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https://www.readbyqxmd.com/read/29141034/structure-of-the-human-chromosome-interaction-network
#1
Sergio Sarnataro, Andrea M Chiariello, Andrea Esposito, Antonella Prisco, Mario Nicodemi
New Hi-C technologies have revealed that chromosomes have a complex network of spatial contacts in the cell nucleus of higher organisms, whose organisation is only partially understood. Here, we investigate the structure of such a network in human GM12878 cells, to derive a large scale picture of nuclear architecture. We find that the intensity of intra-chromosomal interactions is power-law distributed. Inter-chromosomal interactions are two orders of magnitude weaker and exponentially distributed, yet they are not randomly arranged along the genomic sequence...
2017: PloS One
https://www.readbyqxmd.com/read/29140467/genomic-prediction-in-a-nuclear-population-of-layers-using-single-step-models
#2
Yiyuan Yan, Guiqin Wu, Aiqiao Liu, Congjiao Sun, Wenpeng Han, Guangqi Li, Ning Yang
Single-step genomic prediction method has been proposed to improve the accuracy of genomic prediction by incorporating information of both genotyped and ungenotyped animals. The objective of this study is to compare the prediction performance of single-step model with a 2-step models and the pedigree-based models in a nuclear population of layers. A total of 1,344 chickens across 4 generations were genotyped by a 600 K SNP chip. Four traits were analyzed, i.e., body weight at 28 wk (BW28), egg weight at 28 wk (EW28), laying rate at 38 wk (LR38), and Haugh unit at 36 wk (HU36)...
November 11, 2017: Poultry Science
https://www.readbyqxmd.com/read/29139392/-myonuclear-domain-and-microtubule-proteome-during-skeletal-muscle-maturation
#3
Nathalie Couturier, Vincent Gache
In the normal course of muscle fiber development, myonuclei actively position and adapt a precise localization in mature fibers, shaping MyoNuclear Domains (MNDs). Myonuclei positioning in fibers appears to be essential for muscle function as defects in MNDs settings are always associated with dysfunction (i.e., centronuclear myopathy, sarcopenia). Previous studies have shown that myonuclei positioning in fibers is reversible, suggesting that in pathologies presenting MNDs impairment, myonuclei could be re-addressed to the "correct" position in fibers and this could benefit to muscle function...
November 2017: Médecine Sciences: M/S
https://www.readbyqxmd.com/read/29138998/crafting-socialist-embryology-dialectics-aquaculture-and-the-diverging-discipline-in-maoist-china-1950-1965
#4
Lijing Jiang
In the 1950s, embryology in socialist China underwent a series of changes that adjusted the disciplinary apparatus to suit socialism and the national goal of self-reliance. As the Communist state called on scientists to learn from the Soviets, embryologists' comprehensive view on heredity, which did not contradict Trofim Lysenko (1898-1976)'s doctrines, provided a space for them to advance their discipline. Leading scientists, often trained abroad in the tradition of experimental embryology, rode on the tides of Maoist ideology and repositioned their research...
November 7, 2017: History and Philosophy of the Life Sciences
https://www.readbyqxmd.com/read/29137326/overexpression-of-carbonic-anhydrase-ix-induces-cell-motility-by-activating-matrix-metalloproteinase-9-in-human-oral-squamous-cell-carcinoma-cells
#5
Jia-Sin Yang, Chiao-Wen Lin, Yi-Hsien Hsieh, Ming-Hsien Chien, Chun-Yi Chuang, Shun-Fa Yang
Oral cancer is a solid malignant tumor that is prone to occur following hypoxia. There are no clear studies showing a link between hypoxia and oral carcinogenesis. Carbonic anhydrase IX (CAIX), which is a hypoxia-induced transmembrane protein, is highly expressed in various types of human cancer. However, the effects of CAIX on the metastasis of human oral cancer cells and the underlying molecular mechanisms have not been clarified. In this study, we observed that CAIX overexpression increased the migratory and invasive abilities of SCC-9 and SAS cells...
October 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/29137280/ppar%C3%AE-sumoylation-mediated-lipid-accumulation-in-lung-cancer
#6
Ai N H Phan, Vu T A Vo, Tuyen N M Hua, Min-Kyu Kim, Se-Young Jo, Jong-Whan Choi, Hyun-Won Kim, Jaekyoung Son, Young-Ah Suh, Yangsik Jeong
Metabolic reprogramming as a crucial emerging hallmark of cancer is critical for tumor cells to maintain cellular bioenergetics, biosynthesis and reduction/oxidation (REDOX) balance. Peroxisome proliferator-activated receptor gamma (PPARγ) is a nuclear hormone receptor regulating transcription of diverse gene sets involved in inflammation, metabolism, and suppressing tumor growth. Thiazolidinediones (TZDs), as selective PPARγ ligands, are insulin-sensitizing drugs widely prescribed for type 2 diabetic patients in the clinic...
October 10, 2017: Oncotarget
https://www.readbyqxmd.com/read/29136230/high-dose-tl-dosimetry-of-reactor-neutrons
#7
Barbara Obryk, Klaudia Malik, Pawel Bilski, Andrzej Igielski, Jan Dankowski, Arkadiusz Kurowski, Rafal Prokopowicz, Krzysztof Pytel
Radiation dose was measured with set of TL dosimeters during checkout of neutron radiation hardness of the ORTEC preamplifier type 142A in the experiment at the MARIA nuclear reactor at the National Centre for Nuclear Research (NCBJ), Otwock-Świerk, Poland. Different types of LiF-based TL detectors have been used for measurements in order to evaluate neutron and non-neutron components of the radiation field in the reactor channel during exposure and to check their relevancy for dose measurements in the reactor environment...
November 10, 2017: Radiation Protection Dosimetry
https://www.readbyqxmd.com/read/29136219/mobidb-3-0-more-annotations-for-intrinsic-disorder-conformational-diversity-and-interactions-in-proteins
#8
Damiano Piovesan, Francesco Tabaro, Lisanna Paladin, Marco Necci, Ivan Micetic, Carlo Camilloni, Norman Davey, Zsuzsanna Dosztányi, Bálint Mészáros, Alexander M Monzon, Gustavo Parisi, Eva Schad, Pietro Sormanni, Peter Tompa, Michele Vendruscolo, Wim F Vranken, Silvio C E Tosatto
The MobiDB (URL: mobidb.bio.unipd.it) database of protein disorder and mobility annotations has been significantly updated and upgraded since its last major renewal in 2014. Several curated datasets for intrinsic disorder and folding upon binding have been integrated from specialized databases. The indirect evidence has also been expanded to better capture information available in the PDB, such as high temperature residues in X-ray structures and overall conformational diversity. Novel nuclear magnetic resonance chemical shift data provides an additional experimental information layer on conformational dynamics...
November 10, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29135266/fast-metabolite-identification-in-nuclear-magnetic-resonance-metabolomic-studies-statistical-peak-sorting-and-peak-overlap-detection-for-more-reliable-database-queries
#9
Pablo A Hoijemberg, Istvan Pelczer
A lot of time is spent by researchers in the identification of metabolites in NMR-based metabolomic studies. The usual metabolite identification starts employing public or commercial databases to match chemical shifts thought to belong to a given compound. Statistical total correlation spectroscopy (STOCSY), in use for more than a decade, speeds the process by finding statistical correlations among peaks, being able to create a better peak list as input for the database query. However, the (normally not automated) analysis becomes challenging due to the intrinsic issue of peak overlap, where correlations of more than one compound appear in the STOCSY trace...
November 14, 2017: Journal of Proteome Research
https://www.readbyqxmd.com/read/29134133/monitoring-and-morphologic-classification-of-pediatric-cataract-using-slit-lamp-adapted-photography
#10
Erping Long, Zhuoling Lin, Jingjing Chen, Zhenzhen Liu, Qianzhong Cao, Haotian Lin, Weirong Chen, Yizhi Liu
Purpose: To investigate the feasibility of pediatric cataract monitoring and morphologic classification using slit lamp-adapted anterior segmental photography in a large cohort that included uncooperative children. Methods: Patients registered in the Childhood Cataract Program of the Chinese Ministry of Health were prospectively selected. Eligible patients underwent slit-lamp adapted anterior segmental photography to record and monitor the morphology of their cataractous lenses...
November 2017: Translational Vision Science & Technology
https://www.readbyqxmd.com/read/29132937/arsenic-exposure-during-embryonic-development-alters-the-expression-of-the-long-noncoding-rna-growth-arrest-specific-5-gas5-in-a-sex-dependent-manner
#11
Kevin K Caldwell, Alexander Hafez, Elizabeth Solomon, Matthew Cunningham, Andrea M Allan
Our previous studies suggest that prenatal arsenic exposure (50ppb) modifies epigenetic control of the programming of the glucocorticoid receptor (GR) signaling system in the developing mouse brain. These deficits may lead to long-lasting consequences, including deficits in learning and memory, increased depressive-like behaviors, and an altered set-point of GR feedback throughout life. To understand the arsenic-induced changes within the GR system, we assessed the impact of in utero arsenic exposure on the levels of the GR and growth arrest-specific-5 (Gas5), a noncoding RNA, across a key gestational period for GR programming (gestational days, GD 14-18) in mice...
November 10, 2017: Neurotoxicology and Teratology
https://www.readbyqxmd.com/read/29131856/examination-of-sarcocystis-spp-of-giant-snakes-from-australia-and-southeast-asia-confirms-presence-of-a-known-pathogen-sarcocystis-nesbitti
#12
Marion Wassermann, Lisa Raisch, Jessica Ann Lyons, Daniel James Deans Natusch, Sarah Richter, Mareike Wirth, Piyarat Preeprem, Yuvaluk Khoprasert, Sulaiman Ginting, Ute Mackenstedt, Thomas Jäkel
We examined Sarcocystis spp. in giant snakes from the Indo-Australian Archipelago and Australia using a combination of morphological (size of sporocyst) and molecular analyses. We amplified by PCR nuclear 18S rDNA from single sporocysts in order to detect mixed infections and unequivocally assign the retrieved sequences to the corresponding parasite stage. Sarcocystis infection was generally high across the study area, with 78 (68%) of 115 examined pythons being infected by one or more Sarcocystis spp. Among 18 randomly chosen, sporocyst-positive samples (11 from Southeast Asia, 7 from Northern Australia) the only Sarcocystis species detected in Southeast Asian snakes was S...
2017: PloS One
https://www.readbyqxmd.com/read/29127662/jnj7777120-ameliorates-inflammatory-and-oxidative-manifestations-in-a-murine-model-of-contact-hypersensitivity-via-modulation-of-tlr-and-nrf2-signaling
#13
Ahmed F Mohamed, Mohammed F El-Yamany, Fatma A El-Batrawy, Mohamed T Abdel-Aziz
JNJ7777120, a histamine H4 receptor antagonist, was shown to be effective in different experimental settings of allergic inflammation, including contact hypersensitivity. Toll-like receptors (TLRs) are thought to function as a link between innate and adaptive immune responses to various haptens. Here, we studied the suppression of TLR signaling as a possible mechanism by which JNJ7777120 exerts its anti-inflammatory effects against the chemical hapten, fluorescein isothiocyanate (FITC). The potential anti-oxidant effect of JNJ7777120 in this model was also examined...
November 10, 2017: Inflammation
https://www.readbyqxmd.com/read/29127023/interobserver-variation-among-pathologists-and-refinement-of-criteria-in-distinguishing-separate-primary-tumours-from-intrapulmonary-metastases-in-lung
#14
Andrew G Nicholson, Kathleen Torkko, Patrizia Viola, Edwina Duhig, Kim Geisinger, Alain C Borczuk, Kenzo Hiroshima, Ming S Tsao, Arne Warth, Sylvie Lantuejoul, Prudence A Russell, Erik Thunnissen, Alberto Marchevsky, Mari Mino-Kenudson, Mary Beth Beasley, Johan Botling, Sanja Dacic, Yasushi Yatabe, Masayuki Noguchi, William D Travis, Keith Kerr, Fred R Hirsch, Lucian R Chirieac, Ignacio I Wistuba, Andre Moreira, Jin-Haeng Chung, Teh Ying Chou, Lukas Bubendorf, Gang Chen, Giuseppe Pelosi, Claudia Poleri, Frank C Detterbeck, Wilbur A Franklin
Multiple tumor nodules (MTNs) are seen with increasing frequency in clinical practice. Based on the 2015 WHO classification of lung tumors, we assessed the reproducibility of the comprehensive histologic assessment (CHA) to distinguish second primary lung cancers (SPLC) from intrapulmonary metastases (IPM), looking for the most distinctive histological features. An international panel of lung pathologists reviewed a scanned sequential cohort of 126 tumors from 48 patients, recorded an agreed set of histologic features, including tumor typing and predominant pattern of adenocarcinoma, thereby opining whether the case was SPLC, IPM or a combination...
November 7, 2017: Journal of Thoracic Oncology
https://www.readbyqxmd.com/read/29126694/decay-data-for-the-positron-emission-tomography-imaging-radionuclide-124-i-a-ddep-evaluation
#15
B E Zimmerman
A new decay data evaluation for the positron emitting radionuclide (124)I has been performed using the Decay Data Evaluation Project (DDEP) methodology. New recommended values for the half-life, γ-ray emission probabilities, β(+) branching ratios, and other relevant nuclear and atomic data are provided. This paper provides a summary of the evaluation; the complete set of recommended data tables and detailed evaluator comments are available at the DDEP website.
October 31, 2017: Applied Radiation and Isotopes
https://www.readbyqxmd.com/read/29124643/characteristics-of-radiocesium-contaminations-in-mushrooms-after-the-fukushima-nuclear-accident-evaluation-of-the-food-monitoring-data-from-march-2011-to-march-2016
#16
Benedikt Prand-Stritzko, Georg Steinhauser
The monitoring inspection of food after the Fukushima nuclear accident (2011) was essential for ensuring food safety in Japan and reducing the adverse health effects due to incorporation of inacceptable amounts of radionuclides, in particular radiocesium ((134)Cs and (137)Cs). In this study, the mushroom fraction of the governmental data set of the first 5 years after the accident has been analyzed for contamination levels in mushrooms, in particular time trends and radioecological characteristics as well as associated health risks...
November 9, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/29124284/ca-2-nuclear-factor-of-activated-t-cells-signaling-is-enriched-in-early-onset-rectal-tumors-devoid-of-canonical-wnt-activation
#17
Raju Kumar, Ratheesh Raman, Viswakalyan Kotapalli, Swarnalata Gowrishankar, Saumyadipta Pyne, Jonathan R Pollack, Murali D Bashyam
Our previous extensive analysis revealed a significant proportion of early-onset colorectal tumors from India to be localized to the rectum in younger individuals and devoid of deregulated Wnt/β-catenin signaling. In the current study, we performed a comprehensive genome-wide analysis of clinically well-annotated microsatellite stable early-onset sporadic rectal cancer (EOSRC) samples. Results revealed extensive DNA copy number alterations in rectal tumors in the absence of deregulated Wnt/β-catenin signaling...
November 9, 2017: Journal of Molecular Medicine: Official Organ of the "Gesellschaft Deutscher Naturforscher und Ärzte"
https://www.readbyqxmd.com/read/29120119/cyclin-d1-ret-and-p27-expression-in-papillary-thyroid-microcarcinoma
#18
Ana Barić, Vinko Marković, Davor Eterović, Vladimir Bedeković, Mirko Kontić, Ljubica Juretić Kuščić, Valdi Pešutić Pisac, Ante Punda
Th e aim of the study was to determine the influence of RET, p27 and cyclin D1 on regional lymph node metastases in papillary microcarcinoma. The analysis included 70 patients with papillary thyroid microcarcinoma that underwent surgery at Split University Hospital Center between 1999 and 2001. Immunohistochemistry was performed on formalin-fixed, paraffin-embedded tissue by the RET, p27 and cyclin D1 antibodies. Quantification was based on the intensity and distribution of nuclear staining, dividing tumors into those that showed expression (expressors) and those that showed no expression (non-expressors)...
March 2017: Acta Clinica Croatica
https://www.readbyqxmd.com/read/29119645/high-sensitivity-of-fish-analysis-in-detecting-homozygous-smarcb1-deletions-in-poorly-differentiated-chordoma-a-clinicopathologic-and-molecular-study-of-9-cases
#19
Adepitan A Owosho, Lei Zhang, Marc K Rosenblum, Cristina R Antonescu
Poorly differentiated chordomas (PDCs) represent a rare subset of notochordal neoplasms, affecting primarily children and associated with an aggressive outcome. In contrast to conventional chordomas, PDC show solid growth and increased cellularity, cytologic atypia, and mitotic activity. Recent studies have shown that PDCs are characterized by recurrent deletions encompassing the SMARCB1 locus, resulting in consistent loss of nuclear SMARCB1 expression. Thus PDC joined the expanding family of SMARCB1-deficient tumors characterized by various SMARCB1 structural abnormalities, ranging from large homozygous deletions to small intragenic mutations...
November 9, 2017: Genes, Chromosomes & Cancer
https://www.readbyqxmd.com/read/29119513/metabolomics-challenges-and-opportunities-in-systems-biology-studies
#20
Luca Casadei, Mariacristina Valerio, Cesare Manetti
Metabolomics has the capability of providing predisposition, diagnostic, prognostic, and therapeutic biomarker profiles of individual patients, since a large number of metabolites can be measured in an unbiased manner from biological samples. In this setting, (1)H-Nuclear Magnetic Resonance (NMR) spectroscopy of biofluids such as plasma, urine, and fecal water offers the opportunity to identify patterns of biomarker changes that reflects the physiological or pathological status of an individual patient.In this chapter, we show as a metabolomics study can be used to diagnose a disease, classifying patients as healthy or as pathological taking into account individual variability...
2018: Methods in Molecular Biology
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