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Jian Shang, Fan Wang, Pengfei Chen, Xiaobing Wang, Feng Ding, Shi Liu, Qiu Zhao
BACKGROUNDS AND AIMS: Human colon adenocarcinoma is one of the major causes of tumor-induced death worldwide. A complicated gene interconnection network significantly regulates its progression and prognosis. The aim of our study was to find hub genes associated with the progression and prognosis of colon adenocarcinoma and to illustrate the underlying mechanisms. METHODS: A weighted gene co-expression network analysis was performed in our study to identify significant gene modules and hub genes associated with the TNM stage of colon adenocarcinoma (n = 441)...
March 1, 2018: Digestive Diseases and Sciences
Zhonghua Song, Wenhua Zhao, Danfeng Cao, Jinqing Zhang, Shouhua Chen
Gastric cancer (GC) is the fifth most common cancer and the third leading cause of cancer-related deaths worldwide. The high mortality might be attributed to delay in detection and is closely related to lymph node metastasis. Therefore, it is of great importance to explore the mechanism of lymph node metastasis and find strategies to block GC metastasis. Messenger RNA (mRNA), microRNA (miRNA) and long non-coding RNA (lncRNA) expression data and clinical data were downloaded from The Cancer Genome Atlas (TCGA) database...
2018: Brazilian Journal of Medical and Biological Research, Revista Brasileira de Pesquisas Médicas e Biológicas
Chun-Wei Yang, Shu-Fang Wang, Xiang-Li Yang, Lin Wang, Lin Niu, Ji-Xiang Liu
One of the most common head and neck cancers is laryngeal squamous cell carcinoma (LSCC). LSCC exhibits high mortality rates and has a poor prognosis. The molecular mechanisms leading to the development and progression of LSCC are not entirely clear despite genetic and therapeutic advances and increased survival rates. In this study, a total of 116 differentially expressed genes (DEGs), including 11 upregulated genes and 105 downregulated genes, were screened from LSCC samples and compared with adjacent noncancerous...
February 2018: Medicine (Baltimore)
Charlotte Philippe, Arnout F Grégoir, Eli S J Thoré, Luc Brendonck, Gudrun De Boeck, Tom Pinceel
Aquatic organisms of inland waters are often subjected to a combination of stressors. Yet, few experiments assess mixed stress effects beyond a select group of standard model organisms. We studied the joint toxicity of reference toxicants and increased temperature on the turquoise killifish, Nothobranchius furzeri, a promising model for ecotoxicological research due to the species' short life cycle and the production of drought-resistant eggs. The acute sensitivity of the larval stage (2dph) to three compounds (cadmium, 3,4-dichloroaniline and chlorpyrifos) was tested in combination with a temperature increase of 4 °C, mimicking global warming...
January 29, 2018: Environmental Science and Pollution Research International
S S Rudel, C Pietzonka, M Hoelzel, F Kraus
The reaction of uranium tetrachloride with anhydrous liquid hydrogen cyanide yields a turquoise microcrystalline powder of tetrachloridotetraformonitrileuranium(iv), [UCl4(HCN)4]. We determined the crystal structure of this compound by powder neutron diffraction. The compound was further characterized by IR spectroscopy and thermogravimetric analysis as well as by magnetic measurements. The paramagnetic compound crystallizes in the tetragonal space group type I4[combining macron]. To the best of our knowledge this compound represents the first structurally elucidated uranium(iv) complex with HCN as a ligand...
January 17, 2018: Chemical Communications: Chem Comm
Rui Lin, Yufeng Wang, Kun Ji, Zhongyan Liu, Shuai Xiao, Dehua Zhou, Quanning Chen, Baomin Shi
Due to the lack of potential organs, hepatocellular transplantation has been considered for treating end-stage liver disease. Induced pluripotent stem cells (iPSCs) are reverted from somatic cells and are able to differentiate into hepatocytes. The present study aimed to investigate the mechanisms underlying iPSC differentiation to hepatocytes. GSE66076 was downloaded from the Gene Expression Omnibus; this database includes data from 3 undifferentiated (T0), 3 definitive endoderm (T5), and 3 early hepatocyte (T24) samples across hepatic‑directed differentiation of iPSCs...
January 5, 2018: Molecular Medicine Reports
Martina Api, Piera Biondi, Ike Olivotto, Eva Terzibasi, Alessandro Cellerino, Oliana Carnevali
Studies on parental aging are a very attractive field, although it is poorly understood how parental age affects embryonic development and adult traits of the offspring. In this study, we used the turquoise killifish Nothobranchius furzeri, as is the vertebrate with shortest captive lifespan and an interesting model. The embryos of N. furzeri can follow two distinct developmental pathways either entering diapause or proceeding through direct development. Thus, this embryonic plasticity allows this model to be used to study different factors that could affect their embryonic development, including parental age...
January 5, 2018: Zebrafish
Zongliang Yue, Itika Arora, Eric Y Zhang, Vincent Laufer, S Louis Bridges, Jake Y Chen
BACKGROUND: Much effort has been devoted to the discovery of specific mechanisms between drugs and single targets to date. However, as biological systems maintain homeostasis at the level of functional networks robustly controlling the internal environment, such networks commonly contain multiple redundant mechanisms designed to counteract loss or perturbation of a single member of the network. As such, investigation of therapeutics that target dysregulated pathways or processes, rather than single targets, may identify agents that function at a level of the biological organization more relevant to the pathology of complex diseases such as Parkinson's Disease (PD)...
December 28, 2017: BMC Bioinformatics
Johanna Heid, Chiara Cencioni, Roberto Ripa, Mario Baumgart, Sandra Atlante, Giuseppina Milano, Alessandro Scopece, Carsten Kuenne, Stefan Guenther, Valerio Azzimato, Antonella Farsetti, Giacomo Rossi, Thomas Braun, Giulio Pompilio, Fabio Martelli, Andreas M Zeiher, Alessandro Cellerino, Carlo Gaetano, Francesco Spallotta
The short-lived turquoise killifish Nothobranchius furzeri (Nfu) is a valid model for aging studies. Here, we investigated its age-associated cardiac function. We observed oxidative stress accumulation and an engagement of microRNAs (miRNAs) in the aging heart. MiRNA-sequencing of 5 week (young), 12-21 week (adult) and 28-40 week (old) Nfu hearts revealed 23 up-regulated and 18 down-regulated miRNAs with age. MiR-29 family turned out as one of the most up-regulated miRNAs during aging. MiR-29 family increase induces a decrease of known targets like collagens and DNA methyl transferases (DNMTs) paralleled by 5´methyl-cytosine (5mC) level decrease...
December 4, 2017: Scientific Reports
Jürgen K Rockstroh, Chloe Orkin, Rolando M Viani, David Wyles, Anne F Luetkemeyer, Adriano Lazzarin, Ruth Soto-Malave, Mark R Nelson, Sanjay R Bhagani, Hartwig H F Klinker, Giuliano Rizzardini, Pierre-Marie Girard, Cristina Tural, Nancy S Shulman, Niloufar Mobashery, Yiran B Hu, Linda M Fredrick, Tami Pilot-Matias, Roger Trinh, Edward Gane
BACKGROUND: Ombitasvir, paritaprevir with ritonavir, and dasabuvir (OBV/PTV/r ± DSV) ±ribavirin (RBV) are approved to treat hepatitis C virus (HCV) genotype 1 and 4 infection. Here, we investigate the safety and efficacy of OBV/PTV/r + DSV ±RBV for HCV genotype 1, and OBV/PTV/r + RBV for HCV genotype 4, in human immunodeficiency virus (HIV)-1 coinfected patients with or without compensated cirrhosis. METHODS: TURQUOISE-I, Part 2 is a phase 3 multicenter study...
2017: Open Forum Infectious Diseases
Huan-Shen Liu, Wei-Chieh Chang, Chin-Yen Chou, Bo-Cheng Pan, Yi-Shan Chou, Guey-Sheng Liou, Cheng-Liang Liu
Thermally stable TPA-OMe polyamide films with high transmittance modulation in response to applied potential are formed by facile ultrasonic spray-coating. Four processing conditions (Film A, Film B, Film C and Film D) through tuning both solution concentrations and deposition temperatures can be utilized for the formation of wet and dry deposited films with two film thickness intervals. The electrochromic results show that the dry deposited rough films at higher deposition temperature generally reveal a faster electrochromic response, lower charge requirements (Q) and less conspicuous color changes (smaller optical density change (ΔOD) and lightness change (ΔL*)) during the oxidation process as compared to the wet deposited smooth films at lower deposition temperature...
September 20, 2017: Scientific Reports
Lijuan Bo, Bo Wei, Zhanfeng Wang, Daliang Kong, Zheng Gao, Zhuang Miao
BACKGROUND This study aimed to identify more potential genes and miRNAs associated with the pathogenesis of intracranial aneurysms (IAs). MATERIAL AND METHODS The dataset of GSE36791 (accession number) was downloaded from the Gene Expression Omnibus database. Differentially expressed genes (DEGs) were screened for in the blood samples from patients with ruptured IAs and controls, followed by functional and pathway enrichment analyses. In addition, gene co-expression network was constructed and significant modules were extracted from the network by WGCNA R package...
September 20, 2017: Medical Science Monitor: International Medical Journal of Experimental and Clinical Research
Jolanda J D de Roo, Cor Breukel, Amiet R Chhatta, Margot M Linssen, Sandra A Vloemans, Daniela Salvatori, Harald M M Mikkers, Sjef J Verbeek, Frank J T Staal
The canonical Wnt signalling pathway has been implicated in organogenesis and self-renewal of essentially all stem cell systems. In vivo reporter systems are crucial to assess the role of Wnt signalling in the biology and pathology of stem cell systems. We set out to develop a Turquoise (TQ) fluorescent protein based Wnt reporter. We used a CRISPR-Cas9 approach to insert a TQ fluorescent protein encoding gene into the general Wnt target gene Axin2, thereby establishing a Wnt reporter mouse similar to previously generated Wnt reporter mice but with the mTurquoise2 gene instead of E...
September 5, 2017: Genesis: the Journal of Genetics and Development
Anupam Bhim, Sourav Laha, Jagannatha Gopalakrishnan, Srinivasan Natarajan
We explored garnet-structured oxide materials containing 3d transition-metal ions (e.g., Co(2+) , Ni(2+) , Cu(2+) , and Fe(3+) ) for the development of new inorganic colored materials. For this purpose, we synthesized new garnets, Ca3 Sb2 Ga2 ZnO12 (I) and Ca3 Sb2 Fe2 ZnO12 (II), that were isostructural with Ca3 Te2 Zn3 O12 . Substitution of Co(2+) , Ni(2+) , and Cu(2+) at the tetrahedral Zn(2+) sites in I and II gave rise to brilliantly colored materials (different shades of blue, green, turquoise, and red)...
September 4, 2017: Chemistry, An Asian Journal
Patrick Smith, David Willemsen, Miriam Popkes, Franziska Metge, Edson Gandiwa, Martin Reichard, Dario Riccardo Valenzano
Gut bacteria occupy the interface between the organism and the external environment, contributing to homeostasis and disease. Yet, the causal role of the gut microbiota during host aging is largely unexplored. Here, using the African turquoise killifish (Nothobranchius furzeri), a naturally short-lived vertebrate, we show that the gut microbiota plays a key role in modulating vertebrate life span. Recolonizing the gut of middle-age individuals with bacteria from young donors resulted in life span extension and delayed behavioral decline...
August 22, 2017: ELife
Siming Ma, Vadim N Gladyshev
Much of the current research on longevity focuses on the aging process within a single species. Several molecular players (e.g. IGF1 and MTOR), pharmacological compounds (e.g. rapamycin and metformin), and dietary approaches (e.g. calorie restriction and methionine restriction) have been shown to be important in regulating and modestly extending lifespan in model organisms. On the other hand, natural lifespan varies much more significantly across species. Within mammals alone, maximum lifespan differs more than 100 fold, but the underlying regulatory mechanisms remain poorly understood...
October 2017: Seminars in Cell & Developmental Biology
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
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
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...
August 1, 2017: Journal of Economic Entomology
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...
August 2017: International Journal of Rheumatic Diseases
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