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https://www.readbyqxmd.com/read/29146410/cart-neurons-in-the-arcuate-nucleus-and-lateral-hypothalamic-area-exert-differential-controls-on-energy-homeostasis
#1
Jackie Lau, Aitak Farzi, Yue Qi, Regine Heilbronn, Mario Mietzsch, Yan-Chuan Shi, Herbert Herzog
OBJECTIVE: The cocaine- and amphetamine-regulated transcript (CART) codes for a pivotal neuropeptide important in the control of appetite and energy homeostasis. However, limited understanding exists for the defined effector sites underlying CART function, as discrepant effects of central CART administration have been reported. METHODS: By combining Cart-cre knock-in mice with a Cart adeno-associated viral vector designed using the flip-excision switch (AAV-FLEX) technology, specific reintroduction or overexpression of CART selectively in CART neurons in the arcuate nucleus (Arc) and lateral hypothalamic area (LHA), respectively, was achieved...
November 8, 2017: Molecular Metabolism
https://www.readbyqxmd.com/read/29144017/a-new-and-important-relationship-between-mirna-147a-and-pdpk1-in-radiotherapy
#2
Li-Juan Wang, Na-Na Li, Sai-Juan Xu, Fan Zhang, Ming-Hua Hao, Xian-Jun Yang, Xin-Hua Cai, Pei-Yong Qiu, Hong-Long Ji, Ping Xu
It was found that the expression level of miR-147a was significantly increased and the pathway of PI3K/AKT was dramatically inhibited after radiation. In view of the relationship between miRNA and target genes, we put forward the question, what is the relationship between PI3K /AKT and miR-147a? In order to find the answer to the question, we used bioinformatics techniques to analyze the relationship between miR-147 (a or b) and PI3K/AKT signaling pathway. miR-147a overexpression plasmid and PDPK1 3'UTR luciferase reporter gene plasmid were constructed...
November 16, 2017: Journal of Cellular Biochemistry
https://www.readbyqxmd.com/read/29143280/genome-sequencing-and-phylogenetic-analysis-of-banna-virus-genus-seadornavirus-family-reoviridae-isolated-from-culicoides
#3
Song Song, Yuanyuan Li, Shihong Fu, Wenwen Lei, Xiaofang Guo, Yun Feng, Xiaoyan Gao, Xiaolong Li, Zhonghua Yang, Ziqian Xu, Ying He, Huanyu Wang, Hongning Zhou, Bin Wang, Xiaoqing Lu, Guodong Liang
In an investigation of blood-sucking insects and arboviruses, a virus (YN12243) was isolated from Culicoides samples collected in the Sino-Burmese border region of Yunnan Province, China. The virus caused cytopathic effect (CPE) in C6/36 cells and passaged stably. Polyacrylamide gel analysis showed that the genome of YN12243 was composed of 12 segments of double-stranded RNA (dsRNA), with a distribution pattern of 6-6. The nucleotide and amino acid sequences of the coding region (1‒12 segments) were 17,803 bp and 5,925 amino acids in length, respectively...
October 26, 2017: Science China. Life Sciences
https://www.readbyqxmd.com/read/29143175/vectors-for-expression-of-signal-peptide-dependent-proteins-in-baculovirus-insect-cell-systems-and-their-application-to-expression-and-purification-of-the-high-affinity-immunoglobulin-gamma-fc-receptor-i-in-complex-with-its-gamma-chain
#4
Le T M Le, Jens R Nyengaard, Monika M Golas, Bjoern Sander
Integral membrane proteins play a central role in various cellular functions and are important therapeutic targets. However, technical challenges in the overexpression and purification of membrane proteins often represent a limiting factor for biochemical and structural studies. Here, we constructed a set of vectors, derivatives of MultiBac vectors that can be used to express proteins with a cleavable N-terminal signal peptide in insect cells. We propose these vectors for expression of type I membrane proteins and other secretory pathway proteins that require the signal recognition particle for translocation to the endoplasmic reticulum (ER)...
November 15, 2017: Molecular Biotechnology
https://www.readbyqxmd.com/read/29141437/pushing-configuration-interaction-to-the-limit-towards-massively-parallel-mcscf-calculations
#5
Konstantinos D Vogiatzis, Dongxia Ma, Jeppe Olsen, Laura Gagliardi, Wibe A de Jong
A new large-scale parallel multiconfigurational self-consistent field (MCSCF) implementation in the open-source NWChem computational chemistry code is presented. The generalized active space approach is used to partition large configuration interaction (CI) vectors and generate a sufficient number of batches that can be distributed to the available cores. Massively parallel CI calculations with large active spaces can be performed. The new parallel MCSCF implementation is tested for the chromium trimer and for an active space of 20 electrons in 20 orbitals, which can now routinely be performed...
November 14, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/29140977/low-cost-and-open-source-multi-fluorescence-imaging-system-for-teaching-and-research-in-biology-and-bioengineering
#6
Isaac Nuñez, Tamara Matute, Roberto Herrera, Juan Keymer, Timothy Marzullo, Timothy Rudge, Fernán Federici
The advent of easy-to-use open source microcontrollers, off-the-shelf electronics and customizable manufacturing technologies has facilitated the development of inexpensive scientific devices and laboratory equipment. In this study, we describe an imaging system that integrates low-cost and open-source hardware, software and genetic resources. The multi-fluorescence imaging system consists of readily available 470 nm LEDs, a Raspberry Pi camera and a set of filters made with low cost acrylics. This device allows imaging in scales ranging from single colonies to entire plates...
2017: PloS One
https://www.readbyqxmd.com/read/29139179/involvement-of-lemrp-an-atp-binding-cassette-transporter-in-shikonin-transport-and-biosynthesis-in-lithospermum-erythrorhizon
#7
Yu Zhu, Shu-Juan Chu, Yue-Lin Luo, Jiang-Yan Fu, Cheng-Yi Tang, Gui-Hua Lu, Yan-Jun Pang, Xiao-Ming Wang, Rong-Wu Yang, Jin-Liang Qi, Yong-Hua Yang
·Shikonin and its derivatives are important medicinal secondary metabolites accumulating in the roots of Lithospermum erythrorhizon. Although some membrane proteins have been identified as transporters of secondary metabolites, the mechanisms underlying shikonin transport and accumulation in L. erythrorhizon cells still remain largely unknown. ·In this study, we isolated a cDNA encoding LeMRP, an ATP-binding cassette transporter from L. erythrorhizon and further investigated its functions in the transport and biosynthesis of shikonin with the yeast transformation and transgenic hairy root method, respectively...
November 15, 2017: Plant Biology
https://www.readbyqxmd.com/read/29136191/genome-sequence-of-the-small-brown-planthopper-laodelphax-striatellus
#8
Junjie Zhu, Feng Jiang, Xianhui Wang, Pengcheng Yang, Yanyuan Bao, Wan Zhao, Wei Wang, Hong Lu, Qianshuo Wang, Na Cui, Jing Li, Xiaofang Chen, Lan Luo, Jinting Yu, Le Kang, Feng Cui
Background: Laodelphax striatellus Fallén (Hemiptera: Delphacidae) is one of the most destructive rice pests. L. striatellus is different from two other rice planthoppers with a released genome sequence, Sogatella furcifera and Nilaparvata lugens, in many biological characteristics, such as host range, dispersal capacity, and vectoring plant viruses. Deciphering the genome of L. striatellus will help to understand the genetic basis of the biological differences among the three rice planthoppers...
November 10, 2017: GigaScience
https://www.readbyqxmd.com/read/29136092/microrpm-a-microrna-prediction-model-based-only-on-plant-small-rna-sequencing-data
#9
Kuan-Chien Tseng, Yi-Fan Chiang-Hsieh, Hsuan Pai, Chi-Nga Chow, Shu-Chuan Lee, Han-Qin Zheng, Po-Li Kuo, Guan-Zhen Li, Yu-Cheng Hung, Na-Sheng Lin, Wen-Chi Chang
Motivation: MicroRNAs (miRNAs) are endogenous non-coding small RNAs (of about 22 nucleotides), which play an important role in the post-transcriptional regulation of gene expression via either mRNA cleavage or translation inhibition. Several machine learning-based approaches have been developed to identify novel miRNAs from next generation sequencing (NGS) data. Typically, precursor/genomic sequences are required as references for most methods. However, the non-availability of genomic sequences is often a limitation in miRNA discovery in non-model plants...
November 9, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29135934/ultrapse-a-universal-and-extensible-software-platform-for-representing-biological-sequences
#10
Pu-Feng Du, Wei Zhao, Yang-Yang Miao, Le-Yi Wei, Likun Wang
With the avalanche of biological sequences in public databases, one of the most challenging problems in computational biology is to predict their biological functions and cellular attributes. Most of the existing prediction algorithms can only handle fixed-length numerical vectors. Therefore, it is important to be able to represent biological sequences with various lengths using fixed-length numerical vectors. Although several algorithms, as well as software implementations, have been developed to address this problem, these existing programs can only provide a fixed number of representation modes...
November 14, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/29134727/a-srna-in-a-reduced-mutualistic-symbiont-genome-regulates-its-own-gene-expression
#11
Margaret W Thairu, Siyuan Cheng, Allison K Hansen
Similar to other nutritional endosymbionts that are obligate for host survival, the mutualistic aphid endosymbiont, Buchnera, has a highly reduced genome with few regulatory elements. Until recently, it was thought that aphid hosts were primarily responsible for regulating their symbiotic relationship. However, we recently revealed that Buchnera displays differential protein regulation, but not mRNA expression. We also identified a number of conserved small RNAs (sRNAs) that are expressed among Buchnera taxa...
November 13, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/29127808/improving-autocoding-performance-of-rare-categories-in-injury-classification-is-more-training-data-or-filtering-the-solution
#12
Gaurav Nanda, Kirsten Vallmuur, Mark Lehto
INTRODUCTION: Classical Machine Learning (ML) models have been found to assign the external-cause-of-injury codes (E-codes) based on injury narratives with good overall accuracy but often struggle with rare categories, primarily due to lack of enough training cases and heavily skewed nature of injurdata. In this paper, we have: a) studied the effect of increasing the size of training data on the prediction performance of three classical ML models: Multinomial Naïve Bayes (MNB), Support Vector Machine (SVM) and Logistic Regression (LR), and b) studied the effect of filtering based on prediction strength of LR model when the model is trained on very-small (10,000 cases) and very-large (450,000 cases) training sets...
November 8, 2017: Accident; Analysis and Prevention
https://www.readbyqxmd.com/read/29127003/recombinant-alpha-fetoprotein-receptor-binding-domain-co-expression-with-polyglutamate-tags-facilitates-in-vivo-folding-in-e-coli
#13
Murad Mollaev, Neonila Gorokhovets, Elena Nikolskaya, Maria Faustova, Arthur Zabolotsky, Maria Sokol, Oksana Tereshenko, Olga Zhunina, Vitaliy Shvets, Evgeniy Severin, Nikita Yabbarov
A wide range of methods are known to increase the prokaryotic intracellular recombinant proteins solubility, for instance, growth at low temperature, supplementation of culture media with "chemical chaperones" (proline, glycine-betaine, and trehalose), co-expression with chaperones or highly soluble fusion partners. As an alternative, we have introduced the polyglutamate tag, which, as it has been shown, increased the protein solubility and facilitated folding. In this study we evaluated the minimal quantity of high density negatively charged EEEEVE amino acid repeats (pGlu) necessary to switch the recombinant receptor-binding domain of human alpha-fetoprotein (rbdAFP) expression almost entirely from the inclusion bodies to the soluble cytoplasmic fraction in E...
November 7, 2017: Protein Expression and Purification
https://www.readbyqxmd.com/read/29118386/code-modulated-visual-evoked-potentials-using-fast-stimulus-presentation-and-spatiotemporal-beamformer-decoding
#14
Benjamin Wittevrongel, Elia Van Wolputte, Marc M Van Hulle
When encoding visual targets using various lagged versions of a pseudorandom binary sequence of luminance changes, the EEG signal recorded over the viewer's occipital pole exhibits so-called code-modulated visual evoked potentials (cVEPs), the phase lags of which can be tied to these targets. The cVEP paradigm has enjoyed interest in the brain-computer interfacing (BCI) community for the reported high information transfer rates (ITR, in bits/min). In this study, we introduce a novel decoding algorithm based on spatiotemporal beamforming, and show that this algorithm is able to accurately identify the gazed target...
November 8, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29115620/effect-of-silencing-tem8-gene-on-proliferation-apoptosis-migration-and-invasion-of-xwlc%C3%A2-05-lung-cancer-cells
#15
Quan Gong, Chao Liu, Cunde Wang, Li Zhuang, Lijuan Zhang, Xicai Wang
Currently, the role of tumor endothelial marker 8 (TEM8) in the occurrence, development, invasion and metastasis of lung cancer and its mechanism are poorly understood. The present study aimed to investigate the effects of TEM8 on proliferation, apoptosis, migration and invasion of XWLC‑05 lung cancer cells. The expression of TEM8 in human lung cancer and adjacent tissues was detected by reverse transcription‑quantitative polymerase chain reaction and western blotting. An interference vector coding a short hairpin RNA (shRNA) targeting TEM8 was designed and transfected into XWLC‑05 lung cancer cells...
November 3, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29115577/long-non%C3%A2-coding-rna-dancr-regulates-the-proliferation-and-osteogenic-differentiation-of-human-bone-derived-marrow-mesenchymal-stem-cells-via-the-p38%C3%A2-mapk-pathway
#16
Jinlong Zhang, Zhiwen Tao, Yuli Wang
Long non-coding RNAs (lncRNAs) have been established to participate in the complex network of various biological processes and play important roles in the differentiation of mesenchymal stem cells (MSCs). However, the roles of lncRNAs in the mechanisms of the osteogenic differentiation of human bone marrow-derived MSCs (HBMSCs) are poorly understood. Thus, this study aimed to investigate the effects of the lncRNA, differentiation antagonizing non‑protein coding RNA (DANCR), on the proliferation and osteogenic differentiation of HBMSCs...
October 27, 2017: International Journal of Molecular Medicine
https://www.readbyqxmd.com/read/29113919/lighting-up-my-life-a-lov-based-fluorescent-reporter-for-campylobacter-jejuni
#17
Bassam A Elgamoudi, Julian M Ketley
In this study, a LOV-based fluorescent reporter (light, oxygen, or voltage-sensing domains of phototropin), termed iLOV, was adapted for Campylobacter jejuni and used to investigate promoter activity via monitoring fluorescence intensity and to study the localisation of two chemotaxis proteins. The pC46 complementation vector contains coding sequence from cj0046, a C. jejuni NCTC11168 pseudo-gene and is used to integrate cloned genes onto the C. jejuni chromosome. The pC46 vector was used to construct plasmids containing iLOV, driven by three different C...
November 4, 2017: Research in Microbiology
https://www.readbyqxmd.com/read/29113297/long-non-coding-rna-profile-in-mantle-cell-lymphoma-identifies-a-functional-lncrna-ror1-as1-associated-with-ezh2-prc2-complex
#18
Guangzhen Hu, Shiv K Gupta, Tammy P Troska, Asha Nair, Mamta Gupta
Mantle cell lymphoma (MCL) is an aggressive B-cell lymphoma characterized by rapid disease progression. The needs for new therapeutic strategies for MCL patients call for further understanding on the molecular mechanisms of pathogenesis of MCL. Recently, long noncoding RNAs (lncRNAs) have been recognized as key regulators of gene expression and disease development, however, the role of lncRNAs in non-Hodgkin lymphoma and specifically in MCL is still unknown. Next generation RNA-sequencing was carried out on MCL patient samples along with normal controls and data was analyzed...
October 6, 2017: Oncotarget
https://www.readbyqxmd.com/read/29110645/long-intergenic-non-protein-coding-rna-1567-linc01567-acts-as-a-sponge-against-microrna-93-in-regulating-the-proliferation-and-tumorigenesis-of-human-colon-cancer-stem-cells
#19
Xiaofeng Yu, Lin Mi, Jie Dong, Jian Zou
BACKGROUND: Cancer stem cells (CSCs) are considered to be the major factor in tumor initiation, progression, metastasis, recurrence and chemoresistance. Maintaining the stemness and promoting differentiation of these cells involve various factors. Recently, long non-coding RNAs (lncRNAs) have been identified as new regulatory factors in human cancer cells. However, the function of lncRNAs in colon CSCs is still unknown. METHODS: Primary colon cancer cells were maintained in serum-free medium to form spheres and CD133(+)/CD166(+)/CD44(+) spheroid cells were selected using FACS technique...
November 6, 2017: BMC Cancer
https://www.readbyqxmd.com/read/29109070/artificial-intelligence-learning-semantics-via-external-resources-for-classifying-diagnosis-codes-in-discharge-notes
#20
Chin Lin, Chia-Jung Hsu, Yu-Sheng Lou, Shih-Jen Yeh, Chia-Cheng Lee, Sui-Lung Su, Hsiang-Cheng Chen
BACKGROUND: Automated disease code classification using free-text medical information is important for public health surveillance. However, traditional natural language processing (NLP) pipelines are limited, so we propose a method combining word embedding with a convolutional neural network (CNN). OBJECTIVE: Our objective was to compare the performance of traditional pipelines (NLP plus supervised machine learning models) with that of word embedding combined with a CNN in conducting a classification task identifying International Classification of Diseases, Tenth Revision, Clinical Modification (ICD-10-CM) diagnosis codes in discharge notes...
November 6, 2017: Journal of Medical Internet Research
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