males, spots on the throat in females (vs...
June 13, 2016: Zootaxa
https://www.readbyqxmd.com/read/27388556/laboratory-breeding-of-the-short-lived-annual-killifish-nothobranchius-furzeri
#18
Matej Polačik, Radim Blažek, Martin Reichard
Turquoise killifish, Nothobranchius furzeri, have an intrinsically short life span, with a median life span of <6 months and a maximum (90%) life span of 9 months. This short life span, which is unique among vertebrates, evolved naturally and has resulted in N. furzeri becoming a widely used laboratory model species in aging research and other disciplines. Here, we describe a protocol for the maintenance and breeding of the species under laboratory conditions. We provide details for egg incubation, hatching, everyday care of juvenile and adult fish, breeding and treatment of most common diseases...
August 2016: Nature Protocols
https://www.readbyqxmd.com/read/27331354/bilirubin-isomer-distribution-in-jaundiced-neonates-during-phototherapy-with-led-light-centered-at-497%C3%A2-nm-turquoise-vs-459%C3%A2-nm-blue
#19
Finn Ebbesen, Poul H Madsen, Pernille K Vandborg, Lasse H Jakobsen, Torleif Trydal, Hendrik J Vreman
BACKGROUND: Phototherapy using blue light is the treatment of choice worldwide for neonatal hyperbilirubinemia. However, treatment with turquoise light may be a desirable alternative. Therefore, the aim of this randomized, controlled study was to compare the bilirubin isomer distribution in serum of jaundiced neonates after 24 h of therapy with narrow-band (LED) light centered at 497 nm (turquoise) vs. 459 nm (blue), of essentially equal irradiance. MATERIALS: Eighty-three neonates (≥33 wk gestational age) with uncomplicated hyperbilirubinemia were included in the study...
October 2016: Pediatric Research
https://www.readbyqxmd.com/read/27052251/transcriptional-modules-related-to-hepatocellular-carcinoma-survival-coexpression-network-analysis
#20
Xinsen Xu, Yanyan Zhou, Runchen Miao, Wei Chen, Kai Qu, Qing Pang, Chang Liu
We performed weighted gene coexpression network analysis (WGCNA) to gain insights into the molecular aspects of hepatocellular carcinoma (HCC). Raw microarray datasets (including 488 samples) were downloaded from the Gene Expression Omnibus (GEO) website. Data were normalized using the RMA algorithm. We utilized the WGCNA to identify the coexpressed genes (modules) after non-specific filtering. Correlation and survival analyses were conducted using the modules, and gene ontology (GO) enrichment was applied to explore the possible mechanisms...
June 2016: Frontiers of Medicine
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