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https://www.readbyqxmd.com/read/27933526/epigenetics-and-control-of-rnas
#1
Henrike Maatz, Sebastiaan van Heesch, Franziska Kreuchwig, Allison Faber, Eleonora Adami, Norbert Hubner, Matthias Heinig
Histone modifications are epigenetic marks that fundamentally impact the regulation of gene expression. Integrating histone modification information in the analysis of gene expression traits (eQTL mapping) has been shown to significantly enhance the prediction of eQTLs. In this chapter, we describe (1) how to perform quantitative trait locus (QTL) analysis using histone modification levels as traits and (2) how to integrate these data with information on RNA expression for the elucidation of the epigenetic control of transcript levels...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27930647/allelic-variation-in-cxcl16-determines-cd3-t-lymphocyte-susceptibility-to-equine-arteritis-virus-infection-and-establishment-of-long-term-carrier-state-in-the-stallion
#2
Sanjay Sarkar, Ernest Bailey, Yun Young Go, R Frank Cook, Ted Kalbfleisch, John Eberth, R Lakshman Chelvarajan, Kathleen M Shuck, Sergey Artiushin, Peter J Timoney, Udeni B R Balasuriya
Equine arteritis virus (EAV) is the causative agent of equine viral arteritis (EVA), a respiratory, systemic, and reproductive disease of horses and other equid species. Following natural infection, 10-70% of the infected stallions can become persistently infected and continue to shed EAV in their semen for periods ranging from several months to life. Recently, we reported that some stallions possess a subpopulation(s) of CD3+ T lymphocytes that are susceptible to in vitro EAV infection and that this phenotypic trait is associated with long-term carrier status following exposure to the virus...
December 2016: PLoS Genetics
https://www.readbyqxmd.com/read/27929589/news-from-the-lab-on-a-chip-editors
#3
EDITORIAL
(no author information available yet)
No abstract text is available yet for this article.
December 8, 2016: Lab on a Chip
https://www.readbyqxmd.com/read/27929582/liquid-biopsy-on-chip-a-paradigm-shift-towards-the-understanding-of-cancer-metastasis
#4
REVIEW
Amogha Tadimety, Abeer Syed, Yuan Nie, Christina R Long, Kasia M Kready, John X J Zhang
This comprehensive review serves as a guide for developing scalable and robust liquid biopsies on chip for capture, detection, and analysis of circulating tumor cells (CTCs). Liquid biopsy, the detection of biomarkers from body fluids, has proven challenging because of CTC rarity and the heterogeneity of CTCs shed from tumors. The review starts with the underlying biological mechanisms that make liquid biopsy a challenge before moving into an evaluation of current technological progress. Then, a framework for evaluation of the technologies is presented with special attention to throughput, capture rate, and cell viability for analysis...
December 8, 2016: Integrative Biology: Quantitative Biosciences From Nano to Macro
https://www.readbyqxmd.com/read/27929401/electrical-impedance-monitoring-of-c2c12-myoblast-differentiation-on-an-indium-tin-oxide-electrode
#5
Ilhwan Park, Yeonhee Hong, Young-Hoo Jun, Ga-Yeon Lee, Hee-Sook Jun, Jae-Chul Pyun, Jeong-Woo Choi, Sungbo Cho
Electrical cell-substrate impedance sensing is increasingly being used for label-free and real-time monitoring of changes in cell morphology and number during cell growth, drug screening, and differentiation. In this study, we evaluated the feasibility of using ECIS to monitor C2C12 myoblast differentiation using a fabricated indium tin oxide (ITO) electrode-based chip. C2C12 myoblast differentiation on the ITO electrode was validated based on decreases in the mRNA level of MyoD and increases in the mRNA levels of myogenin and myosin heavy chain (MHC)...
December 5, 2016: Sensors
https://www.readbyqxmd.com/read/27927582/clonal-haemopoiesis-and-therapy-related-myeloid-malignancies-in-elderly-patients-a-proof-of-concept-case-control-study
#6
Nancy K Gillis, Markus Ball, Qing Zhang, Zhenjun Ma, YuLong Zhao, Sean J Yoder, Maria E Balasis, Tania E Mesa, David A Sallman, Jeffrey E Lancet, Rami S Komrokji, Alan F List, Howard L McLeod, Melissa Alsina, Rachid Baz, Kenneth H Shain, Dana E Rollison, Eric Padron
BACKGROUND: Clonal haemopoiesis of indeterminate potential (CHIP) is an age-associated genetic event linked to increased risk of primary haematological malignancies and increased all-cause mortality, but the prevalence of CHIP in patients who develop therapy-related myeloid neoplasms is unknown. We did this study to investigate whether chemotherapy-treated patients with cancer who have CHIP are at increased risk of developing therapy-related myeloid neoplasms. METHODS: We did a nested, case-control, proof-of-concept study to compare the prevalence of CHIP between patients with cancer who later developed therapy-related myeloid neoplasms (cases) and patients who did not develop these neoplasms (controls)...
December 2, 2016: Lancet Oncology
https://www.readbyqxmd.com/read/27927209/coordinated-inhibition-of-c-ebp-by-tribbles-in-multiple-tissues-is-essential-for-caenorhabditis-elegans-development
#7
Kyung Won Kim, Nishant Thakur, Christopher A Piggott, Shizue Omi, Jolanta Polanowska, Yishi Jin, Nathalie Pujol
BACKGROUND: Tribbles proteins are conserved pseudokinases that function to control kinase signalling and transcription in diverse biological processes. Abnormal function in human Tribbles has been implicated in a number of diseases including leukaemia, metabolic syndromes and cardiovascular diseases. Caenorhabditis elegans Tribbles NIPI-3 was previously shown to activate host defense upon infection by promoting the conserved PMK-1/p38 mitogen-activated protein kinase (MAPK) signalling pathway...
December 7, 2016: BMC Biology
https://www.readbyqxmd.com/read/27926946/a-multi-verse-optimizer-with-levy-flights-for-numerical-optimization-and-its-application-in-test-scheduling-for-network-on-chip
#8
Cong Hu, Zhi Li, Tian Zhou, Aijun Zhu, Chuanpei Xu
We propose a new meta-heuristic algorithm named Levy flights multi-verse optimizer (LFMVO), which incorporates Levy flights into multi-verse optimizer (MVO) algorithm to solve numerical and engineering optimization problems. The Original MVO easily falls into stagnation when wormholes stochastically re-span a number of universes (solutions) around the best universe achieved over the course of iterations. Since Levy flights are superior in exploring unknown, large-scale search space, they are integrated into the previous best universe to force MVO out of stagnation...
2016: PloS One
https://www.readbyqxmd.com/read/27926873/foxa1-directs-h3k4-monomethylation-at-enhancers-via-recruitment-of-the-methyltransferase-mll3
#9
Kamila M Jozwik, Igor Chernukhin, Aurelien A Serandour, Sankari Nagarajan, Jason S Carroll
FOXA1 is a pioneer factor that binds to enhancer regions that are enriched in H3K4 mono- and dimethylation (H3K4me1 and H3K4me2). We performed a FOXA1 rapid immunoprecipitation mass spectrometry of endogenous proteins (RIME) screen in ERα-positive MCF-7 breast cancer cells and found histone-lysine N-methyltransferase (MLL3) as the top FOXA1-interacting protein. MLL3 is typically thought to induce H3K4me3 at promoter regions, but recent findings suggest it may contribute to H3K4me1 deposition. We performed MLL3 chromatin immunoprecipitation sequencing (ChIP-seq) in breast cancer cells, and MLL3 was shown to occupy regions marked by FOXA1 occupancy and H3K4me1 and H3K4me2...
December 6, 2016: Cell Reports
https://www.readbyqxmd.com/read/27926531/an-annotated-list-of-bivalent-chromatin-regions-in-human-es-cells-a-new-tool-for-cancer-epigenetic-research
#10
Franck Court, Philippe Arnaud
CpG islands (CGI) marked by bivalent chromatin in stem cells are believed to be more prone to aberrant DNA methylation in tumor cells. The robustness and genome-wide extent of this instructive program in different cancer types remain to be determined. To address this issue we developed a user-friendly approach to integrate the stem cell chromatin signature in customized DNA methylation analyses. We used publicly available ChIP-sequencing datasets of several human embryonic stem cell (hESC) lines to determine the extent of bivalent chromatin genome-wide...
December 1, 2016: Oncotarget
https://www.readbyqxmd.com/read/27926517/suberoylanilide-hydroxamic-acid-induced-specific-epigenetic-regulation-controls-leptin-induced-proliferation-of-breast-cancer-cell-lines
#11
Xiuyan Feng, Han Han, Dan Zou, Jiaming Zhou, Weiqiang Zhou
Breast cancer is one of the most common malignancies among women in the world, investigating the characteristics and special transduction pathways is important for better understanding breast development and tumorigenesis. Leptin, a peptide hormone secreted from white adipocytes, may be an independent risk factor for breast cancer.Here, we treated suberoylanilide hydroxamic acid (SAHA) on Leptin-induced cell proliferation and invasion in the estrogen-receptor-positive breast cancer cell line MCF-7 and triple-negative breast cancer cell line MDA-MB-231...
December 1, 2016: Oncotarget
https://www.readbyqxmd.com/read/27925458/an-engineered-breast-cancer-model-on-a-chip-to-replicate-ecm-activation-in-vitro-during-tumor-progression
#12
Filomena Gioiella, Francesco Urciuolo, Giorgia Imparato, Virginia Brancato, Paolo A Netti
In this work, a new model of breast cancer is proposed featuring both epithelial and stromal tissues arranged on a microfluidic chip. The main task of the work is the in vitro replication of the stromal activation during tumor epithelial invasion. The activation of tumor stroma and its morphological/compositional changes play a key role in tumor progression. Despite emerging evidences, to date the activation of tumor stroma in vitro has not been achieved yet. The tumor-on-chip proposed in this work is built in order to replicate the features of its native counterpart: multicellularity (tumor epithelial cell and stromal cell); 3D engineered stroma compartment composed of cell-assembled extracellular matrix (ECM); reliable 3D tumor architecture...
December 2016: Advanced Healthcare Materials
https://www.readbyqxmd.com/read/27925418/white-light-emitting-carbon-dots-prepared-by-the-electrochemical-exfoliation-of-graphite
#13
Aji A Anappara, Julin Joseph
Here we report single-step synthesis of white-light emitting carbon dots (CDs) through a green, facile and cheap electrochemical route using graphite rods as the carbon source. Under UV-excitation, the aqueous dispersion of as-synthesized CDs exhibited broad-band emission which covers a significant fraction of visible spectrum; owing to the heterogeneity in the particle-size and surface-functional groups. The CDs were further explored for their potential as UV-to-visible color-convertor under remote-phosphor technology by capping a 365 nm UV-LED chip with CDs-loaded PMMA to obtain color parameters: CIE (0...
December 7, 2016: Chemphyschem: a European Journal of Chemical Physics and Physical Chemistry
https://www.readbyqxmd.com/read/27925372/cyp19a1-mif-and-abca1-genes-are-targets-of-the-ror%C3%AE-in-monocyte-and-endothelial-cells
#14
Neslihan Coban, Cagri Gulec, Bilge Ozsait Selcuk, Nihan Erginel-Unaltuna
RORα is a member of nuclear receptor superfamily of transcription factors which has a vital role in the regulation of various physiological processes. Cholesterol is a known ligand of RORα and is one of the key components that take part in cardiovascular diseases such as atherosclerosis. Therefore, it is possible that RORα might have a role in the development of atherosclerosis. To test this hypothesis, we investigated the presence of novel RORα response elements (ROREs) located in the promoter of CYP19A1, MIF and ABCA1 genes...
December 7, 2016: Cell Biology International
https://www.readbyqxmd.com/read/27925296/metal-organic-framework-as-a-protective-coating-for-biodiagnostic-chips
#15
Congzhou Wang, Sirimuvva Tadepalli, Jingyi Luan, Keng-Ku Liu, Jeremiah J Morrissey, Evan D Kharasch, Rajesh R Naik, Srikanth Singamaneni
A zeolitic imidazolate framework-8 (ZIF-8) grown around antibodies anchored to plasmonic nanostructures serve as a protective layer to preserve the biorecognition ability of antibodies stored at room and elevated temperatures for several days. The biofunctionality of the ZIF-8 protected biochip can be restored by a simple water rinsing step, making it highly convenient for use in point-of-care and resource-limited settings.
December 7, 2016: Advanced Materials
https://www.readbyqxmd.com/read/27925100/strategies-for-thirst-relief-integrative-literature-review
#16
Aline Korki Arrabal Garcia, Lígia Fahl Fonseca, Patricia Aroni, Cristina Maria Galvão
Objective: to analyze the strategies used to relieve the thirst of hospitalized patients. Method: an integrative review, for which the databases PubMed, LILACS, CINAHL and the group of references organized by the Group for Study and Research of Thirst were selected for the search of primary studies, with the keywords: thirst, ice, cold, intervention, nursing care, artificial saliva. Results: the review sample was composed of ten primary studies...
November 2016: Revista Brasileira de Enfermagem
https://www.readbyqxmd.com/read/27924973/selection-of-aptamers-based-on-a-protein-microarray-integrated-with-a-microfluidic-chip
#17
Xiaohui Liu, Hui Li, Wenchao Jia, Zhu Chen, Danke Xu
We developed an efficient and fast method based on a protein microarray integrated with a microfluidic chip for the process of SELEX (systematic evolution of ligands by exponential enrichment). Lactoferrin from bovine milk was used as a target protein, while bovine serum albumin (BSA), α-lactalbumin, β-lactoglobulin and casein were used as negative proteins. They were separately dotted and immobilized to prepare the protein microarray and the resulting microarray was further integrated into a microfluidic chip for the SELEX (PMM-SELEX) process...
December 7, 2016: Lab on a Chip
https://www.readbyqxmd.com/read/27924971/highly-effective-synthesis-of-a-cobalt-ii-metal-organic-coordination-polymer-by-using-continuous-flow-chemistry
#18
Chunhua Gong, Junyong Zhang, Xianghua Zeng, Jingli Xie
The coordination polymer [Co2L4(H2O)2]·CH3CN·H2O (HL = (E)-2-[2-(4-chlorophenyl)vinyl]-8-hydroxyquinoline) has been achieved with 95% yield by using an Asia flow synthesis system (chip reactor). Compared with the conventional batch-type methods such as diffusion, reflux and solvothermal reactions, higher yielding reactions carried out in a flow reactor have demonstrated that this technique is a powerful strategy to obtain coordination compounds.
December 7, 2016: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/27924576/probing-chromatin-modifications-in-response-to-erk-signaling
#19
Ozgur Oksuz, Wee-Wei Tee
Chromatin immunoprecipitation (ChIP) is a technique used to determine the association of proteins or histone modifications with chromatin regions in living cells or tissues, and is used extensively in the chromatin biology field to study transcriptional and epigenetic mechanisms. Increasing evidence points to an epigenetic coordination of signaling cascades, such as ERK, that regulate key processes in development and disease, revealing novel principles of gene regulation. Here we describe a detailed protocol for performing chromatin immunoprecipitation followed by qPCR (ChIP-qPCR) for probing histone modifications regulated by ERK signaling in mouse ESCs...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27924227/otx2-impedes-self-renewal-of-porcine-ips-cells-through-downregulation-of-nanog-expression
#20
Ning Wang, Yaxian Wang, Youlong Xie, Huayan Wang
The transcription factor Otx2 acts as a negative switch in the regulation of transition from naive to primed pluripotency in mouse pluripotent stem cells. However, the molecular features and function of porcine OTX2 have not been well elucidated in porcine-induced pluripotent stem cells (piPSCs). By studying high-throughput transcriptome sequencing and interfering endogenous OTX2 expression, we demonstrate that OTX2 is able to downgrade the self-renewal of piPSCs. OTX2 is highly expressed in porcine brain, reproductive tissues, and preimplantation embryos, but is undetectable in fibroblasts and most somatic tissues...
2016: Cell Death Discovery
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