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https://www.readbyqxmd.com/read/28719877/functional-genomic-assessment-of-2-2-bis-bromomethyl-1-3-propanediol-induced-cytotoxicity-in-a-single-gene-knockout-library-of-e-%C3%A2-coli
#1
Miao Guan, Xiaowei Zhang
Functional gene fingerprinting of chemicals could be used to understand the direct gene-chemical interaction in the process of toxification from a genome-wide scale. 2, 2-bis (bromomethyl)-1, 3-propanediol (BMP) is a brominated flame retardant with widespread production but with very limited toxicological data. Here the cytotoxicity of BMP was assessed by Escherichia coli (E. coli) functional genome-wide knockout mutants screening and the underlying molecular mechanism was investigated. The median inhibition concentration (IC50) of BMP was 1...
July 9, 2017: Chemosphere
https://www.readbyqxmd.com/read/28719867/tissue-homeostasis-and-aging-new-insight-from-the-fly-intestine
#2
REVIEW
Louis Gervais, Allison J Bardin
Adult somatic stem cells facilitate tissue homeostasis throughout the life of the organism. The mechanisms controlling stem cell activity are under intense scrutiny, with the aims of elucidating how they mediate tissue homeostasis, contribute to age-related decline of adult tissues, and promote tumorigenesis. Recently, the use of model systems such as the Drosophila intestine has enriched our understanding of how stem cells integrate local and systemic signals to maintain tissue and organs function in physiological conditions of homeostasis or after damage...
July 15, 2017: Current Opinion in Cell Biology
https://www.readbyqxmd.com/read/28719828/functional-analysis-of-pcsk2-coding-variants-a-founder-effect-in-the-old-order-amish-population
#3
Alexandra Winters, Bruno Ramos-Molina, Timothy S Jarvela, Laura Yerges-Armstrong, Toni I Pollin, Iris Lindberg
AIMS: In humans, noncoding variants of PCSK2, the gene encoding prohormone convertase 2 (PC2), have been previously associated with risk for and age of onset of type 2 diabetes (T2D). The aims of this study were to identify coding variants in PCSK2; to determine their possible association with glucose handling; and to determine functional outcomes for coding variants in biochemical studies. METHODS: Exome-wide genotyping was performed on 1725 Old Order Amish (OOA) subjects...
July 3, 2017: Diabetes Research and Clinical Practice
https://www.readbyqxmd.com/read/28719644/isolation-of-putative-stem-cells-present-in-human-adult-olfactory-mucosa
#4
Tamara Tanos, Alberto Maria Saibene, Carlotta Pipolo, Paolo Battaglia, Giovanni Felisati, Alicia Rubio
The olfactory mucosa (OM) has the unique characteristic of performing an almost continuous and lifelong neurogenesis in response to external injuries, due to the presence of olfactory stem cells that guarantee the maintenance of the olfactory function. The easy accessibility of the OM in humans makes these stem cells feasible candidates for the development of regenerative therapies. In this report we present a detailed characterization of a patient-derived OM, together with a description of cell cultures obtained from the OM...
2017: PloS One
https://www.readbyqxmd.com/read/28719640/short-lived-long-non-coding-rnas-as-surrogate-indicators-for-chemical-exposure-and-linc00152-and-malat1-modulate-their-neighboring-genes
#5
Hidenori Tani, Sayaka Okuda, Kaoru Nakamura, Motohide Aoki, Tomonari Umemura
Whole transcriptome analyses have revealed a large number of novel long non-coding RNAs (lncRNAs). Although accumulating evidence demonstrates that lncRNAs play important roles in regulating gene expression, the detailed mechanisms of action of most lncRNAs remain unclear. We previously reported that a novel class of lncRNAs with a short half-life (t1/2 < 4 h) in HeLa cells, termed short-lived non-coding transcripts (SLiTs), are closely associated with physiological and pathological functions. In this study, we focused on 26 SLiTs and nuclear-enriched abundant lncRNA, MALAT1(t1/2 of 7...
2017: PloS One
https://www.readbyqxmd.com/read/28719597/pharmacogenomics-study-of-thiazide-diuretics-and-qt-interval-in-multi-ethnic-populations-the-cohorts-for-heart-and-aging-research-in-genomic-epidemiology
#6
A A Seyerle, C M Sitlani, R Noordam, S M Gogarten, J Li, X Li, D S Evans, F Sun, M A Laaksonen, A Isaacs, K Kristiansson, H M Highland, J D Stewart, T B Harris, S Trompet, J C Bis, G M Peloso, J A Brody, L Broer, E L Busch, Q Duan, A M Stilp, C J O'Donnell, P W Macfarlane, J S Floyd, J A Kors, H J Lin, R Li-Gao, T Sofer, R Méndez-Giráldez, S R Cummings, S R Heckbert, A Hofman, I Ford, Y Li, L J Launer, K Porthan, C Newton-Cheh, M D Napier, K F Kerr, A P Reiner, K M Rice, J Roach, B M Buckley, E Z Soliman, R de Mutsert, N Sotoodehnia, A G Uitterlinden, K E North, C R Lee, V Gudnason, T Stürmer, F R Rosendaal, K D Taylor, K L Wiggins, J G Wilson, Y-DI Chen, R C Kaplan, K Wilhelmsen, L A Cupples, V Salomaa, C van Duijn, J W Jukema, Y Liu, D O Mook-Kanamori, L A Lange, R S Vasan, A V Smith, B H Stricker, C C Laurie, J I Rotter, E A Whitsel, B M Psaty, C L Avery
Thiazide diuretics, commonly used antihypertensives, may cause QT interval (QT) prolongation, a risk factor for highly fatal and difficult to predict ventricular arrhythmias. We examined whether common single-nucleotide polymorphisms (SNPs) modified the association between thiazide use and QT or its component parts (QRS interval, JT interval) by performing ancestry-specific, trans-ethnic and cross-phenotype genome-wide analyses of European (66%), African American (15%) and Hispanic (19%) populations (N=78 199), leveraging longitudinal data, incorporating corrected standard errors to account for underestimation of interaction estimate variances and evaluating evidence for pathway enrichment...
July 18, 2017: Pharmacogenomics Journal
https://www.readbyqxmd.com/read/28719192/precise-molecular-design-of-high-tc-3d-organic-inorganic-perovskite-ferroelectric-mehdabco-rbi3-mehdabco-n-methyl-1-4-diazabi-cyclo-2-2-2-octane
#7
Wan-Ying Zhang, Yuan-Yuan Tang, Peng-Fei Li, Ping-Ping Shi, Wei-Qiang Liao, Da-Wei Fu, Heng-Yun Ye, Yi Zhang, Ren-Gen Xiong
With the flourishing development of (CH3NH3)PbI3, three-dimensional (3D) organic-inorganic perovskites with unique structure-property flexibility have become a worldwide focus. However, they still face great challenges in effec-tively inducing ferroelectricity. Despite the typical 3D perovskite structure and the ability of dabco to trigger phase transition, unfortunately [H2dabco]RbCl3 (dabco = 1,4-diazabicyclo[2.2.2]octane) adopts a nonpolar crystal structure without ferroelectricity. Within larger RbI3 framework, we assemble N-methyl-dabco gained by reducing the molecular symmetry of dabco into a new 3D organic-inorganic perovskite...
July 18, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28719191/relationships-between-dissolved-organic-matter-composition-and-photochemistry-in-lakes-of-diverse-trophic-status
#8
Andrew Chapin Maizel, Jing Li, Christina K Remucal
The North Temperate Lakes-Long Term Ecological Research site includes seven lakes in northern Wisconsin that vary in hydrology, trophic status, and landscape position. We examine the molecular composition of dissolved organic matter (DOM) within these lakes using Fourier transform-ion cyclotron resonance mass spectrometry (FT-ICR MS) and quantify DOM photochemical activity using probe compounds. Correlations between the relative intensity of individual molecular formulas and reactive species production demonstrate the influence of DOM composition on photochemistry...
July 18, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28719110/benefits-of-attending-a-weekend-childhood-cancer-survivor-family-retreat
#9
Lisa Bashore, Joyce Bender
PURPOSE: To explore the long-term benefits to families of childhood cancer survivors who attended a weekend childhood cancer survivor family retreat. DESIGN: Descriptive-qualitative study including families who had attended the weekend retreat at least once but not in the past 12 months, and who attend a large pediatric hematology and oncology cancer survivorship program in Texas. METHODS: A semistructured interview guide was used during three audio-taped focus groups to explore the benefits of having attended a weekend retreat...
July 18, 2017: Journal of Nursing Scholarship
https://www.readbyqxmd.com/read/28719024/the-immunoproteasome-an-old-player-with-a-novel-and-emerging-role-in-alloimmunity
#10
S K Eskandari, M A J Seelen, G Lin, J R Azzi
Modern treatment strategies for the maintenance of allograft acceptance frequently target ubiquitously-expressed pathways, leading to significant side-effects and poor long-term allograft outcomes. Constitutive proteasome inhibitors, which have recently been introduced for the treatment of antibody-mediated rejection, target the ubiquitously-expressed proteasome. To limit off-target effects and serious mechanism-based toxicity, however, these inhibitors are administered intermittently and suboptimally. Immunoproteasomes, which are an inducible subset of proteasomes enriched in immune cells, replace constitutive proteasomes after cell exposure to proinflammatory cytokines such as interferon-γ...
July 18, 2017: American Journal of Transplantation
https://www.readbyqxmd.com/read/28719003/mutation-intolerant-genes-and-targets-of-fmrp-are-enriched-for-nonsynonymous-alleles-in-schizophrenia
#11
Ganna Leonenko, Alexander L Richards, James T Walters, Andrew Pocklington, Kimberly Chambert, Mariam M Al Eissa, Sally I Sharp, Niamh L O'Brien, David Curtis, Nicholas J Bass, Andrew McQuillin, Christina Hultman, Jennifer L Moran, Steven A McCarroll, Pamela Sklar, Benjamin M Neale, Peter A Holmans, Michael J Owen, Patrick F Sullivan, Michael C O'Donovan
Risk of schizophrenia is conferred by alleles occurring across the full spectrum of frequencies from common SNPs of weak effect through to ultra rare alleles, some of which may be moderately to highly penetrant. Previous studies have suggested that some of the risk of schizophrenia is attributable to uncommon alleles represented on Illumina exome arrays. Here, we present the largest study of exomic variation in schizophrenia to date, using samples from the United Kingdom and Sweden (10,011 schizophrenia cases and 13,791 controls)...
July 18, 2017: American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics
https://www.readbyqxmd.com/read/28718849/an-efficient-method-to-transcription-factor-binding-sites-imputation-via-simultaneous-completion-of-multiple-matrices-with-positional-consistency
#12
Wei-Li Guo, De-Shuang Huang
Transcription factors (TFs) are DNA-binding proteins that have a central role in regulating gene expression. Identification of DNA-binding sites of TFs is a key task in understanding transcriptional regulation, cellular processes and disease. Chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) enables genome-wide identification of in vivo TF binding sites. However, it is still difficult to map every TF in every cell line owing to cost and biological material availability, which poses an enormous obstacle for integrated analysis of gene regulation...
July 18, 2017: Molecular BioSystems
https://www.readbyqxmd.com/read/28718848/label-free-high-throughput-holographic-screening-and-enumeration-of-tumor-cells-in-blood
#13
Dhananjay Kumar Singh, Caroline C Ahrens, Wei Li, Siva A Vanapalli
We introduce inline digital holographic microscopy (in-line DHM) as a label-free technique for detecting tumor cells in blood. The optimized DHM platform fingerprints every cell flowing through a microchannel at 10 000 cells per second, based on three features - size, maximum intensity and mean intensity. To identify tumor cells in a background of blood cells, we developed robust gating criteria using machine-learning approaches. We established classifiers from the features extracted from 100 000-cell training sets consisting of red blood cells, peripheral blood mononuclear cells and tumor cell lines...
July 18, 2017: Lab on a Chip
https://www.readbyqxmd.com/read/28718825/olive-mill-waste-enhances-%C3%AE-glucan-content-in-the-edible-mushroom-pleurotus-eryngii
#14
Sharon Avni, Nirit Ezove, Hilla Hanani, Itamar Yadid, Michal Karpovsky, Hilla Hayby, Ofer Gover, Yitzhak Hadar, Betty Schwartz, Ofer Danay
Mushroom polysaccharides are edible polymers that have numerous reported biological functions; the most common effects are attributed to β-glucans. In recent years, it became apparent that the less abundant α-glucans also possess potent effects in various health conditions. Here we explore several Pleurotus species for their total, β and α-glucan content. Pleurotus eryngii was found to have the highest total glucan concentrations and the highest α-glucans proportion. We also found that the stalks (stipe) of the fruit body contained higher glucan content then the caps (pileus)...
July 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28718800/enriching-diet-with-n-3-pufas-to-help-prevent-cardiovascular-diseases-in-healthy-adults-results-from-clinical-trials
#15
REVIEW
Matteo Manuelli, Lucio Della Guardia, Hellas Cena
Omega-3 polyunsaturated fatty acids (n-3 PUFAs) are believed to be important for cardiovascular health. Many investigations have been carried out in an attempt to examine the effect of n-3 PUFAs intake, in the form of supplementation or fortified foods, for the management of cardiovascular disease (CVD) and risk factors for CVD, whereas less is known about the effect on healthy individuals. The present study reviews the available literature in order to examine the relationship between n-3 PUFAs intake, either via supplementation or enriched food, and the prevention of CVD among healthy adults...
July 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28718798/co-expression-network-and-pathway-analyses-reveal-important-modules-of-mirnas-regulating-milk-yield-and-component-traits
#16
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/28718623/a-multimodal-spectroscopic-imaging-method-to-characterize-the-metal-and-macromolecular-content-of-proteinaceous-aggregates-amyloid-plaques
#17
Kelly L Summers, Nicholas Fimognari, Ashley Hollings, Mitchell Kiernan, Virginie Lam, Rebecca J Tidy, David Paterson, Mark J Tobin, Ryu Takechi, Graham N George, Ingrid J Pickering, John C Mamo, Hugh H Harris, Mark J Hackett
Alzheimer's disease (AD) is a major international health and economic concern. A key pathological feature of AD is so-called "amyloid-β-plaques", or "Aβ-plaques", which are deposits of aggregated protein, enriched with the Aβ fragment of amyloid precursor protein. Despite their name, the deposits are not pure Aβ and have a heterogeneous, chemically complex composition that can include multiple proteins, lipids, and metal ions (Fe, Cu, or Zn). Despite extensive research, it is still uncertain whether Aβ-plaques are a cause or a consequence of AD pathology...
July 18, 2017: Biochemistry
https://www.readbyqxmd.com/read/28718505/immunogenomic-approaches-to-understand-the-function-of-immune-disease-variants
#18
REVIEW
Dafni Anna Glinos, Blagoje Soskic, Gosia Trynka
Mapping hundreds of genetic variants through genome wide association studies provided an opportunity to gain insights into the pathobiology of immune mediated diseases. However, since most of the disease variants fall outside the gene coding sequences, thereby implicating gene expression regulation as the causal mechanism, the functional interpretation of the exact role of the associated variants remains to be determined. Despite these challenges, integration of disease associated variants with large scale genomic maps of cell type specific gene regulation both at chromatin and transcript levels deliver examples of functionally prioritised causal variants and genes...
July 17, 2017: Immunology
https://www.readbyqxmd.com/read/28718365/tmem88-ccl14-and-clec3b-as-prognostic-biomarkers-for-prognosis-and-palindromia-of-human-hepatocellular-carcinoma
#19
Xin Zhang, Jin-Xiang Wan, Zun-Ping Ke, Feng Wang, Hai-Xia Chai, Jia-Qiang Liu
Hepatocellular carcinoma is one of the most mortal and prevalent cancers with increasing incidence worldwide. Elucidating genetic driver genes for prognosis and palindromia of hepatocellular carcinoma helps managing clinical decisions for patients. In this study, the high-throughput RNA sequencing data on platform IlluminaHiSeq of hepatocellular carcinoma were downloaded from The Cancer Genome Atlas with 330 primary hepatocellular carcinoma patient samples. Stable key genes with differential expressions were identified with which Kaplan-Meier survival analysis was performed using Cox proportional hazards test in R language...
July 2017: Tumour Biology: the Journal of the International Society for Oncodevelopmental Biology and Medicine
https://www.readbyqxmd.com/read/28718199/the-clec12a-receptor-marks-human-basophils-potential-implications-for-minimal-residual-disease-detection-in-myeloid-malignancies
#20
Marie Toft-Petersen, Anne Stidsholt Roug, Trine Plesner, Lene Ebbesen, Gordon D Brown, Line Nederby
BACKGROUND: The transmembrane receptor C-type lectin domain family 12, member A (CLEC12A) is known to be highly expressed on monocytes and neutrophils and is a reliable leukemia associated marker in acute myeloid leukemia. Consequently, detailed knowledge of the various normal cell types expressing this receptor is essential. We have observed CLEC12A to be expressed on CD45lowSSClowCD14-CD123+ basophils in peripheral blood (PB) and in the present study, we aimed at verifying this observation and further delineate the CD45lowSSClowCD14-CD123+CLEC12A+ subpopulation...
July 17, 2017: Cytometry. Part B, Clinical Cytometry
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