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https://www.readbyqxmd.com/read/29233928/integrated-molecular-characterization-of-the-lethal-pediatric-cancer-pancreatoblastoma
#1
Tomoya Isobe, Masafumi Seki, Kenichi Yoshida, Masahiro Sekiguchi, Yusuke Shiozawa, Yuichi Shiraishi, Shunsuke Kimura, Misa Yoshida, Yoshikage Inoue, Akira Yokoyama, Nobuyuki Kakiuchi, Hiromichi Suzuki, Keisuke Kataoka, Yusuke Sato, Tomoko Kawai, Kenichi Chiba, Hiroko Tanaka, Teppei Shimamura, Motohiro Kato, Akihiro Iguchi, Asahito Hama, Tomoaki Taguchi, Masaharu Akiyama, Junya Fujimura, Akiko Inoue, Tsuyoshi Ito, Takao Deguchi, Chikako Kiyotani, Tomoko Iehara, Hajime Hosoi, Akira Oka, Masashi Sanada, Yukichi Tanaka, Kenichiro Hata, Satoru Miyano, Seishi Ogawa, Junko Takita
Pancreatoblastoma (PBL) is a rare pediatric pancreatic malignancy for which the molecular pathogenesis is not understood. In this study, we report the findings of an integrated multi-omics study of whole exome and RNA sequencing as well as genome-wide copy number and methylation analyses of 10 PBL cases. The PBL genome was characterized by a high frequency of aberrant activation of the Wnt signaling pathway, either via somatic mutations of CTNNB1 (90%) and copy-neutral loss of heterozygosity (CN-LOH) of APC (10%)...
December 12, 2017: Cancer Research
https://www.readbyqxmd.com/read/29232995/tissue-imaging-with-in-situ-solid-phase-extraction-micro-funnel-based-spray-ionization-mass-spectrometry
#2
Wan Li, Xiangfeng Chen, Ze Wang, Yl Elaine Wong, Ri Wu, Y-L Winnie Hung, T-W Dominic Chan
Current imaging mass spectrometry techniques are faced with a major challenge related to ion suppression effect. Data regarding low-abundance components or low-polarity compounds cannot be normally obtained presumably because of the discrimination effect of easily ionized chemical components on desorption/ionization process. In this study, a new method was proposed to obtain images of chemical components in biological tissues or sections through in situ solid-phase extraction in sorbent mounted micro-funnel based spray ionization mass spectrometry...
January 1, 2017: European Journal of Mass Spectrometry
https://www.readbyqxmd.com/read/29231989/sexual-imprinting-and-speciation-in-two-peromyscus-species
#3
E K Delaney, H E Hoekstra
Sexual isolation, a reproductive barrier, can prevent interbreeding between diverging populations or species. Sexual isolation can have a clear genetic basis; however, it may also result from learned mate preferences that form via sexual imprinting. Here, we demonstrate that two sympatric species of mice-the white-footed mouse (Peromyscus leucopus) and its sister species, the cotton mouse (P. gossypinus)-hybridize only rarely in the wild despite co-occurrence in the same habitat and lack of any measurable intrinsic postzygotic barriers in laboratory crosses...
December 12, 2017: Evolution; International Journal of Organic Evolution
https://www.readbyqxmd.com/read/29231701/programmable-and-shape-memorizing-information-carriers
#4
Wenbing Li, Yanju Liu, Jinsong Leng
Shape memory polymers (SMPs) are expected to play more and more important roles in space-deployable structures, smart actuators, and other high-tech areas. Nevertheless, because of the difficulties in fabrication and the programmability of temporary shape recovery, SMPs have not yet been widely applied in real fields. It is ideal to incorporate the different independent functional building blocks into a material. Herein, we designed a simple method to incorporate four functional building blocks: a neat epoxy-based shape memory (neat SMEP) resin, an SMEP composited with Fe3O4 (SMEP-Fe3O4), an SMEP composited with multiwalled carbon nanotubes, and an SMEP composited with p-aminodiphenylimide into a multicomposite, in which the four region surfaces could be programmed with different language code patterns according to a preset command by imprint lithography...
December 12, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29231444/-analysis-on-property-of-meridian-supramolecules-by-biological-evolution-path
#5
Kaiwen Deng, Yeqin Tao, Wenhan Tang, Fuyuan He, Wenlong Liu, Jilian Shi, Yantao Yang, Yiqun Zhou, Xiaorong Chang
With human placed in the whole nature, by following the biologic evolution path, the property of channel structure for "imprinting template" in meridian and zang-fu was explored with supramolecular chemistry. In the history of biologic evolution, each molecule in "molecule society" gradually developed into various highly-ordered supramolecular bodies based on self-identification, self-assembly, self-organization, self-replicating of"imprinting template", and thereby the original biochemical system was established, and finally evolved into human...
March 12, 2017: Zhongguo Zhen Jiu, Chinese Acupuncture & Moxibustion
https://www.readbyqxmd.com/read/29228278/zinc-finger-protein-274-regulates-imprinted-expression-of-transcripts-in-prader-willi-syndrome-neurons
#6
Maéva Langouët, Heather R Glatt-Deeley, Michael S Chung, Clémence M Dupont-Thibert, Elodie Mathieux, Erin C Banda, Christopher E Stoddard, Leann Crandall, Marc Lalande
Prader-Willi syndrome (PWS) is characterized by neonatal hypotonia, developmental delay and hyperphagia/obesity and is caused by the absence of paternal contribution to chromosome 15q11-q13. Using induced pluripotent stem cell (iPSC) models of PWS, we previously discovered an epigenetic complex that is comprised of the zinc-finger protein ZNF274 and the SET domain bifurcated 1 (SETDB1) histone H3 lysine 9 (H3K9) methyltransferase and that silences the maternal alleles at the PWS locus. Here, we have knocked out ZNF274 and rescued the expression of silent maternal alleles in neurons derived from PWS iPSC lines, without affecting DNA methylation at the PWS-Imprinting Center (PWS-IC)...
December 7, 2017: Human Molecular Genetics
https://www.readbyqxmd.com/read/29228031/transcriptional-profiling-of-pbmcs-unravels-b-cell-mediated-immunopathogenic-imprints-of-hcv-vasculitis
#7
Emily Comstock, Cheol-Woo Kim, Alison Murphy, Benjamin Emmanuel, Xi Zhang, Michael Sneller, Bhawna Poonia, Shyamasundaran Kottilil
B cell depletion therapy using rituximab has been shown to be effective in achieving remission in patients with HCV-mixed cryoglobulinemic (MC) vasculitis. Previously, we have demonstrated abnormalities in peripheral immune cells involving neutrophils, chemotaxis, and innate immune activation among patients with HCV-MC vasculitis when compared to HCV patients without vasculitis. In this study, we evaluated the effect of B cell depletion therapy on transcriptional profiles of peripheral blood mononuclear cells before and after riruximab therapy, in order to unravel the pathogenic mechanism involved in HCV-MC vasculitis induced by abnormal B cell proliferation...
2017: PloS One
https://www.readbyqxmd.com/read/29227632/a-soluble-molecularly-imprinted-polymer-based-potentiometric-sensor-for-determination-of-bisphenol-af
#8
Huan Zhang, Ruiqing Yao, Ning Wang, Rongning Liang, Wei Qin
Molecularly imprinted polymer (MIP)-based polymeric membrane potentiometric sensors have been successfully developed for determination of organic compounds in their ionic and neutral forms. However, most of the MIP receptors in potentiometric sensors developed so far are insoluble and cannot be well dissolved in the polymeric membranes. The heterogeneous molecular recognitions between the analytes and MIPs in the membranes are inefficient due to the less available binding sites of the MIPs. Herein we describe a novel polymeric membrane potentiometric sensor using a soluble MIP (s-MIP) as a receptor...
December 11, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29226605/selective-coassembly-of-aromatic-amino-acids-to-fabricate-hydrogels-with-light-irradiation-induced-emission-for-fluorescent-imprint
#9
Pengyao Xing, Hongzhong Chen, Huijing Xiang, Yanli Zhao
Controlling the structural parameters in coassembly is crucial for the fabrication of multicomponent functional materials. Here a proof-of-concept study is presented to reveal the α-substituent effect of aromatic amino acids on their selective coassembly with bipyridine binders. With the assistance of X-ray scattering technique, it is found that individual packing in the solid state as well as bulky effect brought by α-substitution determines the occurrence of coassembly. A well-performed hydrogels based on the complexation between certain aromatic amino acids and bipyridine units are successfully constructed, providing unprecedented smart materials with light irradiation-triggered luminescence...
December 11, 2017: Advanced Materials
https://www.readbyqxmd.com/read/29225217/molecularly-imprinted-materials-in-analytical-chemistry
#10
Takuya Kubo
No abstract text is available yet for this article.
2017: Analytical Sciences: the International Journal of the Japan Society for Analytical Chemistry
https://www.readbyqxmd.com/read/29224336/chemical-imprinting-of-crystalline-silicon-with-catalytic-metal-stamp-in-etch-bath
#11
Bugeun Ki, Yunwon Song, Keorock Choi, Jung Hwan Yum, Jungwoo Oh
Conventional lithography using photons and electrons continues to evolve to scale down three-dimensional (3D) nanoscale patterns, but the complexity of technology and equipment is increasing due to diffraction and scattering problems. Physical contact lithography methods, such as nanoimprint and soft lithography, have been developed as an alternative technique. These techniques imprint predefined structures on a stamp to the polymer resist and use the polymer resist as a mask to dry etch the nanostructure on the substrate...
December 10, 2017: ACS Nano
https://www.readbyqxmd.com/read/29224163/methylation-sensitive-high-resolution-melting-ms-hrm
#12
Dianna Hussmann, Lise Lotte Hansen
Methylation-Sensitive High Resolution Melting (MS-HRM) is an in-tube, PCR-based method to detect methylation levels at specific loci of interest. A unique primer design facilitates a high sensitivity of the assays enabling detection of down to 0.1-1% methylated alleles in an unmethylated background.Primers for MS-HRM assays are designed to be complementary to the methylated allele, and a specific annealing temperature enables these primers to anneal both to the methylated and the unmethylated alleles thereby increasing the sensitivity of the assays...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29224162/methylation-specific-multiplex-ligation-dependent-probe-amplification-ms-mlpa
#13
Cathy B Moelans, Lilit Atanesyan, Suvi P Savola, Paul J van Diest
This chapter describes a method for the rapid assessment of promoter hypermethylation levels or methylation of imprinted regions in human genomic DNA extracted from various sources using methylation-specific multiplex ligation-dependent probe amplification (MS-MLPA). Multiplex ligation-dependent probe amplification (MLPA) is a powerful and easy-to-perform PCR-based technique that can identify gains, amplifications, losses, deletions, methylation and mutations of up to 55 targets in a single reaction, while requiring only minute quantities of DNA (about 50 ng) extracted from blood, fresh frozen or formalin-fixed paraffin-embedded materials...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29224155/targeted-bisulfite-sequencing-using-the-seqcap-epi-enrichment-system
#14
Jennifer Wendt, Heidi Rosenbaum, Todd A Richmond, Jeffrey A Jeddeloh, Daniel L Burgess
Cytosine methylation has been shown to have a role in a host of biological processes. In mammalian biology these include stem cell differentiation, embryonic development, genomic imprinting, inflammation, and silencing of transposable elements. Given the central importance of these processes, it is not surprising to find aberrant cytosine methylation patterns associated with many disorders in humans, including cancer, cardiovascular disease, and neurological disease. While whole genome shotgun bisulfite sequencing (WGBS) has recently become feasible, generating high sequence coverage data for the entire genome is expensive, both in terms of money and analysis time, when generally only a small subset of the genome is of interest to most researchers...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29224136/a-summary-of-the-biological-processes-disease-associated-changes-and-clinical-applications-of-dna-methylation
#15
Gitte Brinch Andersen, Jörg Tost
DNA methylation at cytosines followed by guanines, CpGs, forms one of the multiple layers of epigenetic mechanisms controlling and modulating gene expression through chromatin structure. It closely interacts with histone modifications and chromatin remodeling complexes to form the local genomic and higher-order chromatin landscape. DNA methylation is essential for proper mammalian development, crucial for imprinting and plays a role in maintaining genomic stability. DNA methylation patterns are susceptible to change in response to environmental stimuli such as diet or toxins, whereby the epigenome seems to be most vulnerable during early life...
2018: Methods in Molecular Biology
https://www.readbyqxmd.com/read/29223973/chromosomal-rearrangements-in-the-11p15-imprinted-region-17-new-11p15-5-duplications-with-associated-phenotypes-and-putative-functional-consequences
#16
Solveig Heide, Sandra Chantot-Bastaraud, Boris Keren, Madeleine D Harbison, Salah Azzi, Sylvie Rossignol, Caroline Michot, Marilyn Lackmy-Port Lys, Bénédicte Demeer, Claudine Heinrichs, Ron S Newfield, Pierre Sarda, Lionel Van Maldergem, Véronique Trifard, Eloise Giabicani, Jean-Pierre Siffroi, Yves Le Bouc, Irène Netchine, Frédéric Brioude
BACKGROUND: The 11p15 region contains two clusters of imprinted genes. Opposite genetic and epigenetic anomalies of this region result in two distinct growth disturbance syndromes: Beckwith-Wiedemann (BWS) and Silver-Russell syndromes (SRS). Cytogenetic rearrangements within this region represent less than 3% of SRS and BWS cases. Among these, 11p15 duplications were infrequently reported and interpretation of their pathogenic effects is complex. OBJECTIVES: To report cytogenetic and methylation analyses in a cohort of patients with SRS/BWS carrying 11p15 duplications and establish genotype/phenotype correlations...
December 9, 2017: Journal of Medical Genetics
https://www.readbyqxmd.com/read/29221996/vitrification-not-cryoprotectant-exposure-alters-the-expression-of-developmentally-important-genes-in-in-vitro-produced-porcine-blastocysts
#17
Louise K Bartolac, Jenna L Lowe, George Koustas, Christopher G Grupen, Cecilia Sjöblom
The vitrification of embryos is common practice in advanced livestock breeding programs and in human fertility clinics. Recent studies have revealed that vitrification results in aberrant expression of a number of stress related genes. However, few studies have examined the effect that vitrification has on developmentally important genes, and none have been conducted in porcine embryos. The aim of this study was to determine the effects that different vitrification procedures and cryoprotectant combinations have on the expression of imprinted genes in in vitro produced (IVP) porcine blastocysts...
December 5, 2017: Cryobiology
https://www.readbyqxmd.com/read/29221868/influence-of-hydrogen-bond-accepting-ability-of-anions-on-the-adsorption-performance-of-ionic-liquid-surface-molecularly-imprinted-polymers
#18
Guifen Zhu, Xia Gao, Xiaolong Wang, Jianji Wang, Jing Fan
To illuminate the influence mechanism of anionic structure of ionic liquids (ILs) on the adsorption performance of surface molecularly imprinted polymers (MIPs), in this work, six newly designed MIPs were prepared on the surface of amino-poly(styrene-divinylbenzene) particles by using imidazolium ILs with the same cation [C4mim]+ but different anions (Cl, CH3SO3, PF6, BF4, C4F7O2, C4F9SO3) as template molecules, methacrylic acid as functional monomer, and ethylene dimethacrylate as cross-linker. The resulting MIP materials were characterized by IR and SEM, and the influence of hydrogen bond accepting ability of anions on the adsorption performance of the MIPs for the ILs was investigated in acetonitrile...
November 26, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/29221096/high-resolution-beam-profiling-of-x-ray-free-electron-laser-radiation-by-polymer-imprint-development
#19
Benedikt Rösner, Florian Döring, Primož R Ribič, David Gauthier, Emiliano Principi, Claudio Masciovecchio, Marco Zangrando, Joan Vila-Comamala, Giovanni De Ninno, Christian David
High resolution metrology of beam profiles is presently a major challenge at X-ray free electron lasers. We demonstrate a characterization method based on beam imprints in poly (methyl methacrylate). By immersing the imprints formed at 47.8 eV into organic solvents, the regions exposed to the beam are removed similar to resist development in grayscale lithography. This allows for extending the sensitivity of the method by more than an order of magnitude compared to the established analysis of imprints created solely by ablation...
November 27, 2017: Optics Express
https://www.readbyqxmd.com/read/29221078/enhancement-of-the-depth-of-field-of-integral-imaging-microscope-by-using-switchable-bifocal-liquid-crystalline-polymer-micro-lens-array
#20
Ki-Chul Kwon, Munkh-Uchral Erdenebat, Young-Tae Lim, Kyung-Il Joo, Min-Kyu Park, Heewon Park, Jong-Rae Jeong, Hak-Rin Kim, Nam Kim
An integral imaging microscopy (IIM) system with improved depth-of-field (DoF) using a custom-designed bifocal polarization-dependent liquid-crystalline polymer micro lens array (LCP-MLA) is proposed. The implemented MLA has improved electro-optical properties such as a small focal ratio, high fill factor, low driving voltage, and fast switching speed, utilizing a well-aligned reactive mesogen on the imprinted reverse shape of the lens and a polarization switching layer. A bifocal MLA switches its focal length according to the polarization angle and acquires different DoF information of the specimen...
November 27, 2017: Optics Express
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