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https://www.readbyqxmd.com/read/28079948/induction-of-antibodies-directed-against-branched-core-o-mannosyl-glycopeptides-selectivity-complimentary-to-the-cona-lectin
#1
Jin Yu, Oliver C Grant, Christian Pett, Sabine Strahl, Robert J Woods, Ulrika Westerlind
Mammalian protein O-mannosylation comprise a group of post-translational modifications (PTMs) involved in muscle and brain development. Despite the enormous progress made, to date the biological impact of the mammalian O-mannosyl glycoproteome remains largely unknown. Tools are still needed to investigate the structure, role and abundance of O-mannosyl glycans. While O-mannosyl branching has been shown to be of relevance in integrin-dependent cell-migration, and also plays a role in demyelinating diseases, a broader understanding of the biological roles of branched O-mannosyl glycans is lacking in part due to the paucity of detection tools...
January 12, 2017: Chemistry: a European Journal
https://www.readbyqxmd.com/read/28070829/functional-analysis-of-kif20a-a-potential-immunotherapeutic-target-for-glioma
#2
Katsuya Saito, Shigeki Ohta, Yutaka Kawakami, Kazunari Yoshida, Masahiro Toda
Kinesin family member 20A (KIF20A), an ideal cancer-testis antigen, was reported to be a promising immunotherapeutic target for pancreatic cancers. Clinical trials of KIF20A peptide vaccine immunotherapy have been conducted against pancreatic cancers. To demonstrate the efficacy of KIF20A as a candidate molecular target for gliomas, we analyzed the expression and function of KIF20A in gliomas. Western blot and quantitative PCR analyses showed that KIF20A expression in glioma cell lines and glioma tissues was high compared with that found in a normal brain...
January 9, 2017: Journal of Neuro-oncology
https://www.readbyqxmd.com/read/28013407/proteomic-based-biomarker-discovery-for-development-of-next-generation-diagnostics
#3
REVIEW
Akbar Khalilpour, Tugba Kilic, Saba Khalilpour, Mario Moisés Álvarez, Iman K Yazdi
In the post-genome age, proteomics is receiving significant attention because they provide an invaluable source of biological structures and functions at the protein level. The search for disease-specific biomarkers for diagnostic and/or therapeutic applications is one of the areas that proteomics is having a significant impact. Thus, the identification of a "good" biomarker enables a more accurate early diagnosis and prognosis of disease. Rapid advancements in mass spectrometry (MS) instrumentation, liquid chromatography MS (LCMS), protein microarray technology, and other protein profiling methodologies have a substantial expansion of our toolbox to identify disease-specific protein and peptide biomarkers...
January 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28009977/glycan-microarray-reveal-the-sweet-side-of-cancer-vaccines
#4
Vered Padler-Karavani
Advances in genomics and bioinformatics facilitated identification of tumor-specific neoantigens as optimal targets for cancer immunotherapy. In this hot topic, most efforts focus on mutant peptide antigens, overlooking tumor-associated glycosylation changes. Given the latest progress in glycomics, in this issue of Cell Chemical Biology, Xia et al. (2016) use glyco-antigen microarrays to investigate immune responses to whole cancer vaccines and provide important insights into vaccine efficacy.
December 22, 2016: Cell Chemical Biology
https://www.readbyqxmd.com/read/28002485/a-combinatory-antibody-antigen-microarray-assay-for-high-content-screening-of-single-chain-fragment-variable-clones-from-recombinant-libraries
#5
Nina Persson, Bo Jansson, Nicolai Stuhr-Hansen, András Kovács, Charlotte Welinder, Lena Danielsson, Ola Blixt
We have developed a combinatory antibody-antigen microarray for direct screening of multiple single-chain fragment variable (scFv) clones with no need for pre-purification or enrichment before screening. The straightforward workflow allows for early selection of binders to predefined peptide and glycopeptide targets. A capture antibody is contact printed on microarray slides, side by side with the antigens of interest. A large number of scFv clones, in supernatants, are printed on top of the capture antibody and the antigen in a "spot-on-spot" print...
2016: PloS One
https://www.readbyqxmd.com/read/27981498/humoral-immunity-profiling-of-subjects-with-myalgic-encephalomyelitis-using-a-random-peptide-microarray-differentiates-cases-from-controls-with-high-specificity-and-sensitivity
#6
Sahajpreet Singh, Phillip Stafford, Karen A Schlauch, Richard R Tillett, Martin Gollery, Stephen Albert Johnston, Svetlana F Khaiboullina, Kenny L De Meirleir, Shanti Rawat, Tatjana Mijatovic, Krishnamurthy Subramanian, András Palotás, Vincent C Lombardi
Myalgic encephalomyelitis (ME) is a complex, heterogeneous illness of unknown etiology. The search for biomarkers that can delineate cases from controls is one of the most active areas of ME research; however, little progress has been made in achieving this goal. In contrast to identifying biomarkers that are directly involved in the pathological process, an immunosignature identifies antibodies raised to proteins expressed during, and potentially involved in, the pathological process. Although these proteins might be unknown, it is possible to detect antibodies that react to these proteins using random peptide arrays...
December 15, 2016: Molecular Neurobiology
https://www.readbyqxmd.com/read/27980342/evaluation-of-a-tyrosine-kinase-peptide-microarray-for-tyrosine-kinase-inhibitor-therapy-selection-in-cancer
#7
Mariette Labots, Kristy J Gotink, Henk Dekker, Kaamar Azijli, Johannes C van der Mijn, Charlotte M Huijts, Sander R Piersma, Connie R Jiménez, Henk M W Verheul
Personalized cancer medicine aims to accurately predict the response of individual patients to targeted therapies, including tyrosine kinase inhibitors (TKIs). Clinical implementation of this concept requires a robust selection tool. Here, using both cancer cell lines and tumor tissue from patients, we evaluated a high-throughput tyrosine kinase peptide substrate array to determine its readiness as a selection tool for TKI therapy. We found linearly increasing phosphorylation signal intensities of peptides representing kinase activity along the kinetic curve of the assay with 7...
December 16, 2016: Experimental & Molecular Medicine
https://www.readbyqxmd.com/read/27973758/structural-analysis-and-unique-molecular-recognition-properties-of-a-bauhinia-forficata-lectin-that-inhibits-cancer-cell-growth
#8
Jacek Lubkowski, Sarah V Durbin, Mariana C C Silva, David Farnsworth, Jeffrey C Gildersleeve, Maria Luiza V Oliva, Alexander Wlodawer
Lectins have been used at length for basic research and clinical applications. New insights into the molecular recognition properties enhance our basic understanding of carbohydrate-protein interactions and aid in the design/development of new lectins. In this study, we used a combination of cell based assays, glycan microarrays, and X-ray crystallography to evaluate the structure and function of the recombinant Bauhinia forficata lectin (BfL). The lectin was shown to be cytostatic for several cancer cell lines included in the NCI-60 panel; in particular, it inhibited growth of melanoma cancer cells (LOX IMVI) by over 95%...
December 14, 2016: FEBS Journal
https://www.readbyqxmd.com/read/27929733/antibody-repertoire-profiling-with-mimotope-arrays
#9
Shina Pashova, Christoph Schneider, Stephan von Gunten, Anastas Pashov
Large-scale profiling and monitoring of antibody repertoires is possible through next generation sequencing (NGS), phage display libraries and microarrays. These methods can be combined in a pipeline, which ultimately maps the antibody reactivities onto defined arrays of structures - peptides or carbohydrates. The arrays can help analyze the individual specificities or can be used as complex patterns. In any case, the targets recognized should formally be considered mimotopes unless they are proven to be epitopes driving the antibody synthesis...
December 8, 2016: Human Vaccines & Immunotherapeutics
https://www.readbyqxmd.com/read/27919444/mechanistic-genomic-and-proteomic-study-on-the-effects-of-bisgma-derived-biodegradation-product-on-cariogenic-bacteria
#10
Lida Sadeghinejad, Dennis G Cvitkovitch, Walter L Siqueira, Justin Merritt, J Paul Santerre, Yoav Finer
OBJECTIVES: Investigate the effects of a Bis-phenyl-glycidyl-dimethacrylate (BisGMA) biodegradation product, bishydroxypropoxyphenyl-propane (BisHPPP), on gene expression and protein synthesis of cariogenic bacteria. METHODS: Quantitative real-time polymerase chain reaction was used to investigate the effects of BisHPPP on the expression of specific virulence-associated genes, i.e. gtfB, gtfC, gbpB, comC, comD, comE and atpH in Streptococcus mutans UA159. Possible mechanisms for bacterial response to BisHPPP were explored using gene knock-out and associated complemented strains of the signal peptide encoding gene, comC...
December 2, 2016: Dental Materials: Official Publication of the Academy of Dental Materials
https://www.readbyqxmd.com/read/27908274/a-novel-approach-to-probe-host-pathogen-interactions-of-bovine-digital-dermatitis-a-model-of-a-complex-polymicrobial-infection
#11
Paolo Marcatili, Martin W Nielsen, Thomas Sicheritz-Pontén, Tim K Jensen, Claus Schafer-Nielsen, Mette Boye, Morten Nielsen, Kirstine Klitgaard
BACKGROUND: Polymicrobial infections represent a great challenge for the clarification of disease etiology and the development of comprehensive diagnostic or therapeutic tools, particularly for fastidious and difficult-to-cultivate bacteria. Using bovine digital dermatitis (DD) as a disease model, we introduce a novel strategy to study the pathogenesis of complex infections. RESULTS: The strategy combines meta-transcriptomics with high-density peptide-microarray technology to screen for in vivo-expressed microbial genes and the host antibody response at the site of infection...
December 1, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27906504/combination-of-two-epitope-identification-techniques-enables-the-rational-design-of-soy-allergen-gly-m-4-mutants
#12
Heide Havenith, Karolin Kern, Paul Rautenberger, Holger Spiegel, Michael Szardenings, Elke Ueberham, Jörg Lehmann, Matthias Buntru, Simon Vogel, Regina Treudler, Rainer Fischer, Stefan Schillberg
BACKGROUND: Detailed IgE-binding epitope analysis is a key requirement for the understanding and development of diagnostic and therapeutic agents to address food allergies. METHODS: We combined an IgE-specific linear peptide microarray with random phage peptide display for the high-resolution mapping of IgE-binding epitopes of the major soybean allergen Gly m 4, which is a homologue to the birch pollen allergen Bet v1. RESULTS: Three epitopes were identified and mapped to a resolution of four key amino acids, allowing the rational design and the production of three Gly m 4 mutants with the aim to abolish or reduce the binding of epitope-specific IgE...
December 1, 2016: Biotechnology Journal
https://www.readbyqxmd.com/read/27890856/sirna-cell-penetrating-peptides-complexes-as-a-combinatorial-therapy-against-chronic-myeloid-leukemia-using-bv173-cell-line-as-model
#13
João Miguel Freire, Inês Rego de Figueiredo, Javier Valle, Ana Salomé Veiga, David Andreu, Francisco J Enguita, Miguel A R B Castanho
Chronic myeloid leukemia (CML) is a myeloproliferative disorder caused by a single gene mutation, a reciprocal translocation that originates the Bcr-Abl gene with constitutive tyrosine kinase activity. As a monogenic disease, it is an optimum target for RNA silencing therapy. We developed a siRNA-based therapeutic approach in which the siRNA is delivered by pepM or pepR, two cell-penetrating peptides (CPPs) derived from the dengue virus capsid protein. These peptides have a dual role: siRNA delivery into cells and direct action as bioportides, i...
November 24, 2016: Journal of Controlled Release: Official Journal of the Controlled Release Society
https://www.readbyqxmd.com/read/27873207/profiling-phosphopeptide-binding-domain-recognition-specificity-using-peptide-microarrays
#14
Michele Tinti, Simona Panni, Gianni Cesareni
Cellular organization and response to internal and external stimuli are mediated by an intricate web of protein interactions. Some of these interactions are regulated by covalent posttranslational modifications such as phosphorylation and acetylation. These modifications can change the chemical nature of the interaction interfaces and modulate the binding affinity of the interacting partners. In signal transduction, the most frequent modification is reversible phosphorylation of tyrosine, serine or threonine residues...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27873205/protein-protein-interaction-inhibitors-of-brca1-discovered-using-small-molecule-microarrays
#15
Zhenkun Na, Sijun Pan, Mahesh Uttamchandani, Shao Q Yao
Microarray screening technology has transformed the life sciences arena over the last decade. The platform is widely used in the area of mapping interaction networks, to molecular fingerprinting and small molecular inhibitor discovery. The technique has significantly impacted both basic and applied research. The microarray platform can likewise enable high-throughput screening and discovery of protein-protein interaction (PPI) inhibitors. Herein we demonstrate the application of microarray-guided PPI inhibitor discovery, using human BRCA1 as an example...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27867751/t7-phage-display-library-a-promising-strategy-to-detect-tuberculosis-specific-biomarkers
#16
Harvinder Talwar, Jaya Talreja, Lobelia Samavati
One-third of the world's population is infected with tuberculosis, only 10% will develop active disease and the remaining 90% is considered to have latent TB (LTB). While active TB is contagious and can be lethal, the LTB can evolve to active TB. The diagnosis of TB can be challenging, especially in the early stages, due to the variability in presentation and nonspecific signs and symptoms. Currently, we have limited tools available to diagnose active TB, predict treatment efficacy and cure of active tuberculosis, the reactivation of latent tuberculosis infection, and the induction of protective immune responses through vaccination...
June 2016: Mycobacterial Diseases: Tuberculosis & Leprosy
https://www.readbyqxmd.com/read/27865268/epitope-mapping-of-campylobacter-jejuni-flagellar-capping-protein-flid-by-chicken-gallus-gallus-domesticus-sera
#17
Hung-Yueh Yeh, Arife Ezgi Telli, Jarra F Jagne, Christopher L Benson, Kelli L Hiett, John E Line
Campylobacter jejuni, a Gram-negative rod, is a zoonotic pathogen associated with human acute bacterial gastroenteritis worldwide. The flagellum, composed of more than 35 proteins, is responsible for colonization of C. jejuni in the host gastrointestinal tract as well as inducing protective antibodies against the homologous serotype. In our previous study, we demonstrated that the flagellar capping protein (FliD) is an immunodominant protein that reacted strongly to sera from field chickens. In this communication, we mapped linear immunoreactive epitopes on FliD using a set of 158 synthetic peptides of 15-mer overlapping with 11 amino acid residues on peptide microarrays with sera from field chickens...
December 2016: Comparative Immunology, Microbiology and Infectious Diseases
https://www.readbyqxmd.com/read/27864322/escherichia-coli-proteome-microarrays-identified-the-substrates-of-clpyq-protease
#18
Chih-Hsuan Tsai, Yu-Hsuan Ho, Tzu-Cheng Sung, Whei-Fen Wu, Chien-Sheng Chen
Proteolysis is a vital mechanism to regulate the cellular proteome in all kingdoms of life, and ATP-dependent proteases play a crucial role within this process. In Escherichia coli, ClpYQ is one of the primary ATP-dependent proteases. In addition to function with removals of abnormal peptides in the cells, ClpYQ degrades regulatory proteins if necessary and thus let cells adjust to various environmental conditions. In E. coli, SulA, RcsA, RpoH and TraJ as well as RNase R, have been identified as natural protein substrates of ClpYQ...
January 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/27858316/clinical-outcomes-linked-to%C3%A2-expression%C3%A2-of-gene-subsets-for-protein-hormones-and-their-cognate-receptors-from-lcm-procured-breast%C3%A2-carcinoma-cells
#19
Michael W Daniels, Guy N Brock, James L Wittliff
PURPOSE: Certain peptide hormones and/or their cognate receptors influencing normal cellular pathways also have been detected in breast cancers. The hypothesis is that gene subsets of these regulatory molecules predict risk of breast carcinoma recurrence in patients with primary disease. METHODS: Gene expression levels of 61 hormones and 81 receptors were determined by microarray with LCM-procured carcinoma cells of 247 de-identified biopsies. Univariable and multivariable Cox regressions were determined using expression levels of each hormone/receptor gene, individually or as a pair...
November 17, 2016: Breast Cancer Research and Treatment
https://www.readbyqxmd.com/read/27836618/a-new-classification-method-for-maldi-imaging-mass-spectrometry-data-acquired-on-formalin-fixed-paraffin-embedded-tissue-samples
#20
Tobias Boskamp, Delf Lachmund, Janina Oetjen, Yovany Cordero Hernandez, Dennis Trede, Peter Maass, Rita Casadonte, Jörg Kriegsmann, Arne Warth, Hendrik Dienemann, Wilko Weichert, Mark Kriegsmann
Matrix-assisted laser desorption/ionization imaging mass spectrometry (MALDI IMS) shows a high potential for applications in histopathological diagnosis, and in particular for supporting tumor typing and subtyping. The development of such applications requires the extraction of spectral fingerprints that are relevant for the given tissue and the identification of biomarkers associated with these spectral patterns. We propose a novel data analysis method based on the extraction of characteristic spectral patterns (CSPs) that allow automated generation of classification models for spectral data...
November 9, 2016: Biochimica et Biophysica Acta
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