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https://www.readbyqxmd.com/read/28098429/natural-history-of-nonimmune-mediated-thrombocytopenia-and-acute-kidney-injury-in-pediatric-open-heart-surgery
#1
Shannon Tew, Manuel L Fontes, Nathaniel H Greene, Miklos D Kertai, George Ofori-Amanfo, Robert D B Jaquiss, Andrew J Lodge, Warwick A Ames, Hercilia Mayumi Homi, Kelly A Machovec, Edmund H Jooste
OBJECTIVE: Thrombocytopenia and acute kidney injury (AKI) are common following pediatric cardiac surgery with cardiopulmonary bypass (CPB). However, the relationship between postoperative nadir platelet counts and AKI has not been investigated in the pediatric population. Our objective was to investigate this relationship and examine independent predictors of AKI. DESIGN: After IRB approval, we performed a retrospective review of the institution's medical records and database...
January 18, 2017: Paediatric Anaesthesia
https://www.readbyqxmd.com/read/28098310/a-computational-model-predicts-genetic-nodes-that-allow-switching-between-species-specific-responses-in-a-conserved-signaling-network
#2
Adriana T Dawes, David Wu, Karley K Mahalak, Edward M Zitnik, Natalia Kravtsova, Haiwei Su, Helen M Chamberlin
Cell signaling networks regulate a variety of developmental and physiological processes, and changes in their response to external stimuli are often implicated in disease initiation and progression. To elucidate how different responses can arise from conserved signaling networks, we have developed a mathematical model of the well-characterized Caenorhabditis vulval development network involving EGF, Wnt and Notch signaling that recapitulates biologically observed behaviors. We experimentally block a specific element of the EGF pathway (MEK), and find different behaviors in vulval development in two Caenorhabditis species, C...
January 18, 2017: Integrative Biology: Quantitative Biosciences From Nano to Macro
https://www.readbyqxmd.com/read/28098257/a-comprehensive-platform-for-the-analysis-of-ubiquitin-like-protein-modifications-using-in-vivo-biotinylation
#3
Lucia Pirone, Wendy Xolalpa, Jón Otti Sigurðsson, Juanma Ramirez, Coralia Pérez, Monika González, Ainara Ruiz de Sabando, Félix Elortza, Manuel S Rodriguez, Ugo Mayor, Jesper V Olsen, Rosa Barrio, James D Sutherland
Post-translational modification by ubiquitin and ubiquitin-like proteins (UbLs) is fundamental for maintaining protein homeostasis. Efficient isolation of UbL conjugates is hampered by multiple factors, including cost and specificity of reagents, removal of UbLs by proteases, distinguishing UbL conjugates from interactors, and low quantities of modified substrates. Here we describe bioUbLs, a comprehensive set of tools for studying modifications in Drosophila and mammals, based on multicistronic expression and in vivo biotinylation using the E...
January 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28097640/priming-increases-the-anti-tumor-effect-and-therapeutic-window-of-177-lu-octreotate-in-nude-mice-bearing-human-small-intestine-neuroendocrine-tumor-got1
#4
Johanna Dalmo, Johan Spetz, Mikael Montelius, Britta Langen, Yvonne Arvidsson, Henrik Johansson, Toshima Z Parris, Khalil Helou, Bo Wängberg, Ola Nilsson, Maria Ljungberg, Eva Forssell-Aronsson
BACKGROUND: (177)Lu-[DOTA(0), Tyr(3)]-octreotate ((177)Lu-octreotate) is used for treatment of patients with somatostatin receptor (SSTR) expressing neuroendocrine tumors. However, complete tumor remission is rarely seen, and optimization of treatment protocols is needed. In vitro studies have shown that irradiation can up-regulate the expression of SSTR1, 2 and 5, and increase (177)Lu-octreotate uptake. The aim of the present study was to examine the anti-tumor effect of a (177)Lu-octreotate priming dose followed 24 h later by a second injection of (177)Lu-octreotate compared to a single administration of (177)Lu-octreotate, performed on the human small intestine neuroendocrine tumor cell line, GOT1, transplanted to nude mice...
December 2017: EJNMMI Research
https://www.readbyqxmd.com/read/28097526/improved-measurement-of-elastic-properties-of-cells-by-micropipette-aspiration-and-its-application-to-lymphocytes
#5
Gustavo Esteban-Manzanares, Blanca González-Bermúdez, Julia Cruces, Mónica De la Fuente, Qingxuan Li, Gustavo V Guinea, José Pérez-Rigueiro, Manuel Elices, Gustavo R Plaza
Mechanical deformability of cells is an important property for their function and development, as well as a useful marker of cell state. The classical technique of micropipette aspiration allows single-cell studies and we provide here a method to measure the two basic mechanical parameters, elastic modulus and Poisson's ratio. The proposed method, developed from finite-element analysis of micropipette aspiration experiments, may be implemented in future technologies for the automated measurement of mechanical properties of cells, based on the micropipette aspiration technique or on the cell transit through flow constrictions...
January 17, 2017: Annals of Biomedical Engineering
https://www.readbyqxmd.com/read/28097405/role-of-exopolysaccharide-in-salt-stress-resistance-and-cell-motility-of-mesorhizobium-alhagi-ccnwxj12-2-t
#6
Xiaodong Liu, Yantao Luo, Zhefei Li, Jiamei Wang, Gehong Wei
Mesorhizobium alhagi, a legume-symbiont soil bacterium that forms nodules with the desert plant Alhagi sparsifolia, can produce large amounts of exopolysaccharide (EPS) using mannitol as carbon source. However, the role of EPS in M. alhagi CCNWXJ12-2(T), an EPS-producing rhizobium with high salt resistance, remains uncharacterized. Here, we studied the role of EPS in M. alhagi CCNWXJ12-2(T) using EPS-deficient mutants constructed by transposon mutagenesis. The insertion sites of six EPS-deficient mutants were analyzed using single primer PCR, and two putative gene clusters were found to be involved in EPS synthesis...
January 17, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28096075/hpprna-a-snakemake-based-handy-parameter-free-pipeline-for-rna-seq-analysis-of-numerous-samples
#7
Dapeng Wang
RNA-Seq technology has been gradually becoming a routine approach for characterizing the properties of transcriptome in terms of organisms, cell types and conditions and consequently a big burden has been put on the facet of data analysis, which calls for an easy-to-learn workflow to cope with the increased demands from a large number of laboratories across the world. We report a one-in-all solution called hppRNA, composed of four scenarios such as pre-mapping, core-workflow, post-mapping and sequence variation detection, written by a series of individual Perl and R scripts, counting on well-established and preinstalled software, irrespective of single-end or paired-end, unstranded or stranded sequencing method...
January 17, 2017: Briefings in Bioinformatics
https://www.readbyqxmd.com/read/28096057/the-five-year-survival-rate-after-endoscopic-submucosal-dissection-for-superficial-esophageal-squamous-cell-neoplasia
#8
Yasuaki Nagami, Masaki Ominami, Masatsugu Shiba, Hiroaki Minamino, Shusei Fukunaga, Natsuhiko Kameda, Satoshi Sugimori, Hirohisa Machida, Tetsuya Tanigawa, Hirokazu Yamagami, Toshio Watanabe, Kazunari Tominaga, Yasuhiro Fujiwara, Tetsuo Arakawa
BACKGROUND: Endoscopic submucosal dissection (ESD) is a widely accepted procedure for superficial esophageal squamous cell neoplasia (ESCN) because of a high complete resection rate. However, there were a few reports about the long-term outcomes of these patients due to short follow-up periods. AIMS: We aimed to evaluate the 5-year survival after ESD for superficial ESCN. METHODS: This was a retrospective cohort study performed at a single institution...
December 21, 2016: Digestive and Liver Disease
https://www.readbyqxmd.com/read/28095895/genome-wide-snp-analysis-using-2b-rad-sequencing-identifies-the-candidate-genes-putatively-associated-with-resistance-to-ivermectin-in-haemonchus-contortus
#9
Xiaoping Luo, Xiaona Shi, Chunxiu Yuan, Min Ai, Cheng Ge, Min Hu, Xingang Feng, Xiaoye Yang
BACKGROUND: The excessive and uncontrolled use of anthelmintics, e.g. ivermectin (IVM) for the treatment of livestock parasites has led to widespread resistance in gastrointestinal nematodes, such as Haemonchus contortus. There is an urgent need for better management of drug-use in nematode control and development of novel anthelmintics. Discovery and identification of anthelmintic resistance-associate molecules/markers can provide a basis for rational anthelmintics-use and development of novel drugs...
January 17, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28095381/a-single-oral-dose-of-geranylgeranylacetone-upregulates-vascular-endothelial-growth-factor-and-protects-against-kainic-acid-induced-neuronal-cell-death-involvement-of-the-phosphatidylinositol-3-kinase-akt-pathway
#10
Yukari Kawasaki, Minoru Fujiki, Susumu Uchida, Masaki Morishige, Yasutomo Momii, Keisuke Ishii
BACKGROUND: Previous studies demonstrated the cytoprotective effect of geranylgeranylacetone (GGA), a heat shock protein inducer, against ischemic insult or kainic acid (KA)-induced neuronal cell death. Phosphatidylinositol-3 kinase (PI3K)/Akt is thought to be an important factor that mediates neuroprotection. However, the signaling pathways in the brain in vivo after oral GGA administration remain unclear. METHODS: We measured and compared hippocampal neuron density to investigate the effect of GGA on KA-induced cell death in rats...
January 18, 2017: Pathobiology: Journal of Immunopathology, Molecular and Cellular Biology
https://www.readbyqxmd.com/read/28095042/gauging-the-extent-of-thyroidectomy-for-indeterminate-thyroid-nodules-an-oncologic-perspective
#11
David F Schneider, Linda M Cherney Stafford, Nicole Brys, Caprice C Greenberg, Courtney J Balentine, Dawn M Elfenbein, Susan C Pitt
INTRODUCTION: Increasing emphasis is being placed on appropriateness of care and avoidance of over- and under-treatment. Indeterminate thyroid nodules (ITN), present a particular risk for this problem because cancer found via diagnostic lobectomy (DL) often requires a completion thyroidectomy (CT). However, initial total thyroidectomy (TT) for benign ITN results in lifelong thyroid hormone replacement. We sought to measure the accuracy and factors associated with the extent of initial thyroidectomy for ITN...
January 17, 2017: Endocrine Practice
https://www.readbyqxmd.com/read/28094965/taxodikaloids-a-and-b-two-dimeric-abietane-type-diterpenoids-from-taxodium-ascendens-possessing-an-oxazoline-ring-linkage
#12
Xing-Hao Huang, Ling-Xue Tao, Chang-Qiang Ke, Chunping Tang, Hai-Yan Zhang, Yang Ye, Li-Gen Lin, Sheng Yao
Two dimeric diterpenoids, taxodikaloids A (1) and B (2), have been identified from the seeds of Taxodium ascendens. The diterpenoid structures were established on the basis of comprehensive spectroscopic analysis, and the absolute configuration of taxodikaloid A (1) was further confirmed by single-crystal X-ray diffraction. Both structures feature an unprecedented oxazoline ring linkage connecting two abietane diterpenoid monomers. A plausible biosynthetic pathway for compounds 1 and 2 is proposed. Both compounds show potential neuroprotective activity against Aβ25-35-induced damage in SH-SY5Y cells...
January 17, 2017: Organic Letters
https://www.readbyqxmd.com/read/28094900/high-throughput-precision-measurement-of-subcellular-localization-in-single-cells
#13
Tyler J Burns, Andreas P Frei, Pier F Gherardini, Felice A Bava, Jake E Batchelder, Yuki Yoshiyasu, Julie M Yu, Amanda R Groziak, Samuel C Kimmey, Veronica D Gonzalez, Wendy J Fantl, Garry P Nolan
To quantify visual and spatial information in single cells with a throughput of thousands of cells per second, we developed Subcellular Localization Assay (SLA). This adaptation of Proximity Ligation Assay expands the capabilities of flow cytometry to include data relating to localization of proteins to and within organelles. We used SLA to detect the nuclear import of transcription factors across cell subsets in complex samples. We further measured intranuclear re-localization of target proteins across the cell cycle and upon DNA damage induction...
January 17, 2017: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/28094813/a-methylome-wide-mqtl-analysis-reveals-associations-of-methylation-sites-with-gad1-and-hdac3-snps-and-a-general-psychiatric-risk-score
#14
D M Ciuculete, A E Boström, S Voisin, H Philipps, O E Titova, M Bandstein, L Nikontovic, M J Williams, J Mwinyi, H B Schiöth
Genome-wide association studies have identified a number of single-nucleotide polymorphisms (SNPs) that are associated with psychiatric diseases. Increasing body of evidence suggests a complex connection of SNPs and the transcriptional and epigenetic regulation of gene expression, which is poorly understood. In the current study, we investigated the interplay between genetic risk variants, shifts in methylation and mRNA levels in whole blood from 223 adolescents distinguished by a risk for developing psychiatric disorders...
January 17, 2017: Translational Psychiatry
https://www.readbyqxmd.com/read/28094761/homeodomain-protein-otp-affects-developmental-neuropeptide-switching-in-oxytocin-neurons-associated-with-a-long-term-effect-on-social-behavior
#15
Einav Wircer, Janna Blechman, Nataliya Borodovsky, Michael Tsoory, Ana Rita Nunes, Rui F Oliveira, Gil Levkowitz
Proper response to stress and social stimuli depends on orchestrated development of hypothalamic neuronal circuits. Here we address the effects of the developmental transcription factor orthopedia (Otp) on hypothalamic development and function. We show that developmental mutations in the zebrafish paralogous gene otpa but not otpb affect both stress response and social preference. These behavioral phenotypes were associated with developmental alterations in oxytocinergic (OXT) neurons. Thus, otpa and otpb differentially regulate neuropeptide switching in a newly identified subset of OXT neurons that co-express the corticotropin-releasing hormone (CRH)...
January 17, 2017: ELife
https://www.readbyqxmd.com/read/28094469/immunohistochemical-assessment-of-glucagon-like-peptide-1-receptor-glp-1r-expression-in-the-pancreas-of-patients-with-type-2-diabetes
#16
Rikke Kaae Kirk, Charles Pyke, Matthias G von Herrath, Jane Preuss Hasselby, Lars Pedersen, Pia Gottrup Mortensen, Lotte Bjerre Knudsen, Ken Coppieters
Glucagon-like peptide-1 (GLP-1) is an incretin hormone which stimulates insulin release and inhibits glucagon secretion from the pancreas in a glucose-dependent manner. Incretin-based therapies, consisting of GLP-1 receptor (GLP-1R) agonists and dipeptidyl peptidase-4 (DPP-4) inhibitors, are used for the treatment of T2D. Immunohistochemical studies for GLP-1R expression have previously been hampered by the use of unspecific polyclonal antibodies. This study used a new monoclonal antibody to assess GLP-1R expression in pancreatic tissue from 23 patients with T2D, including 7 with a DPP-4 inhibitor and 1 with a GLP-1R agonist treatment history...
January 17, 2017: Diabetes, Obesity & Metabolism
https://www.readbyqxmd.com/read/28094347/endozoicomonas-genomes-reveal-functional-adaptation-and-plasticity-in-bacterial-strains-symbiotically-associated-with-diverse-marine-hosts
#17
Matthew J Neave, Craig T Michell, Amy Apprill, Christian R Voolstra
Endozoicomonas bacteria are globally distributed and often abundantly associated with diverse marine hosts including reef-building corals, yet their function remains unknown. In this study we generated novel Endozoicomonas genomes from single cells and metagenomes obtained directly from the corals Stylophora pistillata, Pocillopora verrucosa, and Acropora humilis. We then compared these culture-independent genomes to existing genomes of bacterial isolates acquired from a sponge, sea slug, and coral to examine the functional landscape of this enigmatic genus...
January 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28094329/fumarase-activity-an-in-vivo-and-in-vitro-biomarker-for-acute-kidney-injury
#18
Per Mose Nielsen, Abubakr Eldirdiri, Lotte Bonde Bertelsen, Hans Stødkilde Jørgensen, Jan Henrik Ardenkjaer-Larsen, Christoffer Laustsen
Renal ischemia/reperfusion injury (IRI) is a leading cause of acute kidney injury (AKI), and at present, there is a lack of reliable biomarkers that can diagnose AKI and measure early progression because the commonly used methods cannot evaluate single-kidney IRI. Hyperpolarized [1,4-(13)C2]fumarate conversion to [1,4-(13)C2]malate by fumarase has been proposed as a measure of necrosis in rat tumor models and in chemically induced AKI rats. Here we show that the degradation of cell membranes in connection with necrosis leads to elevated fumarase activity in plasma and urine and secondly that hyperpolarized [1,4-(13)C2]malate production 24 h after reperfusion correlates with renal necrosis in a 40-min unilateral ischemic rat model...
January 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28094216/mild-to-moderate-dysplasia-at-surgical-margin-is-a-significant-indicator-of-survival-in-patients-with-oral-cancer
#19
Sandhya Gokavarapu, Nagendra Parvataneni, Sreenivasa Pavagada, L M Chandrasekhara Rao, K V Raju, T Subramaneshwar Rao
OBJECTIVE: The objective of this study was to investigate the significance of mild and moderate dysplasia at the surgical margin with regard to survival and locoregional recurrence. STUDY DESIGN: We investigated cases of primary oral squamous cell carcinoma with negative margins retrospectively from the database of a tertiary cancer hospital. All patients had been treated between January 2010 and December 2012, and margin dysplasia was investigated in a multivariate analysis for locoregional recurrence and overall survival...
November 16, 2016: Oral Surgery, Oral Medicine, Oral Pathology and Oral Radiology
https://www.readbyqxmd.com/read/28094102/single-cell-genomics-approaches-and-utility-in-immunology
#20
REVIEW
Karlynn E Neu, Qingming Tang, Patrick C Wilson, Aly A Khan
Single-cell genomics offers powerful tools for studying immune cells, which make it possible to observe rare and intermediate cell states that cannot be resolved at the population level. Advances in computer science and single-cell sequencing technology have created a data-driven revolution in immunology. The challenge for immunologists is to harness computing and turn an avalanche of quantitative data into meaningful discovery of immunological principles, predictive models, and strategies for therapeutics...
January 13, 2017: Trends in Immunology
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