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https://www.readbyqxmd.com/read/28227050/distance-metric-learning-using-random-forest-for-cytometry-data
#1
M Baran Pouyan, J Birjandtalab, M Nourani, M Baran Pouyan, J Birjandtalab, M Nourani, M Baran Pouyan, J Birjandtalab, M Nourani
Visualization and clustering of single-cell mass cytometry (CyTOF) data are analytic techniques to identify different cell types. Most of such techniques, such as Euclidean norm, lose their effectiveness when the data dimension increases due to the curse of dimensionality. In this paper, we propose a new cell distance (called CytoRFD) that works based on Random Forest (RF) concept. The experimental results show that the proposed distance can achieve a much higher quality and effectiveness in large data analysis than traditional metrics specially for CyTOF data...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28217898/metal-induced-changes-in-trivalent-chromium-resistant-alcaligenes-faecalis-vitsim2
#2
Shiny C Matilda, Chittibabu Shanthi
The changes induced in bacterial strains under stress conditions provide an insight into metal resistance strategies. Trivalent chromium resistant bacterium were isolated and identified by 16S rRNA gene sequencing and designated as Alcaligenes faecalis VITSIM2. The growth pattern was monitored. The organism also showed resistance to copper, cadmium, and certain antibiotics. The differentially expressed proteins in SDS PAGE were identified by mass spectrometry as flagellin and 50S ribosomal L36 protein. The morphological changes were identified by scanning electron microscopy...
February 20, 2017: Journal of Basic Microbiology
https://www.readbyqxmd.com/read/28215986/the-%C3%AE-4galt1-affects-the-fibroblast-like-synoviocytes-invasion-in-rheumatoid-arthritis-by-modifying-n-linked-glycosylation-of-cxcr3
#3
Chi Sun, Xinhui Zhu, Tao Tao, Dongmei Zhang, Yi Wang, Hua Xu, Yunli Ren, Youhua Wang
OBJECTIVE: The level of β-1,4-galactosyltransferase 1 (β4GalT1) is up-regulated in collagen-induced arthritis (CIA) mice. It is reported that CXC chemokine receptor 3 (CXCR3) can enhance the invasiveness of fibroblast-like synoviocytes (FLS) in rheumatoid arthritis (RA). This study aims to investigate the specific mechanism of β4GalT1 and relationship between β4GalT1 and CXCR3 in RA. METHODS: The model of CIA mice was established to explore the role of β4GalT1...
February 10, 2017: European Journal of Cell Biology
https://www.readbyqxmd.com/read/28213406/mitochondria-regulated-formation-of-endothelial-extracellular-vesicles-shifts-the-mediator-of-flow-induced-vasodilation
#4
Julie K Freed, Matthew J Durand, Brian Robert Hoffmann, John C Densmore, Andrew S Greene, David D Gutterman
In order to examine the effect of endothelial-derived extracellular vesicles (eEVs) on the mechanism of flow-induced dilation (FID) composition, formation, and functional effects on the mechanism of FID were examined from two different eEV subtypes, one produced from ceramide, the other from plasminogen-activator inhibitor 1 (PAI-1). Using videomicroscopy, internal diameter changes in response to increases in flow were measured in human adipose resistance arteries acutely exposed (30min) to eEVs derived from cultured endothelial cells exposed to ceramide or PAI-1...
February 17, 2017: American Journal of Physiology. Heart and Circulatory Physiology
https://www.readbyqxmd.com/read/28208868/female-genital-tract-involvement-in-acute-lymphoblastic-leukemia-a-rare-case-report
#5
Vikram Narang, Amit Dhiman, Bhavna Garg, Neena Sood
Female Genital Tract (FGT) involvement with hematologic neoplasms is uncommon and the hematologic malignancies which involve the female genital organs are usually non-Hodgkin's lymphoma. Involvement of the uterus and cervix with Acute Lymphoblastic Leukaemia (ALL) is extremely rare, and ovarian involvement is even rarer. We report the case of a young lady who presented with tubo-ovarian mass, excessive post-operative bleeding (post-total abdominal hystrerctomy and bilateral salpingo-oophorectomy) and was diagnosed to have ALL with blood and tissue involvement by histopathology and flow cytometry...
December 2016: Journal of Clinical and Diagnostic Research: JCDR
https://www.readbyqxmd.com/read/28203580/unusual-presentation-of-diffuse-large-b-cell-lymphoma-with-splenic-infarcts
#6
Vivek Kumar, Parita Soni, Vishangi Dave, Jonathan Harris
A 67-year-old man presented with a 3-day history of abdominal pain, fever, and significant weight loss over 2 months. Physical examination revealed left upper quadrant tenderness, hepatomegaly, splenomegaly, and bilateral pitting edema but peripheral lymphadenopathy was absent. Laboratory tests showed anemia, thrombocytopenia, elevated prothrombin time (PT), partial thromboplastin time (PTT), and increased lactate dehydrogenase (LDH). PTT was corrected completely in mixing study. Further workup for the cause of coagulopathy revealed decreased levels of all clotting factors except factor VIII and increase fibrinogen levels, which ruled out disseminated intravascular coagulation (DIC)...
January 2017: Journal of Investigative Medicine High Impact Case Reports
https://www.readbyqxmd.com/read/28202079/a-novel-cytoprotective-peptide-protects-mesenchymal-stem-cells-against-mitochondrial-dysfunction-and-apoptosis-induced-by-starvation-via-nrf2-sirt3-foxo3a-pathway
#7
Shuo Wang, Chao Zhang, Sidikejiang Niyazi, Long Zheng, Jiawei Li, Weitao Zhang, Ming Xu, Ruiming Rong, Cheng Yang, Tongyu Zhu
BACKGROUND: Mesenchymal stem cell (MSC) has been widely explored in the past decade as a cell-based treatment for various diseases. However, poor survival of adaptively transferred MSCs limits their clinical therapeutic potentials, which is largely ascribed to the nutrient starvation. In this study, we determined whether a novel kidney protective peptide CHBP could protect MSCs against starvation and invested the underlying mechanisms. METHODS: MSCs were subjected to serum deprivation and CHBP of graded concentrations was administered...
February 15, 2017: Journal of Translational Medicine
https://www.readbyqxmd.com/read/28195195/peptoids-successfully-inhibit-the-growth-of-gram-negative-e-coli-causing-substantial-membrane-damage
#8
Biljana Mojsoska, Gustavo Carretero, Sylvester Larsen, Ramona Valentina Mateiu, Håvard Jenssen
Peptoids are an alternative approach to antimicrobial peptides that offer higher stability towards enzymatic degradation. It is essential when developing new types of peptoids, that mimic the function of antimicrobial peptides, to understand their mechanism of action. Few studies on the specific mechanism of action of antimicrobial peptoids have been described in the literature, despite the plethora of studies on the mode of action of antimicrobial peptides. Here, we investigate the mechanism of action of two short cationic peptoids, rich in lysine and tryptophan side chain functionalities...
February 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28192941/flow-cytometry-based-quantification-of-cellular-au-nanoparticles
#9
Jonghoon Park, My Kieu Ha, Nuri Yang, Tae Hyun Yoon
There has been a great deal of research regarding the cellular association of nanoparticles (NPs), although there are only a few methods available yet for the quantitative measurements of cellular NPs. In this study, we propose a simple and quantitative method to estimate the cellular uptake of Au NPs into cervical cancer cells (HeLa) based on their side scattering (SSC) intensities measured by flow cytometry (FCM). We have compared SSC intensities of HeLa cells exposed to eight different types of Au NPs (40-100 nm size, with positive or negative surface charge) with the amount of cellular Au NPs measured by inductively coupled plasma mass spectrometry (ICPMS)...
February 6, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28192147/systemic-innate-immune-activation-in-food-protein-induced-enterocolitis-syndrome-fpies
#10
Ritobrata Goswami, Ana Belen Blazquez, Roman Kosoy, Adeeb Rahman, Anna Nowak-Wegrzyn, M Cecilia Berin
BACKGROUND: Food protein induced enterocolitis syndrome (FPIES) is a non-IgE-mediated food allergy of infancy whose pathophysiology is poorly understood. OBJECTIVES: We set out to identify and phenotype allergen-responsive cells in peripheral blood of a cohort of subjects undergoing supervised food challenge for FPIES. METHODS: We profiled antigen-responsive cells in peripheral blood mononuclear cells by flow cytometry, and examined cells in whole blood obtained before and after challenge by CyTOF mass cytometry and RNAseq...
February 9, 2017: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/28186653/progression-of-cutaneous-plasmacytoma-to-plasma-cell-leukemia-in-a-dog
#11
Emily D Rout, Alba Maria M Shank, Angharad H K Waite, Andrea Siegel, Anne C Avery, Paul R Avery
A 5-year-old male neutered Bernese Mountain Dog was presented for cutaneous plasmacytoma, which was treated by surgical excision. Four months later, the dog developed multiple skin masses, hyphema, pericardial and mild bicavitary effusions, myocardial masses, and marked plasmacytosis in the peripheral blood. Circulating plasma cells expressed CD34 and MHC class II by flow cytometry. Immunocytochemistry demonstrated that these cells were strongly positive for multiple myeloma oncogene 1/interferon regulatory factor 4 (MUM-1) and weakly to moderately positive for Pax5...
February 10, 2017: Veterinary Clinical Pathology
https://www.readbyqxmd.com/read/28181533/ebola-virus-infection-induces-autoimmunity-against-dsdna-and-hsp60
#12
H Fausther-Bovendo, X Qiu, S McCorrister, G Westmacott, P Sandstrom, C Castilletti, A Di Caro, G Ippolito, G P Kobinger
Ebola virus (EBOV) survivors are affected by a variety of serious illnesses of unknown origin for years after viral clearance from the circulation. Identifying the causes of these persistent illnesses is paramount to develop appropriate therapeutic protocols. In this study, using mouse and non-human primates which survived EBOV challenge, ELISA, western blot, mass spectrometry and flow cytometry were used to screen for autoantibodies, identify their main targets, investigate the mechanism behind their induction and monitor autoantibodies accumulation in various tissues...
February 9, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28179497/multicenter-systems-analysis-of-human-blood-reveals-immature-neutrophils-in-males-and-during-pregnancy
#13
Jana Blazkova, Sarthak Gupta, Yudong Liu, Brice Gaudilliere, Edward A Ganio, Christopher R Bolen, Ron Saar-Dover, Gabriela K Fragiadakis, Martin S Angst, Sarfaraz Hasni, Nima Aghaeepour, David Stevenson, Nicole Baldwin, Esperanza Anguiano, Damien Chaussabel, Matthew C Altman, Mariana J Kaplan, Mark M Davis, David Furman
Despite clear differences in immune system responses and in the prevalence of autoimmune diseases between males and females, there is little understanding of the processes involved. In this study, we identified a gene signature of immature-like neutrophils, characterized by the overexpression of genes encoding for several granule-containing proteins, which was found at higher levels (up to 3-fold) in young (20-30 y old) but not older (60 to >89 y old) males compared with females. Functional and phenotypic characterization of peripheral blood neutrophils revealed more mature and responsive neutrophils in young females, which also exhibited an elevated capacity in neutrophil extracellular trap formation at baseline and upon microbial or sterile autoimmune stimuli...
February 8, 2017: Journal of Immunology: Official Journal of the American Association of Immunologists
https://www.readbyqxmd.com/read/28177695/apoptosis-of-rat-hepatic-stellate-cells-induced-by-diallyl-trisulfide-and-proteomics-profiling-in-vitro
#14
Yajie Zhang, Xiaoming Zhou, Lipeng Xu, Lulu Wang, Jinling Liu, Jing Ye, Pengxin Qiu, Qinghua Liu
Diallyl trisulfide (DATS), a major garlic derivative, inhibits cell proliferation and triggers apoptosis in a variety of cancer cell lines. However, the effects of DATS on hepatic stellate cells (HSCs) remain unknown. The aim of this study was to analyze the effects of DATS on cell proliferation and apoptosis, as well as the protein expression profile in rat HSCs. Rat HSCs were treated with or without 12 and 24 μg/mL DATS for various time intervals. Cell proliferation and apoptosis were determined using tetrazolium dye (MTT) colorimetric assay, bromodeoxyuridine (5-bromo-2'-deoxyuridine; BrdU) assay, Hoechst 33342 staining, electroscopy, and flow cytometry...
November 18, 2016: Canadian Journal of Physiology and Pharmacology
https://www.readbyqxmd.com/read/28176950/circulating-monocytes-and-b-lymphocytes-in-neovascular-age-related-macular-degeneration
#15
Sven Magnus Hector, Torben Lykke Sørensen
BACKGROUND: Individuals with neovascular age-related macular degeneration (AMD) have altered number and distribution of retinal macrophages and show changes in circulating antibodies. We wanted to investigate the corresponding precursors, with subpopulations. We therefore measured monocyte and B-lymphocyte populations in individuals with neovascular AMD. DESIGN: This was an observational case-control study. PARTICIPANTS OR SAMPLES: A total of 31 individuals with neovascular AMD and 30 healthy age-matched controls were included...
2017: Clinical Ophthalmology
https://www.readbyqxmd.com/read/28160444/imaging-mass-cytometry
#16
EDITORIAL
Qing Chang, Olga I Ornatsky, Iram Siddiqui, Alexander Loboda, Vladimir I Baranov, David W Hedley
Imaging Mass Cytometry (IMC) is an expansion of mass cytometry, but rather than analyzing single cells in suspension, it uses laser ablation to generate plumes of particles that are carried to the mass cytometer by a stream of inert gas. Images reconstructed from tissue sections scanned by IMC have a resolution comparable to light microscopy, with the high content of mass cytometry enabled through the use of isotopically labeled probes and ICP-MS detection. Importantly, IMC can be performed on paraffin-embedded tissue sections, so can be applied to the retrospective analysis of patient cohorts whose outcome is known, and eventually to personalized medicine...
February 2017: Cytometry. Part A: the Journal of the International Society for Analytical Cytology
https://www.readbyqxmd.com/read/28150777/pathologically-expanded-peripheral-t-helper-cell-subset-drives-b-cells-in-rheumatoid-arthritis
#17
Deepak A Rao, Michael F Gurish, Jennifer L Marshall, Kamil Slowikowski, Chamith Y Fonseka, Yanyan Liu, Laura T Donlin, Lauren A Henderson, Kevin Wei, Fumitaka Mizoguchi, Nikola C Teslovich, Michael E Weinblatt, Elena M Massarotti, Jonathan S Coblyn, Simon M Helfgott, Yvonne C Lee, Derrick J Todd, Vivian P Bykerk, Susan M Goodman, Alessandra B Pernis, Lionel B Ivashkiv, Elizabeth W Karlson, Peter A Nigrovic, Andrew Filer, Christopher D Buckley, James A Lederer, Soumya Raychaudhuri, Michael B Brenner
CD4(+) T cells are central mediators of autoimmune pathology; however, defining their key effector functions in specific autoimmune diseases remains challenging. Pathogenic CD4(+) T cells within affected tissues may be identified by expression of markers of recent activation. Here we use mass cytometry to analyse activated T cells in joint tissue from patients with rheumatoid arthritis, a chronic immune-mediated arthritis that affects up to 1% of the population. This approach revealed a markedly expanded population of PD-1(hi)CXCR5(-)CD4(+) T cells in synovium of patients with rheumatoid arthritis...
1, 2017: Nature
https://www.readbyqxmd.com/read/28149907/the-downside-of-human-natural-killer-cell-diversity-in-viral-infection-revealed-by-mass-cytometry
#18
COMMENT
Mir Munir A Rahim
No abstract text is available yet for this article.
December 2016: Annals of Translational Medicine
https://www.readbyqxmd.com/read/28148223/effect-of-cryopreservation-on-delineation-of-immune-cell-subpopulations-in-tumor-specimens-as-determinated-by-multiparametric-single-cell-mass-cytometry-analysis
#19
Elma Kadić, Raymond J Moniz, Ying Huo, An Chi, Ilona Kariv
BACKGROUND: Comprehensive understanding of cellular immune subsets involved in regulation of tumor progression is central to the development of cancer immunotherapies. Single cell immunophenotyping has historically been accomplished by flow cytometry (FC) analysis, enabling the analysis of up to 18 markers. Recent advancements in mass cytometry (MC) have facilitated detection of over 50 markers, utilizing high resolving power of mass spectrometry (MS). This study examined an analytical and operational feasibility of MC for an in-depth immunophenotyping analysis of the tumor microenvironment, using the commercial CyTOF™ instrument, and further interrogated challenges in managing the integrity of tumor specimens...
February 2, 2017: BMC Immunology
https://www.readbyqxmd.com/read/28146444/cytokine-levels-in-panic-disorder-evidence-for-a-dose-response-relationship
#20
Cristiano Tschiedel Belem da Silva, Marianna de Abreu Costa, Andressa Bortoluzzi, Bianca Pfaffenseller, Flávia Vedana, Flávio Kapczinski, Gisele Gus Manfro
OBJECTIVE: Several studies have investigated possible biological correlates of mental disorders. Although some studies have consistently reported elevated levels of serum inflammatory markers in depression, very few have evaluated cytokine levels in patients with lifetime panic disorder (PD). METHODS: Seventy-eight adults (75% women) from an anxiety disorders outpatient unit were categorized according to their PD status: current or in remission. Serum levels of interleukin (IL)-6, tumor necrosis factor α, and IL-10 were evaluated using flow cytometry with enhanced sensitivity flex sets...
February 2017: Psychosomatic Medicine
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