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Immuno sequencing

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https://www.readbyqxmd.com/read/29217401/influence-of-correlation-between-hla-g-polymorphism-and-interleukin-6-il6-gene-expression-on-the-risk-of-schizophrenia
#1
Venkataram Shivakumar, Monojit Debnath, Deepthi Venugopal, Ashwini Rajasekaran, Sunil V Kalmady, Manjula Subbanna, Janardhanan C Narayanaswamy, Anekal C Amaresha, Ganesan Venkatasubramanian
Converging evidence suggests important implications of immuno-inflammatory pathway in the risk and progression of schizophrenia. Prenatal infection resulting in maternal immune activation and developmental neuroinflammation reportedly increases the risk of schizophrenia in the offspring by generating pro-inflammatory cytokines including IL-6. However, it is not known how prenatal infection can induce immuno-inflammatory responses despite the presence of immuno-inhibitory Human Leukocyte Antigen-G (HLA-G) molecules...
December 4, 2017: Cytokine
https://www.readbyqxmd.com/read/29215036/proteomics-and-antivenomics-of-echis-carinatus-carinatus-venom-correlation-with-pharmacological-properties-and-pathophysiology-of-envenomation
#2
Aparup Patra, Bhargab Kalita, Abhishek Chanda, Ashis K Mukherjee
The proteome composition of Echis carinatus carinatus venom (ECV) from India was studied for the first time by tandem mass spectrometry analysis. A total of 90, 47, and 22 distinct enzymatic and non-enzymatic proteins belonging to 15, 10, and 6 snake venom protein families were identified in ECV by searching the ESI-LC-MS/MS data against non-redundant protein databases of Viperidae (taxid 8689), Echis (taxid 8699) and Echis carinatus (taxid 40353), respectively. However, analysis of MS/MS data against the Transcriptome Shotgun Assembly sequences (87 entries) of conger E...
December 7, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29209124/composition-and-immuno-stimulatory-properties-of-extracellular-dna-from-mouse-gut-flora
#3
Ce Qi, Ya Li, Ren-Qiang Yu, Sheng-Li Zhou, Xing-Guo Wang, Guo-Wei Le, Qing-Zhe Jin, Hang Xiao, Jin Sun
AIM: To demonstrate that specific bacteria might release bacterial extracellular DNA (eDNA) to exert immunomodulatory functions in the mouse small intestine. METHODS: Extracellular DNA was extracted using phosphate buffered saline with 0.5 mmol/L dithiothreitol combined with two phenol extractions. TOTO-1 iodide, a cell-impermeant and high-affinity nucleic acid stain, was used to confirm the existence of eDNA in the mucus layers of the small intestine and colon in healthy Male C57BL/6 mice...
November 28, 2017: World Journal of Gastroenterology: WJG
https://www.readbyqxmd.com/read/29205109/new-treatments-for-allergy-advances-in-peptide-immunotherapy
#4
David Calzada, Selene Baos, Lucia Cremades, Blanca Olombrada Cardaba
BACKGROUND: Nowadays, allergen-specific immunotherapy (AIT) is the only treatment able to modulate the course of allergic diseases. Although it has been applied for the last 100 years, treatment with whole allergen extracts is not without its drawbacks: AIT can cause local and systemic adverse events and may produce new IgE sensitization against other allergens present in the extract. Furthermore, the lengthy treatment duration (3-5 years), frequent administration, and high cost of treatment are other disadvantages...
November 30, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/29201983/data-on-novel-dna-methylation-changes-induced-by-valproic-acid-in-human-hepatocytes
#5
JarnoEJ Wolters, SimoneGJ van Breda, SandraM Claessen, TheoMCM de Kok, JosCS Kleinjans
Valproic acid (VPA) is a widely prescribed antiepileptic drug in the world. Despite its pharmacological importance, it may cause liver toxicity and steatosis. However the exact mechanism of the steatosis formation is unknown. The data presented in this DIB publication is used to further investigate the VPA-induced mechanisms of steatosis by analyzing changes in patterns of methylation. Therefore, primary human hepatocytes (PHHs) were exposed to VPA at a concentration which was shown to cause steatosis without inducing overt cytotoxicity...
February 2018: Data in Brief
https://www.readbyqxmd.com/read/29197418/tagging-to-endogenous-genes-of-plasmodium-falciparum-using-crispr-cas9
#6
Dexuan Kuang, Jichen Qiao, Zhou Li, Weiwei Wang, Hui Xia, Lubin Jiang, Jiejie Dai, Qiang Fang, Xueyu Dai
BACKGROUND: Plasmodium falciparum is the deadliest malaria parasite. Currently, there are seldom commercial antibodies against P. falciparum proteins, which greatly limits the study on Plasmodium. CRISPR/Cas9 is an efficient genome editing method, which has been employed in various organisms. However, the use of this technique in P. falciparum is still limited to gene knockout, site-specific mutation and generation of green fluorescent protein (GFP) reporter line with disruption of inserted sites...
December 2, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/29183914/o-glycome-beam-search-arrays-for-carbohydrate-ligand-discovery
#7
Zhen Li, Chao Gao, Yinbing Zhang, Angelina S Palma, Robert A Childs, Lisete M Silva, Yang Liu, Xi Jiang, Yan Liu, Wengang Chai, Ten Feizi
O-glycosylation is a post-translational modification of proteins crucial to molecular mechanisms in health and disease. O-glycans are typically highly heterogeneous. The involvement of specific O-glycan sequences in many bio-recognition systems is yet to be determined due to a lack of efficient methodologies. We describe here a targeted microarray approach: O-glycome beam search that is both robust and efficient for O-glycan ligand-discovery. Substantial simplification of the complex O-glycome profile and facile chromatographic resolution is achieved by arraying O-glycans as branches, monitoring by mass spectrometry, focusing on promising fractions, and on-array immuno-sequencing...
November 28, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/29147618/programmed-cell-death-ligands-expression-in-phaeochromocytomas-and-paragangliomas-relationship-with-the-hypoxic-response-immune-evasion-and-malignant-behavior
#8
David J Pinato, James R Black, Sebastian Trousil, Roberto E Dina, Pritesh Trivedi, Francesco A Mauri, Rohini Sharma
The hypoxic response underlies the pathogenesis and malignant behavior of PCC/PGL. Regulation of PD-1 receptor-ligand signaling, a therapeutically actionable driver of the anti-tumor immune response, is a hypoxic-driven trait across malignancies. We evaluated the prognostic role of PD ligands in association with biomarkers of hypoxia and angiogenesis in patients with PCC/PGL. Tissue microarrays sections including consecutive cases diagnosed between 1983-2011 were stained for PD-L1 and 2, hypoxia inducible factor 1a (Hif-1a), Carbonic Anhydrase IX (CaIX), Vascular Endothelial Growth Factor-A (VEGF-A)...
2017: Oncoimmunology
https://www.readbyqxmd.com/read/29140465/short-chain-arabinoxylans-prepared-from-enzymatically-treated-wheat-grain-exert-prebiotic-effects-during-the-broiler-starter-period
#9
N Yacoubi, L Saulnier, E Bonnin, E Devillard, V Eeckhaut, L Rhayat, R Ducatelle, F Van Immerseel
Carbohydrate-degrading multi-enzyme preparations (MEP) are used to improve broiler performances. Their mode of action is complex and not fully understood. In this study, we compared the effect of water-soluble fractions isolated at the pilot scale from wheat grain incubated with (WE) and without (WC) MEP. The fractions were incorporated in a wheat-based diet (0.1% w/w) to feed Ross PM3 broilers and compared with a non-supplemented control group (NC). The body weight gain (BWG), feed intake (FI), and feed conversion ratio (FCR) until d 14 were determined...
November 10, 2017: Poultry Science
https://www.readbyqxmd.com/read/29137189/microscopic-and-molecular-tracing-of-cryptosporidium-oocysts-identifying-a-possible-reservoir-of-infection-in-red-grouse
#10
David Baines, Michaela Giles, Michael Richardson
Infection by Cryptosporidiumbaileyi causes respiratory cryptosporidiosis in red grouse Lagopuslagopusscotica. First diagnosed in 2010, it has since been detected across half of moors managed for grouse shooting in northern England. We hypothesised that contaminated grouse faeces within communal trays visited by grouse containing grit coated with flubendazole, provided to control Trichostrongylustenuis parasites of grouse, is a reservoir of infection. To establish the basis to this hypothesis, contents of 23 trays from a grouse moor were examined for Cryptosporidium oocysts...
November 13, 2017: Pathogens
https://www.readbyqxmd.com/read/29134420/co-localization-and-interaction-of-pax5-with-iba1-in-brain-of-mice
#11
Shashank Kumar Maurya, Rajnikant Mishra
The Pax5, a B-cell-Specific Activator Protein (BSAP) and redox-sensitive transcription factor, is expressed in the immune-privileged brain, B-lymphocytes, lymph nodes and spleen. PAX5-mediated immune pathway has also been described in the progression of Glioblastoma multiforme. However, the status of Pax5 and its role in brain immunity are not yet elucidated. In silico analysis of Pax5 interacting proteins predicts its interaction with proteins of cell proliferation, differentiation of hematopoietic cells, neurogenesis and several cell signalling pathways...
November 13, 2017: Cellular and Molecular Neurobiology
https://www.readbyqxmd.com/read/29093576/sequencing-of-glycosaminoglycans-with-potential-to-interrogate-sequence-specific-interactions
#12
Toin H van Kuppevelt, Arie Oosterhof, Elly M M Versteeg, Emina Podhumljak, Els M A van de Westerlo, Willeke F Daamen
Technologies to sequence nucleic acids/proteins are widely available, but straightforward methodologies to sequence complex polysaccharides are lacking. We here put forward a strategy to sequence glycosaminoglycans, long linear polysaccharides involved in many biochemical processes. The method is based on the covalent immobilization and (immuno)chemical characterization of only those size-separated saccharides that harbor the original reducing end of the full-length chain. Using this methodology, the saccharide sequence of the chondroitin sulfate chain of the proteoglycan bikunin was determined...
November 1, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29038283/ctx-m-15-producing-shewanella-sp-clinical-isolate-expressing-oxa-535-a-chromosome-encoded-oxa-48-variant-putative-progenitor-of-the-plasmid-encoded-oxa-436
#13
Agnès B Jousset, Laura Dabos, Rémy A Bonnin, Delphine Girlich, Anaïs Potron, Nicolas Cabanel, Laurent Dortet, Philippe Glaser, Thierry Naas
Shewanella spp. constitute a reservoir of antibiotic resistance determinants. In a bile sample, we have identified three Extended Spectrum β-lactamase (ESBL)-producing bacteria (Escherichia coli, Klebsiella pneumoniae and Shewanella sp. JAB-1) isolated from a child suffering from cholangitis. Our objectives were to characterize the genome and the resistome of the first ESBL-producing isolate of the genus Shewanella and determine whether plasmidic exchange occurred between the three-bacterial species. Bacterial isolates were characterized using MALDI-TOF, standard biochemical tools and antimicrobial susceptibility testing...
October 16, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/29029482/in-vivo-immuno-targeting-of-an-extracellular-epitope-of-membrane-bound-preferentially-expressed-antigen-in-melanoma-prame
#14
Dmitry Pankov, Ludvig Sjöström, Teja Kalidindi, Sang-Gyu Lee, Kjell Sjöström, Rui Gardner, Michael R McDevitt, Richard O'Reilly, Daniel L J Thorek, Steven M Larson, Darren Veach, David Ulmert
Preferentially Expressed Antigen in Melanoma (PRAME) is a cancer/testis antigen that is overexpressed in a broad range of malignancies, while absent in most healthy human tissues, making it an attractive diagnostic cancer biomarker and therapeutic target. Although commonly viewed as an intracellular protein, we have demonstrated that PRAME has a membrane bound form with an external epitope targetable with conventional antibodies. We generated a polyclonal antibody (Membrane associated PRAME Antibody 1, MPA1) against an extracellular peptide sequence of PRAME...
September 12, 2017: Oncotarget
https://www.readbyqxmd.com/read/29029166/beyond-antigenic-match-possible-agent-host-and-immuno-epidemiological-influences-on-influenza-vaccine-effectiveness-during-the-2015-16-season-in-canada
#15
Danuta M Skowronski, Catharine Chambers, Suzana Sabaiduc, Gaston De Serres, Anne-Luise Winter, James A Dickinson, Jonathan B Gubbay, Steven J Drews, Christine Martineau, Hugues Charest, Mel Krajden, Nathalie Bastien, Yan Li
Background: Vaccine effectiveness (VE) estimates are reported from Canada's Sentinel Practitioner Surveillance Network (SPSN) for the 2015-16 influenza season, characterized by a delayed A(H1N1)pdm09 epidemic and concurrent B(Victoria) activity. Potential influences beyond antigenic match are explored including viral genomic variation, birth cohort effects, prior vaccination and epidemic period. Methods: VE was estimated by test-negative design comparing adjusted-odds ratio for influenza test-positivity among vaccinated vs...
October 4, 2017: Journal of Infectious Diseases
https://www.readbyqxmd.com/read/29020960/perspectives-in-immunotherapy-meeting-report-from-the-immunotherapy-bridge-napoli-november-30th-2016
#16
Paolo A Ascierto, Bruno Daniele, Hans Hammers, Vera Hirsh, Joseph Kim, Lisa Licitra, Rita Nanda, Sandro Pignata
The complex interactions between the immune system and tumors lead the identification of key molecules that govern these interactions: immunotherapeutics were designed to overcome the mechanisms broken by tumors to evade immune destruction. After the substantial advances in melanoma, immunotherapy currently includes many other type of cancers, but the melanoma lesson is essential to progress in other type of cancers, since immunotherapy is potentially improving clinical outcome in various solid and haematologic malignancies...
October 11, 2017: Journal of Translational Medicine
https://www.readbyqxmd.com/read/28994388/-cancer-three-eras-of-personalized-medicine
#17
Bertrand Jordan
Since the completion of the first human DNA sequence, genomic approaches have penetrated into cancer research and therapy: first through expression profiling for diagnostic, prognostic and predictive purposes, then by sequencing of tumour DNA in order to define and apply targeted therapies. These overlapping changes occurred quite rapidly and are now overshadowed by immuno-oncology approaches that show much promise. There is however still much left to understand to make this more widely applicable, and the extreme cost of these therapies is a serious concern...
October 2017: Médecine Sciences: M/S
https://www.readbyqxmd.com/read/28978323/synergistic-oligodeoxynucleotide-strongly-promotes-cpg-induced-interleukin-6-production
#18
Shireen Nigar, Yoshinari Yamamoto, Takuma Okajima, Suguru Shigemori, Takashi Sato, Tasuku Ogita, Takeshi Shimosato
BACKGROUND: Bacterial genomes span a significant portion of diversity, reflecting their adaptation strategies; these strategies include nucleotide usage biases that affect chromosome configuration. Here, we explore an immuno-synergistic oligodeoxynucleotide (iSN-ODN, named iSN34), derived from Lactobacillus rhamnosus GG (LGG) genomic sequences, that exhibits a synergistic effect on immune response to CpG-induced immune activation. METHODS: The sequence of iSN34 was designed based on the genomic sequences of LGG...
October 4, 2017: BMC Immunology
https://www.readbyqxmd.com/read/28949047/arabidopsis-phosphatidylinositol-4-phosphate-5-kinase-2-contains-a-functional-nuclear-localization-sequence-and-interacts-with-alpha-importins
#19
Katharina Gerth, Feng Lin, Franziska Daamen, Wilhelm Menzel, Franziska Heinrich, Mareike Heilmann
The Arabidopsis phosphoinositide kinase PIP5K2 has been implicated in the control of membrane trafficking and is important for development and growth. In addition to cytosolic functions of phosphoinositides, a nuclear phosphoinositide system has been proposed, but evidence for nuclear phosphoinositides in plants is limited. Fluorescence-tagged variants of PIP5K2 reside in the nucleus of Arabidopsis root meristem cells, in addition to reported plasma membrane localization. Here we report on the interaction of PIP5K2 with alpha-importins and characterize its nuclear localization sequences (NLSs)...
September 26, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28939077/genomic-characterization-of-tobacco-nut-chewing-hpv-negative-early-stage-tongue-tumors-identify-mmp10-asa-candidate-to-predict-metastases
#20
Pawan Upadhyay, Nilesh Gardi, Sanket Desai, Pratik Chandrani, Asim Joshi, Bhaskar Dharavath, Priyanca Arora, Munita Bal, Sudhir Nair, Amit Dutt
OBJECTIVES: Nodal metastases status among early stage tongue squamous cell cancer patients plays a decisive role in the choice of treatment, wherein about 70% patients can be spared from surgery with an accurate prediction of negative pathological lymph node status. This underscores an unmet need for prognostic biomarkers to stratify the patients who are likely to develop metastases. MATERIALS AND METHODS: We performed high throughput sequencing of fifty four samples derived from HPV negative early stage tongue cancer patients habitual of chewing betel nuts, areca nuts, lime or tobacco using whole exome (n=47) and transcriptome (n=17) sequencing that were analyzed using in-house computational tools...
October 2017: Oral Oncology
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