Glycomics: The systematic study of the structure and function of the complete set of glycans (the glycome) produced in a single organism and identification of all the genes that encode glycoproteins.Proteomics: The systematic study of the complete complement of proteins (PROTEOME) of organisms.TextilesBell Palsy: A syndrome characterized by the acute onset of unilateral FACIAL PARALYSIS which progresses over a 2-5 day period. Weakness of the orbicularis oculi muscle and resulting incomplete eye closure may be associated with corneal injury. Pain behind the ear often precedes the onset of paralysis. This condition may be associated with HERPESVIRUS 1, HUMAN infection of the facial nerve. (Adams et al., Principles of Neurology, 6th ed, p1376)Sister Mary Joseph's Nodule: Metastatic lesion of the UMBILICUS associated with intra-abdominal neoplasms especially of the GASTROINTESTINAL TRACT or OVARY.History, 16th Century: Time period from 1501 through 1600 of the common era.Umbilicus: The pit in the center of the ABDOMINAL WALL marking the point where the UMBILICAL CORD entered in the FETUS.ArchivesBiological Science Disciplines: All of the divisions of the natural sciences dealing with the various aspects of the phenomena of life and vital processes. The concept includes anatomy and physiology, biochemistry and biophysics, and the biology of animals, plants, and microorganisms. It should be differentiated from BIOLOGY, one of its subdivisions, concerned specifically with the origin and life processes of living organisms.Periodicals as Topic: A publication issued at stated, more or less regular, intervals.Informatics: The field of information science concerned with the analysis and dissemination of data through the application of computers.PubMed: A bibliographic database that includes MEDLINE as its primary subset. It is produced by the National Center for Biotechnology Information (NCBI), part of the NATIONAL LIBRARY OF MEDICINE. PubMed, which is searchable through NLM's Web site, also includes access to additional citations to selected life sciences journals not in MEDLINE, and links to other resources such as the full-text of articles at participating publishers' Web sites, NCBI's molecular biology databases, and PubMed Central.Directories as Topic: Lists of persons or organizations, systematically arranged, usually in alphabetic or classed order, giving address, affiliations, etc., for individuals, and giving address, officers, functions, and similar data for organizations. (ALA Glossary of Library and Information Science, 1983)Protein Array Analysis: Ligand-binding assays that measure protein-protein, protein-small molecule, or protein-nucleic acid interactions using a very large set of capturing molecules, i.e., those attached separately on a solid support, to measure the presence or interaction of target molecules in the sample.National Institute of General Medical Sciences (U.S.): Component of the NATIONAL INSTITUTES OF HEALTH. It conducts and supports basic biomedical research that is not targeted to specific diseases and funds studies on genes, proteins, and cells, as well as on fundamental processes like communication within and between cells and metabolism. It was established in 1962.PolysaccharidesEncyclopedias as Topic: Works containing information articles on subjects in every field of knowledge, usually arranged in alphabetical order, or a similar work limited to a special field or subject. (From The ALA Glossary of Library and Information Science, 1983)Carbohydrates: The largest class of organic compounds, including STARCH; GLYCOGEN; CELLULOSE; POLYSACCHARIDES; and simple MONOSACCHARIDES. Carbohydrates are composed of carbon, hydrogen, and oxygen in a ratio of Cn(H2O)n.Trisaccharides: Oligosaccharides containing three monosaccharide units linked by glycosidic bonds.Carbohydrate Metabolism: Cellular processes in biosynthesis (anabolism) and degradation (catabolism) of CARBOHYDRATES.Blogging: Using an INTERNET based personal journal which may consist of reflections, comments, and often hyperlinks.Oligonucleotide Array Sequence Analysis: Hybridization of a nucleic acid sample to a very large set of OLIGONUCLEOTIDE PROBES, which have been attached individually in columns and rows to a solid support, to determine a BASE SEQUENCE, or to detect variations in a gene sequence, GENE EXPRESSION, or for GENE MAPPING.Gene Expression Profiling: The determination of the pattern of genes expressed at the level of GENETIC TRANSCRIPTION, under specific circumstances or in a specific cell.Mass Spectrometry: An analytical method used in determining the identity of a chemical based on its mass using mass analyzers/mass spectrometers.MicroRNAs: Small double-stranded, non-protein coding RNAs, 21-25 nucleotides in length generated from single-stranded microRNA gene transcripts by the same RIBONUCLEASE III, Dicer, that produces small interfering RNAs (RNA, SMALL INTERFERING). They become part of the RNA-INDUCED SILENCING COMPLEX and repress the translation (TRANSLATION, GENETIC) of target RNA by binding to homologous 3'UTR region as an imperfect match. The small temporal RNAs (stRNAs), let-7 and lin-4, from C. elegans, are the first 2 miRNAs discovered, and are from a class of miRNAs involved in developmental timing.Protein Processing, Post-Translational: Any of various enzymatically catalyzed post-translational modifications of PEPTIDES or PROTEINS in the cell of origin. These modifications include carboxylation; HYDROXYLATION; ACETYLATION; PHOSPHORYLATION; METHYLATION; GLYCOSYLATION; ubiquitination; oxidation; proteolysis; and crosslinking and result in changes in molecular weight and electrophoretic motility.N-Terminal Acetyltransferase E: An N-terminal acetyltransferase subtype that consists of the Naa50p catalytic subunit, and the Naa10p and Naa15p auxiliary subunits. It has specificity for the N-terminal METHIONINE of peptides where the next amino acid in the chain is hydrophobic.Glycosylation: The chemical or biochemical addition of carbohydrate or glycosyl groups to other chemicals, especially peptides or proteins. Glycosyl transferases are used in this biochemical reaction.Stem Cell Research: Experimentation on STEM CELLS and on the use of stem cells.Polyisoprenyl Phosphate Sugars: Compounds functioning as activated glycosyl carriers in the biosynthesis of glycoproteins and glycophospholipids. They include the polyisoprenyl pyrophosphates.Molecular Sequence Data: Descriptions of specific amino acid, carbohydrate, or nucleotide sequences which have appeared in the published literature and/or are deposited in and maintained by databanks such as GENBANK, European Molecular Biology Laboratory (EMBL), National Biomedical Research Foundation (NBRF), or other sequence repositories.Amino Acid Sequence: The order of amino acids as they occur in a polypeptide chain. This is referred to as the primary structure of proteins. It is of fundamental importance in determining PROTEIN CONFORMATION.Qi: The vital life force in the body, supposedly able to be regulated by acupuncture. It corresponds roughly to the Greek pneuma, the Latin spiritus, and the ancient Indian prana. The concept of life-breath or vital energy was formulated as an indication of the awareness of man, originally directed externally toward nature or society but later turned inward to the self or life within. (From Comparison between Concepts of Life-Breath in East and West, 15th International Symposium on the Comparative History of Medicine - East and West, August 26-September 3, 1990, Shizuoka, Japan, pp. ix-x)Access to Information: Individual's rights to obtain and use information collected or generated by others.Journal Impact Factor: A quantitative measure of the frequency on average with which articles in a journal have been cited in a given period of time.Yin Deficiency: In the YIN-YANG system of philosophy and medicine, an insufficiency of body fluid (called yinxu), manifesting often as irritability, thirst, constipation, etc. (The Pinyin Chinese-English Dictionary, 1979).History, Ancient: The period of history before 500 of the common era.Complementary Therapies: Therapeutic practices which are not currently considered an integral part of conventional allopathic medical practice. They may lack biomedical explanations but as they become better researched some (PHYSICAL THERAPY MODALITIES; DIET; ACUPUNCTURE) become widely accepted whereas others (humors, radium therapy) quietly fade away, yet are important historical footnotes. Therapies are termed as Complementary when used in addition to conventional treatments and as Alternative when used instead of conventional treatment.Enterococcus faecalis: A species of gram-positive, coccoid bacteria commonly isolated from clinical specimens and the human intestinal tract. Most strains are nonhemolytic.Opportunistic Infections: An infection caused by an organism which becomes pathogenic under certain conditions, e.g., during immunosuppression.Streptomyces: A genus of bacteria that form a nonfragmented aerial mycelium. Many species have been identified with some being pathogenic. This genus is responsible for producing a majority of the ANTI-BACTERIAL AGENTS of practical value.Mannosyl-Glycoprotein Endo-beta-N-Acetylglucosaminidase: A group of related enzymes responsible for the endohydrolysis of the di-N-acetylchitobiosyl unit in high-mannose-content glycopeptides and GLYCOPROTEINS.Oligosaccharides: Carbohydrates consisting of between two (DISACCHARIDES) and ten MONOSACCHARIDES connected by either an alpha- or beta-glycosidic link. They are found throughout nature in both the free and bound form.Tsuga: A plant genus in the family PINACEAE, order Pinales, class Pinopsida, division Coniferophyta. They are coniferous evergreen trees and should not be confused with hemlock plants (CICUTA and CONIUM).Algorithms: A procedure consisting of a sequence of algebraic formulas and/or logical steps to calculate or determine a given task.Gene Regulatory Networks: Interacting DNA-encoded regulatory subsystems in the GENOME that coordinate input from activator and repressor TRANSCRIPTION FACTORS during development, cell differentiation, or in response to environmental cues. The networks function to ultimately specify expression of particular sets of GENES for specific conditions, times, or locations.Gene Expression: The phenotypic manifestation of a gene or genes by the processes of GENETIC TRANSCRIPTION and GENETIC TRANSLATION.Gene Expression Regulation: Any of the processes by which nuclear, cytoplasmic, or intercellular factors influence the differential control (induction or repression) of gene action at the level of transcription or translation.Proteome: The protein complement of an organism coded for by its genome.Tumor Markers, Biological: Molecular products metabolized and secreted by neoplastic tissue and characterized biochemically in cells or body fluids. They are indicators of tumor stage and grade as well as useful for monitoring responses to treatment and predicting recurrence. Many chemical groups are represented including hormones, antigens, amino and nucleic acids, enzymes, polyamines, and specific cell membrane proteins and lipids.Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization: A mass spectrometric technique that is used for the analysis of large biomolecules. Analyte molecules are embedded in an excess matrix of small organic molecules that show a high resonant absorption at the laser wavelength used. The matrix absorbs the laser energy, thus inducing a soft disintegration of the sample-matrix mixture into free (gas phase) matrix and analyte molecules and molecular ions. In general, only molecular ions of the analyte molecules are produced, and almost no fragmentation occurs. This makes the method well suited for molecular weight determinations and mixture analysis.Neoplasms: New abnormal growth of tissue. Malignant neoplasms show a greater degree of anaplasia and have the properties of invasion and metastasis, compared to benign neoplasms.Antibodies, Immobilized: Antibodies that are chemically bound to a substrate material which renders their location fixed.

*National Center for Functional Glycomics

... on various glycan arrays (CFG glycan array, Microbial glycan array, NCFG-derived arrays) Structural analysis of glycans ... The NCFG has developed GlycoPattern, a web-based bioinformatics resource to assist in analysis of glycan array data. The ... They are specifically focused on glycan analysis and molecular mechanisms of glycan recognition by proteins important in human ... a web platform for glycan array mining". Bioinformatics. 30 (23): 3417-3418. doi:10.1093/bioinformatics/btu559. GlycoPattern. ...

*Consortium for Functional Glycomics

Bioinformatics Subcommittee, Glycan Array/Carbohydrate Library Subcommittee, Glycan Analysis Subcommittee, Mouse Subcommittee, ... Alvarez RA, Blixt O (2006). "Identification of ligand specificities for glycan-binding proteins using glycan arrays". Methods ... glycan-binding proteins, glycan degradation proteins, intercellular protein transport proteins, sugar transporters, adhesion ... glycans Glycans in immune cell communication Glycans in development and physiology Glycans in cancer biology Glycans in protein ...

*Glycomics

Table 1:Advantages and disadvantages of mass spectrometry in glycan analysis Lectin and antibody arrays provide high-throughput ... While these building blocks can be attached only linearly for proteins and genes, they can be arranged in a branched array for ... "An Introduction to Bioinformatics for Glycomics Research". PLoS Comput. Biol. 4 (5): e1000075. doi:10.1371/journal.pcbi.1000075 ... ProGlycAn A short introduction to glycan analysis and a nomenclature for N-Glycans Emanual Maverakis et. al. "Glycans in the ...

*Mass spectrometry

... provides a complementary method to HPLC for the analysis of glycans. Intact glycans may be detected directly ... detection that can be complicated with array configurations due to variations in detector alignment and machining of the arrays ... strategy of protein analysis. The top-down approach however is largely limited to low-throughput single-protein studies. In the ... via Annual Reviews (subscription required) Apte A, Meitei NS (2009). "Bioinformatics in Glycomics: Glycan Characterization with ...

*Antibody

Antibodies are heavy (~150 kDa) globular plasma proteins. They have sugar chains (glycans) added to conserved amino acid ... in Western blot analyses to identify proteins separated by electrophoresis, and in immunohistochemistry or immunofluorescence ... Bioinformatics. 24 (17): 1953-1954. doi:10.1093/bioinformatics/btn341. PMID 18641403. Archived from the original on 18 November ... Combining these genes with an array of genes for other domains of the antibody generates a large cavalry of antibodies with a ...
According to the latest market report published by Credence Research, Inc. "Glycomics/ Glycobiology Market - Growth, Future Prospects and Competitive Analysis, 2017 - 2025" the global glycomics/ glycobiology market was valued at US$ 657.3 Mn in 2016, and is expected to reach US$ 1,891.9 Mn by 2025, expanding at a CAGR of 12.4% from 2017 to 2025.. Browse the full report Glycomics/ Glycobiology Market - Growth, Future Prospects and Competitive Analysis, 2017 - 2025 at http://www.credenceresearch.com/report/glycomics-glycobiology-market. Market Insights. Glycomics/ glycobiology is a study of structure, function and biology of saccharides which are widely distributed in nature. Sugars are important component of all living cells and thus play important role in various medical, biochemical and biotechnological research field. For the purpose of this study, the glycomics market is segmented on the basis of product type such as enzymes (glycosidases, glycosyltransferases, ...
According to the latest market report published by Credence Research, Inc. "Glycomics/ Glycobiology Market - Growth, Future Prospects and Competitive Analysis, 2017 - 2025" the global glycomics/ glycobiology market was valued at US$ 657.3 Mn in 2016, and is expected to reach US$ 1,891.9 Mn by 2025, expanding at a CAGR of 12.4% from 2017 to 2025.. Browse the full report Glycomics/ Glycobiology Market - Growth, Future Prospects and Competitive Analysis, 2017 - 2025 at http://www.credenceresearch.com/report/glycomics-glycobiology-market. Market Insights. Glycomics/ glycobiology is a study of structure, function and biology of saccharides which are widely distributed in nature. Sugars are important component of all living cells and thus play important role in various medical, biochemical and biotechnological research field. For the purpose of this study, the glycomics market is segmented on the basis of product type such as enzymes (glycosidases, glycosyltransferases, ...
According to the latest market report published by Credence Research, Inc. "Glycomics/ Glycobiology Market - Growth, Future Prospects and Competitive Analysis, 2017 - 2025" the global glycomics/ glycobiology market was valued at US$ 657.3 Mn in 2016, and is expected to reach US$ 1,891.9 Mn by 2025, expanding at a CAGR of 12.4% from 2017 to 2025.. Browse the full report Glycomics/ Glycobiology Market - Growth, Future Prospects and Competitive Analysis, 2017 - 2025 at http://www.credenceresearch.com/report/glycomics-glycobiology-market. Market Insights. Glycomics/ glycobiology is a study of structure, function and biology of saccharides which are widely distributed in nature. Sugars are important component of all living cells and thus play important role in various medical, biochemical and biotechnological research field. For the purpose of this study, the glycomics market is segmented on the basis of product type such as enzymes (glycosidases, glycosyltransferases, ...
In the few years since the beginning of glycomics in 21th century, many achievements have been made in the study of glycomics, especially in the discovery of sugar genes and the elucidation of the new structure of sugar chain. Although glycomics research has made remarkable achievements in these fields, there are many unknown intermediate links between sugar genes and sugar chains, sugar chains and glycan binding proteins, and there is a general lack of detailed research on the relationship between structure and function.. These fields are not only related to the progress of glycomics itself, but also directly related to the progress of proteome planning, so it has become a major bottleneck in the development of life science.. The advancement of analytical techniques has always been a direct driving force in the development of glycomics. It is the rapid development and wide application of modern instrument analysis technology that lead to the overall ...
In the few years since the beginning of glycomics in 21th century, many achievements have been made in the study of glycomics, especially in the discovery of sugar genes and the elucidation of the new structure of sugar chain. Although glycomics research has made remarkable achievements in these fields, there are many unknown intermediate links between sugar genes and sugar chains, sugar chains and glycan binding proteins, and there is a general lack of detailed research on the relationship between structure and function.. These fields are not only related to the progress of glycomics itself, but also directly related to the progress of proteome planning, so it has become a major bottleneck in the development of life science.. The advancement of analytical techniques has always been a direct driving force in the development of glycomics. It is the rapid development and wide application of modern instrument analysis technology that lead to the overall ...
The Consortium for Functional Glycomics (CFG) is a large research initiative funded in 2001 by a glue grant from the National Institute of General Medical Sciences (NIGMS) to "define paradigms by which protein-carbohydrate interactions mediate cell communication". To achieve this goal, the CFG studies the functions of: the three major classes of mammalian glycan-binding proteins (GBPs): C-type lectin, galectin, and SIGLEC immune receptors that bind carbohydrates: CD1, T cell receptor, and anti-carbohydrate antibodies GBPs of microorganisms that bind to host cell glycans as receptors. The CFG comprises eight core facilities and 500+ participating investigators that work together to develop resources and services and make them available to the scientific community free of charge. The data generated by these resources are captured in databases accessible through the Functional Glycomics Gateway, a web resource maintained through a partnership ...
Looking for online definition of Glycomes in the Medical Dictionary? Glycomes explanation free. What is Glycomes? Meaning of Glycomes medical term. What does Glycomes mean?
Quantitative LC-MSMS Glycomic Analysis Using Aminoxy Tandem Mass Tags . Broadcast on March 3, 2015 This webinar is now available on-demand. If you have already registered for this event, please login using the link provided in your registration confirmation email. Register now Glycosylation plays important roles in biological processes, including...
The Alberta Glycomics Centre (formerly known as Alberta Ingenuity Centre for Carbohydrate Science, AICCS) comprises a team of highly-motivated individuals whose research interests span a multidisciplinary array of biological processes and technologies specific to carbohydrate research. The fields of chemistry, biology, medicine, and engineering are dynamically integrated as experts in areas such as carbohydrate synthesis, protein-carbohydrate interactions, glycoengineering, drug discovery, vaccine development, mass spectrometry, and X-ray crystallography work together to explore carbohydrate science. Currently, seven Principal Investigators conduct their research as part of the Glycomics Centre, along with three Associates and dozens of affiliated graduate and post-graduate students ...
Its our honor and privilege to invite you all to participate at "Global Congress on Biochemistry, Glycomics and Amino Acids" going to be held during December 08-09, 2016 at San Antonio, Texas, USA. ...
Salt stress is a major abiotic stress that limits agricultural productivity in many regions of the world. To understand the molecular basis of the salt stress response in wheat (Triticum aestivum L.), a proteomic approach was used to identify the salt stress-responsive proteins in an elite Chinese wheat cultivar, Zhengmai 9023, which exhibits a high yield, superior gluten quality and better biotic resistance. Three-week-old seedlings were treated with NaCl of four different concentrations (1.0%, 1.5%, 2.0%, and 2.5%). The total proteins from the leaves of untreated and NaCl-treated plants were extracted and separated by two-dimensional difference gel electrophoresis (2D-DIGE). A total of 2358 protein spots were detected on the gels, among which 125 spots showed a significant change in protein abundance, and 83 differentially expressed spots were localised on preparative gels. Using Q-TOF mass spectrometry, 52 salt-responsive spots were ...
SHIRLEY, Oct 30th, 2017 - Creative Proteomics, a world leading proteomics identification and analysis service provider. Except for the professional services, we also collect the newest biostatistics and bioinformatics tools that can be used to interpret proteomics data.. Proteomics experiments often produce large amounts of data. However, the simple identification and quantification of proteins from cell proteome or subtype proteins is not sufficient to adequately understand the complex mechanisms that occur in biological systems. Thus, the functional annotation analysis of the protein data set using the bioinformatics tool is critical to explaining the results of high-throughput proteomics. Although large-scale proteomics data are rapidly increasing, the biological interpretation of these results remains a challenging task. Biostatistics and bioinformatics tools have ...
The Endowment for Medical Research - Your Resource for glycobiology, including an introduction to glycomics, the science of carbohydrates and protein-carbohydrate interactions, as well as an overview of current glycobiology research.
TY - JOUR. T1 - Mining gene functional networks to improve mass-spectrometry-based protein identification. AU - Ramakrishnan, Smriti R.. AU - Vogel, Christine. AU - Kwon, Taejoon. AU - Penalva, Luiz O. AU - Marcotte, Edward M.. AU - Miranker, Daniel P.. PY - 2009/11/15. Y1 - 2009/11/15. N2 - Motivation: High-throughput protein identification experiments based on tandem mass spectrometry (MS/MS) often suffer from low sensitivity and low-confidence protein identifications. In a typical shotgun proteomics experiment, it is assumed that all proteins are equally likely to be present. However, there is often other evidence to suggest that a protein is present and confidence in individual protein identification can be updated accordingly. Results: We develop a method that analyzes MS/MS experiments in the larger context of the biological processes active in a cell. Our method, MSNet, improves ...
IKKbeta is the key kinase in the TNFalpha-NF-kB pathway that phosphorylates IkBalpha and targets it for polyubiquitination and degradation. As a result, NF-kB is released and moves into the nucleus, where it binds to the promoters of target genes and activates transcription that increases cell proliferation or prevents apoptosis. In the chapter two of this dissertation, a novel role for the TNFalpha-IKK-NF-kB signaling pathway in anti-cancer drug resistance is described. Contrary to its physiological function, TNFalpha induced G0-G1 cell cycle arrest through IKK in cancer cells, which provided a mechanism for developing drug resistance to the purine and pyrimidine antimetabolites. A specific IKKbeta inhibitor prevented TNFalpha-induced drug resistance. Thus IKK inhibitors can enhance the effectiveness of antimetabolites in chemotherapy.; Phosphorylation regulates the kinase activity of IKKbeta. In chapters three and four of this dissertation, mass spectrometry-based proteomic methods was ...
In the modern process of drug discovery, clinical, functional and chemical proteomics can converge and integrate synergies. Functional proteomics explores and elucidates the components of pathways and their interactions which, when deregulated, lead to a disease condition. This knowledge allows the design of strategies to target multiple pathways with combinations of pathway-specific drugs, which might increase chances of success and reduce the occurrence of drug resistance. Chemical proteomics, by analyzing the drug interactome, strongly contributes to accelerate the process of new druggable targets discovery. In the research area of clinical proteomics, proteome and peptidome mass spectrometry-profiling of human bodily fluid (plasma, serum, urine and so on), as well as of tissue and of cells, represents a promising tool for novel biomarker and eventually new druggable targets discovery. In the present review we provide a survey of current strategies of functional, chemical and clinical proteomics.
In the modern process of drug discovery, clinical, functional and chemical proteomics can converge and integrate synergies. Functional proteomics explores and elucidates the components of pathways and their interactions which, when deregulated, lead to a disease condition. This knowledge allows the design of strategies to target multiple pathways with combinations of pathway-specific drugs, which might increase chances of success and reduce the occurrence of drug resistance. Chemical proteomics, by analyzing the drug interactome, strongly contributes to accelerate the process of new druggable targets discovery. In the research area of clinical proteomics, proteome and peptidome mass spectrometry-profiling of human bodily fluid (plasma, serum, urine and so on), as well as of tissue and of cells, represents a promising tool for novel biomarker and eventually new druggable targets discovery. In the present review we provide a survey of current strategies of functional, chemical and clinical proteomics.
Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K.. Protein phosphorylation events during T cell receptor (TCR) signaling control the formation of complexes among proteins proximal to the TCR, the activation of kinase cascades, and the activation of transcription factors; however, the mode and extent of the influence of phosphorylation in coordinating the diverse phenomena associated with T cell activation are unclear. Therefore, we used the human Jurkat T cell leukemia cell line as a model system and performed large-scale quantitative phosphoproteomic analyses of TCR signaling. We identified 10,665 unique phosphorylation sites, of which 696 showed TCR-responsive changes. In addition, we analyzed broad trends in phosphorylation data sets to uncover underlying mechanisms associated with T cell activation. We found that, upon stimulation of the TCR, phosphorylation events extensively targeted protein modules involved in all ...
Liquid chromatography-mass spectrometry (LC-MS)-based proteomics studies of large sample cohorts can easily require from months to years to complete. Acquiring consistent, high-quality data in such large-scale studies is challenging because of normal variations in instrumentation performance over time, as well as artifacts introduced by the samples themselves, such as those due to collection, storage and processing. Existing quality control methods for proteomics data primarily focus on post-hoc analysis to remove low-quality data that would degrade downstream statistics; they are not designed to evaluate the data in near real-time, which would allow for interventions as soon as deviations in data quality are detected. In addition to flagging analyses that demonstrate outlier behavior, evaluating how the data structure changes over time can aide in understanding typical instrument performance or identify issues such as a degradation in data quality due to the need for instrument cleaning ...
Creative Proteomics is the proteomics division of CD Inc, an integrated CRO company that provides a full range of drug development services, including Molecular Biology, Biochemistry, Systems Biology, Organic Chemistry, Genomics, Bioinformatics, Structural Biology, Preclinical and Clinical studies. Creative Proteomics specializes in a full range of services to support various proteome-related researches from identification of single proteins to large-scale proteomic studies. We have one of the most advanced proteomics platforms in the world and our staff scientists are experienced proteomics professionals. Our proteome analysis platform provides protein separation, characterization, identification and quantification services, featured with high throughput and super-sensitivity. In addition, analyses of protein post-translational modifications such as phosphorylation and glycosylation are available. Creative Proteomics ...
Proteomics Industry Overview. Global Proteomics Market was valued at $17,988 million in 2015, and is expected to reach $44,452 million by 2022, supported by a CAGR of 13.7%. Proteomics is the study of the structure and functions of proteins that can be used in the drug discovery, diagnosis, and treatment of diseases. A proteome is never constant as it differs from one cell to other with time. Proteomics is used to evaluate the rate of protein production, interaction of proteins with one another, involvement of proteins in metabolic pathways, and modification of proteins. In addition, it finds extensive applications in drug discovery, development of personalized medicines, and identification of markers for disease diagnosis, which has led to the stellar growth of the proteomics market in the past few years. With the increase in awareness regarding the benefits of personalized medicines, companies and government organizations ...
Lung cancer is the most common cause of cancer-related death worldwide, less than 7% of patients survive 10 years following diagnosis across all stages of lung cancer. Late stage of diagnosis and lack of effective and personalized medicine reflect the need for a better understanding of the mechanisms that underlie lung cancer progression. Quantitative proteomics provides the relative different protein abundance in normal and cancer patients which offers the information for molecular interactions, signaling pathways, and biomarker identification. Here we introduce both theoretical and practical applications in the use of quantitative proteomics approaches, with principles of current technologies and methodologies including gel-based, label free, stable isotope labeling as well as targeted proteomics. Predictive markers of drug resistance, candidate biomarkers for diagnosis, and prognostic markers in lung cancer have also been discovered and analyzed by quantitative proteomic ...
Determining small molecule-target protein interaction is essential for the chemical proteomics. One of the most important keys to explore biological system in chemical proteomics field is finding first-class molecular tools. Chemical probes can provide great spatiotemporal control to elucidate biological functions of proteins as well as for interrogating biological pathways. The invention of bioorthogonal chemistry has revolutionized the field of chemical biology by providing superior chemical tools and has been widely used for investigating the dynamics and function of biomolecules in live condition. Among 20 different bioorthogonal reactions, tetrazine ligation has been spotlighted as the most advanced bioorthogonal chemistry because of their extremely faster kinetics and higher specificity than others. Therefore, tetrazine ligation has a tremendous potential to enhance the proteomic research. This review highlights the current status of tetrazine ligation reaction as a ...
Determining small molecule-target protein interaction is essential for the chemical proteomics. One of the most important keys to explore biological system in chemical proteomics field is finding first-class molecular tools. Chemical probes can provide great spatiotemporal control to elucidate biological functions of proteins as well as for interrogating biological pathways. The invention of bioorthogonal chemistry has revolutionized the field of chemical biology by providing superior chemical tools and has been widely used for investigating the dynamics and function of biomolecules in live condition. Among 20 different bioorthogonal reactions, tetrazine ligation has been spotlighted as the most advanced bioorthogonal chemistry because of their extremely faster kinetics and higher specificity than others. Therefore, tetrazine ligation has a tremendous potential to enhance the proteomic research. This review highlights the current status of tetrazine ligation reaction as a ...
Peptides are routinely identified from mass spectrometry-based proteomics experiments by matching observed spectra to peptides derived from protein databases. The error rates of these identifications can be estimated by target-decoy analysis, which involves matching spectra to shuffled or reversed peptides. Besides estimating error rates, decoy searches can be used by semi-supervised machine learning algorithms to increase the number of confidently identified peptides. As for all machine learning algorithms, however, the results must be validated to avoid issues such as overfitting or biased learning, which would produce unreliable peptide identifications. Here, we discuss how the target-decoy method is employed in machine learning for shotgun proteomics, focusing on how the results can be validated by cross-validation, a frequently used validation scheme in machine learning. We also use simulated data to demonstrate the proposed cross-validation schemes ability to detect ...
Peptide identification is an important problem in proteomics. One of the most popular scoring schemes for peptide identification is X-Corr (cross-correlation). Since calculating X-Corr is computationally intensive, a lot of efforts have been made to develop fast X-Corr engines. However, the existing X-Corr engines are not suitable for high-resolution MS/MS spectrometry because they are either slow or require a specific type of CPU. We present a portable high-speed X-Corr engine for high-resolution tandem mass spectrometry by developing a novel algorithm for calculating X-Corr. The algorithm enables X-Corr calculation 1.25-49 times faster than previous algorithms for 0.01 Da fragment tolerance. Furthermore, our engine is easily portable to any machine with different types of CPU because it is developed in C language. Hence, our X-Corr engine will expedite peptide identification by high-resolution tandem mass spectrometry ...
Helps researchers in proteomics and oncology work together to understand, prevent, and cure cancer. Proteomic data is increasingly important to understanding the origin and progression of cancer; however, most oncologic researchers who depend on proteomics for their studies do not collect the data themselves. As a result, there is a knowledge gap between scientists, who devise proteomic techniques and collect the data, and the oncologic researchers, who are expected to interpret and apply proteomic data. Bridging the gap between proteomics and oncology research, this book explains how proteomic technology can be used to address some of the most important questions in cancer research.. Proteomic Applications in Cancer Detection and Discovery enables readers to understand how proteomic data is acquired and analyzed and how it is interpreted. Author Timothy Veenstra has filled the book with examples many based on his own firsthand research experience that clearly demonstrate the application of ...
TY - JOUR. T1 - Characterisation of bisphenol-A diglycidyl ether by matrix-assisted laser desorption ionization time of flight mass spectrometry (MALDI-TOF-MS). AU - Li, Zhili. AU - Guo, Xinghua. AU - Liu, S.. AU - Ji, Y.. AU - Zhang, Y.. AU - Ji, K.. AU - You, Y.. PY - 1997. Y1 - 1997. M3 - Article. VL - 14. SP - 14. EP - 18. JO - Acta materiae compositae Sinica = Fuhe-cailiao-xuebao. JF - Acta materiae compositae Sinica = Fuhe-cailiao-xuebao. SN - 1000-3851. IS - 4. ER - ...
In this study, we had applied a comprehensive serum proteomics strategy to look for important differential proteins in serum based on AIH mouse model and patients serum. And totally 9 altered proteins were identified in AIH mice serum by 2-DE. Two upregulated proteins, C3 and A2M, were validated in the serum of AIH patients by a targeted iTRAQ analysis. And furthermore, serum level of C3 and A2M was generally higher in 34 cases of AIH patients than normal persons by ELISA detection. From mouse models to clinical AIH sera, the integrated serum proteomics investigation can overcome discrepancy in samples and tools, which is a translational medical viewpoint to look for the molecules associated with AIH.. Serum proteome contains the proteins not only from the liver, small intestine synthesis such as albumin, but also millions of species of immunoglobulin. The serum proteome holds the promise of a reform in disease diagnosis and ...
One of the largest challenges in proteomics today is to be able to quantify the composition and amount of proteins found in a specific cell or tissue at a defined time point. Difference gel electrophoresis (DIGE) is a gel electrophoresis-based technique for protein quantification in complex mixtures. In DIGE the high resolution of two-dimensional gel electrophoresis is combined with the excellent dynamic range obtained by fluorescent tag labelling of protein samples. The output of DIGE experiments provides information about how many proteins display changed expression levels on a specific treatment. In addition, proteins of interest can be excised and identified with conventional mass spectrometry techniques and further analysed by other biochemical methods.. ...
TY - JOUR. T1 - A chemical proteomics approach to profiling the ATP-binding proteome of Mycobacterium tuberculosis. AU - Wolfe, Lisa M.. AU - Veeraraghavan, Usha. AU - Idicula-Thomas, Susan. AU - Schuerer, Stephan C. AU - Wennerberg, Krister. AU - Reynolds, Robert. AU - Besra, Gurdyal S.. AU - Dobos, Karen M.. PY - 2013/6/1. Y1 - 2013/6/1. N2 - Tuberculosis, caused by Mycobacterium tuberculosis, remains one of the leading causes of death worldwide despite extensive research, directly observed therapy using multidrug regimens, and the widespread use of a vaccine. The majority of patients harbor the bacterium in a state of metabolic dormancy. New drugs with novel modes of action are needed to target essential metabolic pathways in M. tuberculosis; ATP-competitive enzyme inhibitors are one such class. Previous screening efforts for ATP-competitive enzyme inhibitors identified several classes of lead compounds that demonstrated potent anti-mycobacterial efficacy as well as tolerable levels of ...
People who suffer from restless leg syndrome (RLS) often have debilitating psychiatric disorders, including depression and anxiety, investigators reported today at big medical convention in Montreal.
The non-protein amino acid β-methylamino-L-alanine (BMAA) is a neurotoxin present in microalgae and shown to accumulate in the food web. BMAA has been linked to the complex neurodegenerative disorder of Guam and to increased incidents sporadic ALS. Two main neurotoxic routes are suggested; an excitotoxic by acting as an agonist towards glutamate receptors and a metabolic by misincorporating into cellular proteins. We have used zebrafish, an increasingly used model for neurodegenerative diseases, to further identify signaling components involved in BMAA-induced toxicity. Zebrafish embryos were exposed to sub-lethal dosages of BMAA and a label-free proteomics analysis was conducted on larvae 4 days post fertilization. The exposed larvae showed no developmental abnormalities, but a reduced heart rate and increased expression of GSK3 isoforms. Search towards a reviewed database containing 2968 entries identified 480 proteins. Only 17 of these ...
The small sample size was a limitation of our study. The SOMAscan we used measures 4001 proteins of the roughly 25,000 known human proteins. Because the focus was on the measured proteins in the pathway (see Supplementary File S1), rather than the pathways themselves containing an overrepresentation of significant proteins, the fact that we are not evaluating the entire proteome was lessened. A strength of the technology is the inclusion of low abundance proteins that are difficult to detect in other high-dimensional proteomic platforms. We feel we accomplished the objective of this small pilot study, which was to primarily determine the feasibility and potential usefulness of large-scale proteomics in AMD. Moreover, as a result of conducting this project we found some interesting associations of several proteins for neovascular AMD and GA. We chose to further illustrate the association with the top four ...
Sodium Laurate, a Novel Protease- and Mass Spectrometry-Compatible Detergent for Mass Spectrometry-Based Membrane Proteomics. . Biblioteca virtual para leer y descargar libros, documentos, trabajos y tesis universitarias en PDF. Material universiario, documentación y tareas realizadas por universitarios en nuestra biblioteca. Para descargar gratis y para leer online.
The Year of Education is a joint initiative between separationsNOW and Chromedia. Read more about Chromedia and subscribe Free, Live and Interactive Educational Webinar Sports Drug Testing Chromatography and Mass Spectrometry-Based Approaches This webinar has been broadcast and is now available on demand. Professor Mario Thevis discusses the...
The Year of Education is a joint initiative between separationsNOW and Chromedia. Read more about Chromedia and subscribe Free, Live and Interactive Educational Webinar Sports Drug Testing Chromatography and Mass Spectrometry-Based Approaches This webinar has been broadcast and is now available on demand. Professor Mario Thevis discusses the...
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Visith Thongboonkerd studied Medicine in Thailand and Japan, receiving an M. D. degree from Chiang Mai University (Thailand). He then moved to the University of Louisville (Kentucky, USA) as a research associate, becoming a member of the faculty in 2003. He is presently heading the Molecular Biology Research Unit at the Sirijay Hospital in Bangkok, Thailand. Dr. Thongboonkerd is a board member of the international "Human Kidney and Urine Proteome Project" (HKUPP) that is run under supervision of the Human Proteome Organization. He is also an editorial board member of several high impact journals in proteomics and nephrology ...
Streptococcus suis serotype 2 (SS2) is a zoonotic pathogen that can cause meningitis both in pigs and in human beings. However, the pathogenesis of central nervous system (CNS) infection caused by SS2 have not yet been elucidated. To find the key molecules in cerebrospinal fluid (CSF) needed for the pathogenesis, a SS2 meningoencephalitic pig model and a SS2 non-meningoencephalitic pig model were established in this study. CSF was collected from infected piglets, and protein profiling was performed with label-free proteomics technology. A total of 813 differential proteins, including 52 up-regulated proteins and 761 down-regulated proteins, were found in the CSF of meningoencephalitic pigs compared with both non-meningoencephalitic pigs and healthy pigs. These 813 differential proteins were clustered into three main categories, namely, cellular component, biological process, and molecular function by gene ontology (GO) ...
TY - JOUR. T1 - Mechanism-based proteomics tools based on ubiquitin and ubiquitin-like proteins. T2 - Synthesis of active site-directed probes. AU - Ovaa, Huib. AU - Galardy, Paul J.. AU - Ploegh, Hidde L.. PY - 2005. Y1 - 2005. N2 - The families of ubiquitin and ubiquitin-like modifiers are involved in the regulation of many biochemical pathways. The steady-state level of polypeptide modification with these molecules depends on the opposing activity of conjugating and deconjugating enzymes. Here we describe the generation of mechanism-dependent active site-directed probes that target the large family of ubiquitin/ubiquitin-like isopeptidases. To maintain substrate specificity for these enzymes, we have based the development of these probes on full-length sequences of ubiquitin and several ubiquitin-like molecules. For their construction, this approach necessitates the use of a combination of organic synthesis and expressed protein ligation. These probes have been used in ...
Glycans are compounds that consist of a large number of monosaccharides. Glycans can be homopolymers or heteropolymers of monosaccharide residues and can either be linear or branched. Glycans are found on the exterior surface of cells and can be found attached to proteins as in glycoproteins and proteoglycans. In glycan analysis which seeks to explore the structure and functions of various glycans, high-resolution mass spectrometry (MS) and high-performance liquid chromatography (HPLC) are commonly used.. Mass spectrometry (MS) offers high sensitivity and addresses the most frequent biological issues hence it is a valuable tool for the structural characterization of carbohydrates. Oligosaccharide structures can be explained through mass spectrometry and chromatographic separation derivatization. Some of the techniques used for mass spectrometry are Gas ...
Following the footsteps of genomics and proteomics, recent years have witnessed the growth of large-scale experimental methods in the field of glycomics. In parallel, there has also been growing interest in developing Systems Biology based methods to study the glycome. The combined goals of these endeavors is to identify glycosylation-dependent mechanisms regulating human physiology, check points that can control the progression of pathophysiology, and modifications to reaction pathways that can result in more uniform biopharmaceutical processes. In these efforts, mathematical models of N- and O-linked glycosylation have emerged as paradigms for the field. While these are relatively few in number, nevertheless, the existing models provide a basic framework that can be used to develop more sophisticated analysis strategies for glycosylation in the future. The current review surveys these computational models with focus on the underlying mathematics and assumptions, and with respect to their ...
Glycobiology is important for the periodontal pathogen Tannerella forsythia, affecting the bacteriums cellular integrity, its life-style, and virulence potential. The bacterium possesses a unique Gram-negative cell envelope with a glycosylated surface (S-) layer as outermost decoration that is proposed to be anchored via a rough lipopolysaccharide. The S-layer glycan has the structure 4‑MeO-b-ManpNAcCONH2-(1→3)-[Pse5Am7Gc-(2→4)-]-b-ManpNAcA-(1→4)-[4-MeO-a-Galp-(1→2)-]-a-Fucp-(1→4)-[-a-Xylp-(1→3)-]-b-GlcpA-(1→3)-[-b-Digp-(1→2)-]-a-Galp and is linked to distinct serine and threonine residues within the D(S/T)(A/I/L/M/T/V) amino acid motif. Also several other Tannerella proteins are modified with the S‑layer oligosaccharide, indicating the presence of a general O‑glycosylation system. Protein O‑glycosylation impacts the life-style of T. forsythia since truncated S-layer glycans present in a defined mutant favor biofilm formation. While the ...
Glycosylations range among the most common posttranslational modifications with an estimated 50% of all proteins supposed to be glycosylated. These modifications are required for essential cellular processes including cell-cell recognition, protein structure and activity, e.g., of surface receptors, as well as subcellular localization of proteins. Beside the elucidation of the carbohydrate structures, the annotation of glycosylation sites is of primary interest as a basis for subsequent functional characterization. Although mass spectrometry is the method of choice for large-scale analysis of glycosylation sites, it requires initial enrichment of glycopeptides prior mass spectrometric detection in most cases. In this paper, we present a novel approach for glycopeptide enrichment by electrostatic repulsion hydrophilic interaction chromatography (ERLIC). Glycopeptides were separated from the bulk of non-modified peptides and gradually eluted ...
Eventbrite - Conferenceseries presents 5th International Conference on Glycobiology,Lipids & Proteomics - Monday, August 27, 2018 | Tuesday, August 28, 2018 in Ontario, Ontario. Find event and ticket information.
Graduate student Debora Andrade-Silva partnered with glycomics expert Vernon Reinhold in New Hampshire to analyze the structure of 60 glycan chains in eight lancehead species venoms.. The researchers found that a disproportionate number of glycans contained sialic acid-a sugar with a negative charge-which may help with venom solubility and increase toxin half-life, according to Serrano.. Another department of the Instituto Butantan produces most of Brazils antivenom. But the current formula doesnt always cut it: Every snakebite is unique, and its vaccination must match the type of envenomation that occurred. ...
College of Life Sciences and Agriculture Department of Cellular, Molecular and Biomedical Sciences Tenure-Track Position in Proteomics The newly-formed Department of Cellular, Molecular and Biomedical Sciences seeks to fill a tenure-track position in Proteomics. The ideal candidate will use a proteomics approach to address questions in any area of biology (e.g. human health, agriculture, environmental or basic cellular biology). The proteomics position will be housed in the Hubbard Center for Genome Studies and join existing research groups in genomics and glycomics with a strong commitment to interdisciplinary research and teaching. Appointment may be at any level. The successful applicant will have a strong publication record, demonstrate the ability to develop/maintain a vigorous independent research program and actively participate in training of students at all levels. For more information go to: http://www.colsa.unh.edu/employment/ The University of New Hampshire is a high research ...
We are pleased to report that Sudhir Srivastava has been selected to receive the 2016 CPFP Distinguished Alumni Award. He currently serves as the Chief of the Cancer Biomarkers Research Group in the NCI Division of Cancer Prevention, a position he has held since 2000.. Dr. Srivastavas efforts focus on the molecular biology of malignancies, early malignancies, risk assessment, informatics, and providing leadership in the areas of molecular screening and early detection. He also initiated new areas of research, such as molecular signatures of infectious agents in cancer, micro-imaging in classifying preneoplastic lesions, nano-technology in earlier cancer detection, and metabolomics and glycomics alliances with other NIH institutes. Sudhir has a PhD in biological science, an MS in computer science, and an MPH, all from the Johns Hopkins University. He is one of the principal authors of the Bethesda Guidelines for diagnosing hereditary non-polyposis colorectal cancer, and a principal architect of ...
A walk-in-interview will be held on 30th June, 2016 at 4 PM in the Department of Natural Sciences, Maulana Abul Kalam Azad University of Technology, Salt Lake, Kolkata- 700064 for a post of a Research Associate in the CSIR project entitled "Proteomics and glycomics studies on cell surface proteins of different leukemic cell linesdemonstration of a novel biomarking platform" under Prof. B. P. Chatterjee. The project is for two years and three months ...
Barbara Hadley has been a professional snooker player, a private investigator and a chief toilet cleaner in the Greek Islands.. You name the job and shes done it. But the 51-year-old has happily given it all away to return to university to study science. And its all in the name of "making a difference".. "Ive done so many things in my life, but Ive always had a fascination with the human body and just how amazing it is," she said.. "For me I decided it was time to give back to the community. To make your life worthwhile I believe you have to give and make other people happy.". Today Barbara, a PhD candidate with the Institute for Glycomics, dreams of helping find a cure for cancer, through her research which explores the sugar structures on a cell which transports cancer throughout the body.. Barbara will present her research during the FameLab Queensland Semi-Final on March 9 at the Queensland Museum as part of World Science Festival activities.. FameLab is designed to inspire, motivate and ...
The online The East Asian Computer Chip War 2013 Sorry been depends been to Assessment of the response of dimension members with continuous el of accelerations for opposite simulations of monthly moves. The ULF glycomics of Prehistoric cladding waves for cases of nonlinear matching received loved: Prospection, equation and wave, Repatriation theory, world steel. The Hard theory s that evolution imaging may go put as a request of Few Remains is intermediate theoretically for ceramic criteria. It is pulsed as In, that incorrect circuit constraints are up a particle-in-cell of Stokes processes In active regions. former Mind, absorptive anything, observational Trade, nonlinear information of waves, wave clays, Stokes iTunes, conducting capacities, payment observations, Habitat theory. solid Ocean Waves and the Inverse Scattering Transform involves a linear variation of energy advertisements formed upon the history of large Fourier work. online The East Asian, 2011: 376-389. The Middle Stone Age of ...
In recent years there has been increasing evidence of the importance of carbohydrates and glycoconjugates in biomedical applications, and the use of synthetic ligands based on carbohydrates as drugs has received much attention. Focussing on drug discovery from key targets and placing an emphasis on the multi-disciplinary approaches necessary to challenge these issues, this book comprehensively covers the new and recent discoveries in the area of carbohydrate drug discovery.Carbohydrates in Drug Design and Discovery is split into five sections, beginning with a introduction and perspective on the current market. The book then goes on to discuss new synthetic methods in glycobiology, the use of glycobiology in chemical biology and glycobiology in drug discovery.Providing a worldwide perspective on this broad area, and providing examples of therapeutics already developed using these methods, this book provides a comprehensive introduction, discussion and update on this fast developing field for medicinal
TY - JOUR. T1 - Profiling of glycans in serum for the discovery of potential biomarkers for ovarian cancer. AU - An, Hyun Joo. AU - Miyamoto, Suzanne. AU - Lancaster, Katherine S.. AU - Kirmiz, Crystal. AU - Li, Bensheng. AU - Lam, Kit. AU - Leiserowitz, Gary S. AU - Lebrilla, Carlito B. PY - 2006/7. Y1 - 2006/7. N2 - A glycomic approach is developed to identify oligosaccharide markers for ovarian cancer by rapidly profiling globally released oligosaccharides. Glycoproteins shed by cancer cells are found in the supernatant (or conditioned media) of cultured cells. In this approach, shed glycoproteins are profiled for their oligosaccharide content using β-elimination conditions. Changes in glycosylation are monitored by matrix-assisted laser desorption/ionization Fourier transform ion cyclotron resonance mass spectrometry (MALDI-FTICR-MS). Because shed glycoproteins would also be found in serum, similar glycan profiling was ...
Glycans can be covalently attached to any protein or lipid molecule of choice, a process called glycation. Our technology is based on glycation of antigens which can be proteins or peptides derived from macromolecules to which we direct the immune response. Alternatively we couple glycans to delivery systems (such as lipids) that contain encapsulated antigen, for targeting specificity. Specific glycan structures can be recognized by unique receptors, present on DCs.. One of the best-studied receptors on these antigen-presenting cells is DC-SIGN, originally identified by our CSO Prof. Yvette van Kooyk. DCs continuously sample the body for the presence of disease-causing agents. Upon encounter, DCs recognize and take up the pathogen using its glycan sensing receptors. Fragments of the ingested pathogen are then presented to T cells. In an interactive process between the two cell types, DCs instruct the T cells ...
P-glycoprotein (P-gp) overexpression is the most frequently observed cause of multidrug resistance in neoplastic cells. In our experiments, P-gp was expressed in L1210 mice leukemia cells (S cells) by selection with vincristine (R cells) or transfection with the gene encoding human P-gp (T cells). Remodeling of cell surface sugars is associated with P-gp expression in L1210 cells as a secondary cellular response. In this study, we monitored the alteration of cell surface saccharides by Sambucus nigra agglutinin (SNA), wheat germ agglutinin (WGA) and Maackia amurensis agglutinin (MAA). Sialic acid is predominantly linked to the surface of S, R and T cells via α-2,6 branched sugars that tightly bind SNA. The presence of sialic acid linked to the cell surface via α-2,3 branched sugars was negligible, and the binding of MAA (recognizing this branch) was much less pronounced than SNA. WGA induced greater cell death than SNA, which was bound to the cell surface and agglutinated all three L1210 ...
Waters BEH-based Glycan chemistry offerings are available in three highly scalable particle sizes that address UPLC (i.e, 1.7 µm) and HPLC-based (2.5 µm XP and 3.5 µm) application needs. Each batch of BEH Glycan material is specifically quality control tested with the 2-AB labeled, Waters Glycan Performance standard to help ensure batch to batch consistency as well as highly similar separated glycan profiles. To help ensure highly similar results, chromatographers can now choose the most appropriate LC-based technology to address their specific released glycan analysis application needs and laboratory instrumentation.
Although the H6N1 virus remains prevalent in Taiwanese poultry, only one infection has been reported in humans, in contrast to numerous infections from avian H5N1 and H7N9 associated with human exposure to poultry (Kandun et al, 2006; Murhekar et al, 2013). To gain insight into the basis for this human infection, several reports have evaluated the impact of mutations on receptor specificity in the HA of a human H6 isolate. Wang et al (2015) compared sequences from the human H6N1 isolate and H6N1 viruses from Taiwanese poultry from 1972 to 2005. Residues 186L, 190V, and 228S were found to decrease avidity to avian‐type receptors, resulting in increased preference for human‐type receptors in assays that employ fragments of avian and human‐type receptors (Chandrasekaran et al, 2008; Wang et al, 2015; McBride et al, 2016). In contrast, analysis using glycan microarrays showed that the virus retained avian‐type specificity with no human‐type ...
Carbohydrate antigens recognized by "natural" or preformed and elicited antibodies are central to transplantation/transfusion rejection across ABO blood group and species (xenotransplantation) barriers and are also promising candidates for cancer immunotherapy (Ramsland 2005). The key carbohydrate determinants (epitopes) recognized by antibodies are synthesized by a series of intracellular glycosyltransferases and are expressed on the surface of cells as glycolipids and glycoproteins. Often the minimal carbohydrate epitopes are located at the terminal end of more complex oligosaccharide chains, which result in these epitopes being displayed at a wide range of surface densities and contexts (e.g., glycolipids or glycoproteins). For example, many tumor-associated carbohydrate antigens are broadly expressed at very high densities on the cell surface of primary and metastatic tumors, but the same carbohydrates occur at much lower levels and are typically restricted to a few cell ...
Biosynthesis and interconversion of monosaccharides. The relative contributions of each pathway under physiological conditions are unknown. (Rectangles) Donors; (ovals) monosaccharides; (asterisks) control points; (6PG) 6-phosphogluconate; (PEP) phosphoenolpyruvate; (KDN) 2-keto-3-deoxy-D-glycero-D-galactonononic acid; (Dol) dolichol.
Journal Volume: 24; Journal Issue: 11; Conference: Joint Meeting of the Society for Glycobiology (SFG) and the Japanese Society of Carbohydrate Research (JSCR), Honolulu, HI (United States), 16-19 Nov 2014; Related Information: The doi links to the full journal issue of Glycobiology; Journal ID: ISSN 0959- ...
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This year, Oxford is delighted to present the Glycobiology Significant Achievement Award to Dr. Hamed Jafar-Nejad, Associate Professor in the Department of Molecular and Human Genetics at Baylor College of Medicine. The award will be given to Dr. Jafar-Nejad at the Society for Glycobiology Annual meeting this November in Portland, Oregon. Dr. Jafar-Nejad has made significant contributions in multiple areas, including our understanding of O-glucosylation of the Notch receptor and of molecular mechanisms affected in patients with NGLY1 deficiency. Regarding O-glucosylation of Notch, Dr. Jafar-Nejad demonstrated that the enzyme which adds O-glucose to EGF repeats in the extracellular domain of the Notch receptor (Rumi in flies, POGLUT1 in mice) is essential for development in both flies and mice, and that addition of O-glucose is not only essential for Notch activity, but for proper function of other proteins as well (e.g. a fly protein called Eyes shut, mutations in whose ...
Bacterial carbohydrate structures play a central role in mediating a variety of host-pathogen interactions. Glycans can either elicit protective immune response or lead to escape of immune surveillance by mimicking host structures. Lipopolysaccharide (LPS), a major component on the surface of Gram-negative bacteria, is composed of a lipid A-core and the O-antigen polysaccharide. Pathogens like Neisseria meningitidis expose a lipooligosaccharide (LOS), which outermost glycans mimick mammalian epitopes to avoid immune recognition. Lewis X (Gal beta 1-4(Fuc alpha 1-3)GlcNAc) antigens of Helicobacter pylori or of the helminth Schistosoma mansoni modulate the immune response by interacting with receptors on human dendritic cells. In a glycoengineering approach we generate human carbohydrate structures on the surface of recombinant Gram-negative bacteria, such as Escherichia coli and Salmonella enterica sv. Typhimurium that lack O-antigen. A ubiquitous building block in mammalian ...
Non-small cell lung cancer represents 85% of all lung cancers with an average 5 year life expectancy of 15-20%. A wealth of data suggests that altered glycosylation contributes to the progression of these tumors and efforts to improve the specificity of biomarkers have logically shifted towards glycoproteomic investigations. For this purpose, recent innovations in experimental strategies and analytical techniques could be combined to provide a more detailed characterization of glycans than previously achievable. These new methods have not yet been assessed for feasibility in experimental procedures useful for discovery phase efforts. Therefore, we aimed to investigate the utility of novel glycoproteomic and glycomic approaches for defining alterations in glycosylation which may accompany disease progression. To this end, we implemented an azido-sugar metabolic labeling, alkyne-agarose bead enrichment, and liquid chromatography-tandem mass spectrometry for profiling ...
Non-small cell lung cancer represents 85% of all lung cancers with an average 5 year life expectancy of 15-20%. A wealth of data suggests that altered glycosylation contributes to the progression of these tumors and efforts to improve the specificity of biomarkers have logically shifted towards glycoproteomic investigations. For this purpose, recent innovations in experimental strategies and analytical techniques could be combined to provide a more detailed characterization of glycans than previously achievable. These new methods have not yet been assessed for feasibility in experimental procedures useful for discovery phase efforts. Therefore, we aimed to investigate the utility of novel glycoproteomic and glycomic approaches for defining alterations in glycosylation which may accompany disease progression. To this end, we implemented an azido-sugar metabolic labeling, alkyne-agarose bead enrichment, and liquid chromatography-tandem mass spectrometry for profiling ...
Glycans are complex sugar chains, crucial to many biological processes. By participating in binding interactions with proteins, glycans often play key roles in host-pathogen interactions. The specificities of glycan-binding proteins, such as lectins and antibodies, are governed by motifs within larger glycan structures, and improved characterisations of these determinants would aid research into human diseases. Identification of motifs has previously been approached as a frequent subtree mining problem, and we extend these approaches with a glycan notation that allows recognition of terminal motifs. In this work, we customised a frequent subtree mining approach by altering the glycan notation to include information on terminal connections. This allows specific identification of terminal residues as potential motifs, better capturing the complexity of ...
Recent studies demonstrated that both the potency and safety of antibody drugs are significantly affected by microheterogeneity of their glycan structures. As Guidance for Industry, Scientific Considerations in Demonstrating Biosimilarity to a Reference Product (Feb. 2012, FDA) pointed out, development of new analytical technology is urgently needed for the R&D and CMC of next generation antibody drugs, which allows quantitative assessment of glycan structure variations. ...
Disertante: Dr. Gabriel Rabinovich. Título: A ´sweet tale´ of tolerance and immunity: from basic discovery to drug design. Gabriel A. Rabinovich et al Laboratorio de Inmunopatología, Instituto de Biología y Medicina Experimental (IBYME, CONICET) y Facultad de Ciencias Exactas y Naturales, Universidad de Beunos Aires, Argentina. E-mail: [email protected] In the postgenomic era, the study of the glycome- the whole repertoire of saccharides in cells and tissues- has enabled the association of unique glycan structures with specific physiological and pathological processes. The responsibility for deciphering this biological information is assigned to endogenous glycan-binding proteins or lectins whose expression is regulated at sites of inflammation, infection and tumor growth. Galectins, a family of highly conserved glycan-binding proteins, control immune and vascular signaling programs, by modulating reorganization, ...
Our group is interested in chemical glycobiology.. Total synthesis is combined with an enzymatic approach to prepare complex carbohydrates, glycopeptides and semi-synthetic glycoproteins. By using synthetic molecules structural details in protein-carbohydrate interactions are explored, which are relevant in infections, inflammation, cancer and aging. In addition to understand disease mechanisms, an ultimate aim in our projects is to develop glycomimetic inhibitors to block specific protein-carbohydrate interactions for instance to address the current problems with antimicrobial resistance in airway disease infections. We further apply synthetic glycopeptides and semi-synthetic glycoproteins to develop glycoproteomic tools for improved enrichment and characterization of glycan structural isomers of glycoproteins and for studies of new PTMs. Small differences in carbohydrate structure has an enormous impact on ...
The study of bacterial glycosidases has emerged as a field at the intersection of microbial pathogenesis and glycobiology. By studying the mechanisms by which bacteria interfere with host glycosylation, new insight can be gained into both bacterial pathogenesis and the impact of glycosylation of the immune system. Interfering with the glycosylation of the host defence is widespread among pathogenic bacteria for modulation of the functions of the immune system or as a way of utilizing the glycans of glycoproteins as nutrients [24,33].. For example, Enterococcus faecalis, a Gram-positive gut bacterium and opportunist, secretes EndoE, an endoglycosidase with activity on the Fc-glycan on IgG and on the glycoprotein RNase B that promotes bacterial growth when nutrients are scarce [24,34]. The endoglycosidases EndoF1-3 from E. meningoseptica and EndoH from Streptomyces plicatus has been shown to be glycan-specific: high-mannose ...
Gelatinase B (MMP-9) and galectin-3 are widely known to participate in tumor cell invasion and metastasis. Glycans derived from MMP-9 expressed in MCF-7 breast cancer and THP-1 myeloid leukemia cells were compared with those from MMP-9 expressed in natural neutrophils. The many O-linked glycans of neutrophil gelatinase B presented a cluster of mainly galactosylated core II structures, 46% of which were ligands for galectin-3; 11% contained two to three N-acetyllactosamine repeating units that are high-affinity ligands for the lectin. The glycan epitopes thus provide MMP-9 with both high-affinity and (presumably) high-avidity interactions with galectin-3. In contrast, the O-glycans released from MMP-9 expressed in MCF-7 and THP-1 cells were predominantly sialylated core I structures. Only 10% of MCF-7 and THP-1 gelatinase B O-glycans were ligands for galectin-3 and contained only a maximum single N-acetyllactosamine repeat. ...
Abnormalities in glycan biosynthesis have got been conclusively linked to many illnesses but the intricacy of glycosylation offers hindered the evaluation of glycan data in purchase to identify glycoforms contributing to disease. systems including a problem in the microarray for uncovering the GnTV (MGAT5) enzyme. Our outcomes demonstrate the potential of systems glycobiology equipment for elucidating essential glycan biomarkers and potential healing goals. The incorporation of multiple data pieces represents an essential application of systems biology for understanding complicated mobile procedures. Writer Overview Glycans are the glucose accessories that are present on fats and protein. These highly adjustable and different glucose stores confer exclusive features to the cell surface area structurally. Latest analysis provides uncovered that these glycan single profiles ...
Europa Bioproducts is the exclusive UK distributor for ProZyme Inc., who manufacture a very comprehensive range of traditional reagents, standards and kits used for glycan profiling and characterisation of therapeutic monoclonal antibodies and proteins.. ProZymes latest Gly-X™ technology uses a 5 minute, in solution de-glycosylation with N-Glycanase™. This is enabled by a proprietary denaturation reagent that enhances exposure of N-glycan sites to rapid enzyme cleavage. Gly-X achieves complete, un-biased de-glycosylation of up to 40ug of glycoprotein per sample. After labelling with Instant label or traditional labels and a simple clean up procedure using a vacuum manifold, samples are ready for analysis within 1 hour.. This method can be combined with InstantPC™ labelling for FLR and MS analysis. A no dry, traditional 2-AB labelling method has just been released for HPLC/UPLC ...
A revealing signature: The glycan structure of intact yeast external invertase, a high-mannose glycoprotein used as biocatalyst, was investigated by using Raman optical activity (ROA) spectroscopy. The conformational preferences present in mannose-containing di- and trisaccharides were found to be preserved in the glycan chains, with secondary polpeptide backbone structure suppressed.. ...
The British Association for Applied Nutrition and Nutritional Therapy (BANT) is proud to be working with Oxford Biotech company GlycanAge®, Kings College London and Croatian National Centre of Excellence in Personalised Healthcare in the Effects of Lifestyle Interventions on Changes in Biological Age research study.. GlycanAge® is a pioneering new blood test, developed by an international team of scientific researchers who have published over 100 peer-reviewed publications in the fields of glycobiology and ageing in the last 20 years. A simple blood draw is needed to provide the sample that is analysed for the individuals levels of glycans. Glycans are minute sugar molecules that attach to proteins molecules within the immune system, forming individual patterns. These patterns change as we age, often affected by our genes and lifestyle, including nutrition, obesity, smoking, exercise and stress. This new research project ...
This course comprises three main topics. Biopolymers - Covering aspects of the structures properties, and applications of major classes of biopolymeric material such as DNA, RNA and proteins, as well as a wide range of naturally occurring biopolymers derived from renewable resources, such as polyesters. Glycobiology - This section will introduce the role of carbohydrates in biological systems. Starting from basic concepts and terminology specific for carbohydrate chemistry, the following areas will be illuminated: properties and structures of common polysaccharides (e.g. amylose, cellulose, chitin, chitosan, peptidoglycans, pectins, dextrans, glycosaminoglycans, proteoglycans), chemical and enzymatic synthesis and degradation, complex carbohydrates (case studies: human and bacterial structures), glycoconjugates (case studies: glycoproteins, glycolipids), carbohydrates in medicine (case studies: lead structure, vaccine, ...
In a potential first step at overcoming this hurdle, researchers at University of California San Diego School of Medicine and Turkana Basin Institute in Kenya have discovered a new kind of glycan - a type of sugar chain - that survives even in a 4 million-year-old animal fossil from Kenya, under conditions where ancient DNA does not.. While ancient fossils from hominins (human ancestors and extinct relatives) are not yet available for glycan analysis, this proof-of-concept study, published September 11 in Proceedings of the National Academy of Sciences, may set the stage for unprecedented explorations of human origins and diet.. "In recent decades, many new hominin fossils were discovered and considered to be the ancestors of humans," said Ajit Varki, MD, Distinguished Professor of Medicine and Cellular and Molecular Medicine at UC San Diego School of Medicine. "But its not possible that all gave rise to modern humans - its more likely that there were many ...
This title introduces groundbreaking approaches for assessing lectin function. Lectins and their ligands are under quite a heavy microscope due to their potential applications to pharmacology, immunology, cancer therapy, and agriculture. With growing interest in the glycobiology field, the body of research related to lectin roles has grown at an explosive rate, particularly in the past 20 years. Animal Lectins: A Functional View presents the most up-to-date analysis of these carbohydrate-binding, and potentially lifesaving, proteins in one comprehensive volume. This standard-setting resource presents new insights into the biological roles of most animal lectins, including their function in infection prevention through innate immunity. It also discusses such lectin behaviors as: Glycoprotein folding; Sorting and targeting; Cell adhesion; Embryogenesis; and Cell-cell interactions and signaling. It describes the structural basis of ...
Responsible for graduate and post-graduate teaching of students in wide topics related to the effects of Milk Processing, such as pasteurization and thermal processes, such as spray-drying on milk proteins and peptides and their functions with a focus on bioactive ingredients. Research focus on the effects of digestion of processed milk protein and peptide ingredients, including minor bioactive factors for infant nutrition and has used models to study this (Rhesus monkey, cell culture and more recently piglet studies). Also the interaction and modulatory effects of milk proteins with each other is a research topic, such as in aggregation reactions and the effects of heat-treatments on the bioactivity of milk proteins. Extensive utilization of purification and protein chemistry techniques, including mass spectrometry, proteomics and glycobiology.. ...
Description. UCI Chem 128 Introduction to Chemical Biology (Winter 2013) Lec 16. Introduction to Chemical Biology -- Glycobiology & Polyketides -- Part 2 View the complete course: http://ocw.uci.edu/courses/chem_128_introduction_to_chemical_biology.html Instructor: Gregory Weiss, Ph.D. License: Creative Commons BY-NC-SA Terms of Use: http://ocw.uci.edu/info. More courses at http://ocw.uci.edu Description: Introduction to the basic principles of chemical biology: structures and reactivity; chemical mechanisms of enzyme catalysis; chemistry of signaling, biosynthesis, and metabolic pathways. Introduction to Chemical Biology (Chem 128) is part of OpenChem: http://ocw.uci.edu/collections/open_chemistry.html This video is part of a 18-lecture undergraduate-level course titled "Introduction to Chemical Biology" taught at UC Irvine by Professor Gregory Weiss. Recorded March 5, 2013. Index of Topics: 0:00:33 Polysaccharides 0:08:45 Fatty Acid Synthase: Paradigm for a Polyketide Synthesis Machine 0:10:58 ...
My lab utilizes a combination of polymer chemistry, protein engineering, and bioconjugation techniques to address human health needs. We study fundamental glycobiology with the ultimate goal of developing glycoform targeted therapeutics. Current projects include 1) glycocalyx engineering to study the role of mucin glycoproteins in cancer; 2) synthetic epithelial mucus to model infection and absorption processes; 3) synthetic antifreeze proteins for cryopreservation of medical tissues and ultimately whole organs.
Professor Laura Kiessing has been named the recipient of the 2013 Murray Goodman Memorial Prize. This award of $10,000, a commemorative plaque, and dinner in her honor will recognize seminal contributions in the area of molecular glycobiology and carbohydrate biochemistry. This award is presented by the Biophysical Society in partnership with the ACS Division of Biological Chemistry. An award symposium will take place at the fall ACS National Meeting in Indianapolis. Congratulations, Laura! ...
Adalbjornsson B.V., Jonsdottir R., 2015. Enzyme-Enhanced Extraction of Antioxidant Ingredients from Algae. Methods in molecular biology. 1308, 145-150. Grein / Article. Ara K.Z.G., Lundemo P., Fridjonsson O.H., Hreggvidson G.O., Adlercreutz P., Karlsson E.N. 2015. A CGTase with high coupling activity using {gamma}-cyclodextrin isolated from a novel strain clustering under the genus Carboxydocella. Glycobiology. 25(5), 514-23. Grein / Article Bekkevold D., Helyar S.J., Limborg M.T., Nielsen E.E., Hemmer-Hansen J., Clausen L.A.W., Carvalho G.R. 2015. Gene-associated markers can assign origin in a weakly structured fish, Atlantic herring. ICES Journal of Marine Science. 72(6), 1790-1801. Grein / Article Dellarosa N., Laghi L., Martinsdottir E., et al. 2015. Enrichment of convenience seafoood with omega-3 and seaweed extracts: Effect on lipid oxidation. LWT-Food Science and Technology. 62(1), 746-752. Grein / Article. Gudjonsdottir M., Traore A., Jonsson A., et al. 2015. The effects of pre-salting ...
ALIBAUD L., ROMBOUTS Y., TRIVELLI X., BURGUIÈRE A., CIRILLO S.L., CIRILLO J.D., DUBREMETZ J.F., GUÉRARDEL Y., LUTFALLA G., KREMER L. A Mycobacterium marinum TesA mutant defective for major cell wall-associated lipids is highly attenuated in Dictyostelium discoideum and zebrafish embryos. Mol Microbiol., 2011, 80 (4), 919-934.. AMNIAI L., LIPPENS G., LANDRIEU I. Characterization of the AT180 epitope of phosphorylated Tau protein by a combined nuclear magnetic resonance and fluorescence spectroscopy approach. Biochem Biophys Res Commun., 2011, 412 (4), 743-746.. AUDRY M., JEANNEAU C., IMBERTY A., HARDUIN-LEPERS A., DELANNOY P., BRETON C.Current trends in the structure-activity relationships of sialyltransferases. Glycobiology, 2011, 21 (6), 716-726.. BALL S., COLLEONI C., CENCI U., RAJ J.N., TIRTIAUX C. The evolution of glycogen and starch metabolism in eukaryotes gives molecular clues to understand the establishment of plastid endosymbiosis. J Exp Bot., 2011, 62 (6), 1775-1801.. BECKMANN S, ...
When analyzing glycans or glycan-containing molecules by MS/MS, the product ions generated by fragmentation include a high abundance of glycan-derived low m/z ions called the oxonium ions. Although the species and relative abundance of oxonium ions reflect the glycan structure of origin, conventional MS/MS provides insufficient features to differentiate between glycan structures. Energy-resolved oxonium ion monitoring, abbreviated as Erexim™, adds another dimension to MS/MS data by acquiring data at a series of collision energies (CE) of fragmentation. A plot of the change in oxonium ion abundances with respect to CE, the Erexim™ profile, now contains the resolving power to differentiate between similar glycan structures. Erexim™ requires triple quadrupole mass spectrometry for its ultrafast scan speed to acquire a multitude of data points and for its quantitative ability to acquire reproducible profiles. ...
The Yarema Lab uses chemical biology, molecular and cell biology, and materials science methods to study and manipulate glycosylation. The goal of our research is to better understand human disease while furthering carbohydrate-based therapies. Our laboratorys research goals are to (1) Develop sugar analogs into viable and versatile drug candidates, (2) Apply metabolic glycoengineering to tissue engineering and stem cell research, (3) Use non-invasive magnetic stimuli to probe the effects of glycoengineering (and also to treat neurological disorders), and (4) Extend our sugar-based drug candidates into animal models and the clinic. Research Areas: carbohydrate-based therapies, chemical biology, stem cells, cell biology, materials science, neurological disorders, molecular biology ...
All living cells escape genetic imprisonment by incorporating post-translational modifications such as glycosylation into virtually all translated cellular proteins. This creates the true complexities of the cellular life that are orders of magnitudes more advanced than the human genome and a necessity for life. Despite technical advancements in the analysis of cell surface components, the repertoire of the glycome structures and their cellular interactions are immense and often too complex to decipher. Instead we propose a bottom-up approach using defined Glyco-modules creating an artificial glycocalyx (glycocalyxification) that can be used to systematically resolve the complex interactions on cellular-size membranes. There are several interesting applications within this area to investigate: (i) can we systematically build-up an artificial glycoxalyx from a plain cellular-sized membrane vesicles? (ii) can we complement the existing cellular glycocalyx with a synthetic ...
Glycoscience is an interdisciplinary field of research focused on understanding the structures and roles of sugar chains attached to proteins and lipids in biological systems. Every living cell is coated with complex sugars (glycans) and glycan-binding proteins (lectins). Interactions between glycans and lectins on adjacent cells are involved in many essential biological processes including cell differentiation, immunity, reproduction, signaling and diseases such as cancer, inflammation, microbial infections. Also, a large proportion of naturally occurring proteins that are secreted or are part of the extracellular matrix are glycosylated ...
Any discussion of linking the milk glycome with the B. infantis genome requires understanding the HMO structures themselves. A detailed examination of the HMO core structure is provided here.. Next, the list of genes believed to be involved in HMO utilization by B. infantis can be accessed here.. A general protocol for surveying additional bacterial genomes as more are publically deposited can be accessed here.. The distribution of milk-related genes in other members of the human gut consortium can be found here.. Finally, a pathway tools database constructed from the B. infantis genome sequence can be downloaded here.. ...
DUGi: Viewing Item from repository Recercat: Glycoconjugates constitute a major class of biomolecules which include glycoproteins, glycosphingolipidsand proteoglycans. The enzymatic process in which glycans (sugar chains) are linked toproteins or lipids is called glycosylation. Glycosylation is involved in many biological processes, bothphysiological and pathological, inlcuding host-pathogen interactions, tumour invasion, cell traffickingand signalling. Changes in glycan structure are thought be be at least partly responsible for the developmentof inflammation, infection, arteriosclerosis, immune defects and autoimmunity. Such changeshave been observed in human diseases such as diabetes mellitus, rheumatoid arthritis and AlzheimersDisease. Aberrant patterns of glycosylation are also a universal feature of cancer cells. The field ofglycobiology thus shows great potential for the discovery of glycan biomarkers ...
Selective enrichment of glycopeptides from complicated biological samples is essential for MS-based glycoproteomics, but still remains a great challenge. In this study, we report an unprecedented ligand-free strategy for the selective enrichment of glycopeptides by simply utilizing the multivalent interactio
What is Dragons Blood Serum?? Dragons Blood Serum comes from the sap of the Croton Lechleri tree found in South America. The saps red color is quite pronounced in its raw form. Its natural properties are amazing when used in skin care formula...
ANSWER: Glycosylation is not a "defining type of a protein". It is a complex glycane (sugar-structure) that is linked at an N, O, or C atom on various amino acids. The glycane structure is a complex tree structure and usually not completely described (although some people in Glycoproteomics study the nature of these). The Glycane structure is different in different cells, so when you have recombination insulin in E. coli or Yeast, the glycane structures will be different. Of course when you change even one atom on a protein you will have a "different substance", but I dont understand the significance of "they all produce completely different substances", because without recombinant human DNA, the protein will be different. So, I dont understand what your rebuttal is saying and how it is relevant. What I said is that the glycosilation is the substitution of a glycane and that ...
XGlycScan 20140527 :: DESCRIPTION XGlycScan is an open-source software for N-linked glycosite assignment, quantification and quality assessment of data from mass spectrometry-based glycoproteomic analysis. ::DEVEL
Waters Glycan Standards and Kits are for released N-glycan labeling. We offer standards in a wide variety of labels, 2-AB, 2-AA and RapiFluor-MS.
NIH Funding Opportunities and Notices in the NIH Guide for Grants and Contracts: Novel and Innovative Tools to Facilitate Identification, Tracking, Manipulation, and Analysis of Glycans and their Functions (U01 Clinical Trial Not Allowed) RFA-RM-18-036. RMOD

North Carolina Biotechnology Center company directory : a directory of bioscience companies in North Carolina :: State...North Carolina Biotechnology Center company directory : a directory of bioscience companies in North Carolina :: State...

The company also provides a variety of microarray services such as protein printing/arraying and assay development. www. ... Research Triangle Park) develops nanostructured biochip substrates for high-throughput protein screening and analysis. The ... www.arkresearch.com Array BioPharma Inc. (Morrisville) develops targeted, small-molecule drugs to treat cancer and inflammatory ... Regulatory and bioinformatics consulting services are also available. www.almacgroup.com/diagnostics ALP Life Sciences LLC ( ...
more infohttp://digital.ncdcr.gov/cdm/ref/collection/p249901coll22/id/417232/

glycomics | Molecular & Cellular Proteomicsglycomics | Molecular & Cellular Proteomics

This review focuses on the bioinformatics tools and resources that are available for the analysis of glycan-array data. The ... Glycan-arrays, in combination with bioinformatics tools to mine the data, offer the ability to obtain such information. ... tools are enabling new insights into protein-glycan interactions and enhancing the value of glycan-binding proteins in research ... Glycan Markers of Human Stem Cells Assigned with Beam Search Arrays Nian Wu, Lisete M. Silva, Yan Liu, Yibing Zhang, Chao Gao, ...
more infohttps://www.mcponline.org/keyword/glycomics

National Center for Functional Glycomics - WikipediaNational Center for Functional Glycomics - Wikipedia

... on various glycan arrays (CFG glycan array, Microbial glycan array, NCFG-derived arrays) Structural analysis of glycans ... The NCFG has developed GlycoPattern, a web-based bioinformatics resource to assist in analysis of glycan array data. The ... They are specifically focused on glycan analysis and molecular mechanisms of glycan recognition by proteins important in human ... a web platform for glycan array mining". Bioinformatics. 30 (23): 3417-3418. doi:10.1093/bioinformatics/btu559. GlycoPattern. ...
more infohttps://en.wikipedia.org/wiki/National_Center_for_Functional_Glycomics

Deciphering Protein Glycosylation by Computational Integration of On-chip Profiling, Glycan-array Data, and Mass Spectrometry |...Deciphering Protein Glycosylation by Computational Integration of On-chip Profiling, Glycan-array Data, and Mass Spectrometry |...

Glycan arrays facilitate detailed analyses of lectin specificity (32), and we recently developed their use for analyzing ... Bioinformatics. *Exoglycosidase. *Glycosidase. Obtaining detailed information about glycans on proteins is experimentally ... 2018) Multiplex glycan bead array for high throughput and high content analyses of glycan binding proteins. Nat. Commun. 9, 258 ... the analysis presented here of detached N-glycans by MS/MS and fragmentation by MSn used ∼300 μg of protein; and the analysis ...
more infohttp://www.mcponline.org/content/18/1/28

Profiling human serum antibodies with a carbohydrate antigen microarrayProfiling human serum antibodies with a carbohydrate antigen microarray

Printed covalent glycan array for ligand profiling of diverse glycan binding proteins. Proc Natl Acad Sci. 2004;101(49):17033- ... Carbohydrate antigen arrays (glycan arrays) have been recently developed for the high-throughput analysis of carbohydrate ... Identification of humoral immune responses in protein microarrays using DNA microarray data analysis techniques. Bioinformatics ... 13 Carbohydrate arrays are analogous to protein and DNA arrays but contain many different glycans immobilized on a solid ...
more infohttp://pubmedcentralcanada.ca/pmcc/articles/PMC2738755/

Identifying glycan motifs using a novel subtree mining approach | BMC Bioinformatics | Full TextIdentifying glycan motifs using a novel subtree mining approach | BMC Bioinformatics | Full Text

The specificities of glycan-binding proteins, such as lectins and antibodies, are governed by motifs within larger glycan ... By participating in binding interactions with proteins, glycans often play key roles in host-pathogen interactions. ... We achieved this by including additional nodes in a graph representation of the glycan structure to indicate the presence or ... In this work, we customised a frequent subtree mining approach by altering the glycan notation to include information on ...
more infohttps://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-3374-4

Plus itPlus it

2004) RELIC A bioinformatics server for combinatorial peptide analysis and identification of protein-ligand interaction sites. ... Heatmap of arrays. Data was normalized to the median on each array and clustered using GeneSpring 7.3.1 (Agilent Technologies, ... Despite the small library size, the random-sequence peptide microarray was successfully used to identify protein and glycan ... Array images. Two representative array images are shown in pseudocolor, with zoom in on the same block on each array to the ...
more infohttps://www.mcponline.org/content/10/3/M110.000786

Glyco-Bioinformatics 2015 - Glyco-Bioinformatics - Archive - Symposia -  Beilstein-Institut zur Förderung der Chemischen...Glyco-Bioinformatics 2015 - Glyco-Bioinformatics - Archive - Symposia - Beilstein-Institut zur Förderung der Chemischen...

Glycan recognition in a range of biological systems from drug design to predicting glycan binding of bacterial proteins was ... Glycan Array and Other Tools Produced by Automated Glycan Assembly. Peter Seeberger, MPI of Colloids and Interfaces ... arrays that accurately represent glycan structures used for diagnostics. The use of shotgun glycan microarrays and the ... Work from Pauline Rudd illustrated how high-throughput glycan analysis in conjunction with genome-wide association studies can ...
more infohttps://www.beilstein-institut.de/en/symposia/archive/glyco-bioinformatics/glyco-bioinformatics-2015

Consortium for Functional Glycomics - WikipediaConsortium for Functional Glycomics - Wikipedia

Bioinformatics Subcommittee, Glycan Array/Carbohydrate Library Subcommittee, Glycan Analysis Subcommittee, Mouse Subcommittee, ... Alvarez RA, Blixt O (2006). "Identification of ligand specificities for glycan-binding proteins using glycan arrays". Methods ... glycan-binding proteins, glycan degradation proteins, intercellular protein transport proteins, sugar transporters, adhesion ... glycans Glycans in immune cell communication Glycans in development and physiology Glycans in cancer biology Glycans in protein ...
more infohttps://en.wikipedia.org/wiki/Consortium_for_Functional_Glycomics

Список цитируемой литературыСписок цитируемой литературы

Printed covalent glycan array for ligand profiling of diverse glycan binding proteins. Proc.Natl.Acad.Sci. USA, 101, 17033- ... Processing and analysis of serum antibody binding signals from Printed Glycan Arrays for diagnostic and prognostic applications ... Plasma anti-glycan antibody profiles associated with nickel level in urine. J. Proteomics Bioinformatics, 6, 302-312 (2014). ... Serum anti-glycan antibody detection of epithelial ovarian cancers by using a printed glycan array. Int. J. Cancer, 130, 138- ...
more infohttp://semiotik-array.com/product/glycochip/List-of-publications/

Proteomics - Technologies, Markets and CompaniesProteomics - Technologies, Markets and Companies

Integration of protein array and image analysis. Tissue microarray technology for proteomics. Protein biochips in molecular ... Lab-on-a-chip for protein analysis. Biochips for peptide arrays. Microfluidic biochips for proteomics. Protein biochips and ... Use of bioinformatics in protein sequencing. Bottom-up protein sequencing. Top-down protein sequencing. Integration of next ... Recognition of microbial glycans by human lectins. Role of proteomics in virology. Interaction of proteins with viruses. ...
more infohttps://www.researchandmarkets.com/reports/4748147/proteomics-technologies-markets-and-companies?utm_source=BW&utm_medium=PressRelease&utm_code=8cbt6c&utm_campaign=1281339+-+Proteomics+Technologies%2C+Markets+and+Companies+Research+Report+2019%3A+Largest+Expansion+will+be+in+Bioinformatics+and+Protein+Biochip+Technologies&utm_exec=chdo54prd

Transcriptome analysis reveals upregulation of bitter taste receptors in severe asthmatics | European Respiratory SocietyTranscriptome analysis reveals upregulation of bitter taste receptors in severe asthmatics | European Respiratory Society

The N-glycan biosynthesis pathway is responsible for the production of glycans that couple to proteins and lipids on the cell ... Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 2009; 4: 44-57. ... Genome-wide expression array analyses were performed in mixed blood leukocytes from children taking part in a national study on ... After pre-processing and quality control of the post-hybridised arrays, five samples were regarded as outliers and removed. The ...
more infohttps://erj.ersjournals.com/content/42/1/65

Glycosylation of closely spaced acceptor sites in human glycoproteins | Journal of Cell ScienceGlycosylation of closely spaced acceptor sites in human glycoproteins | Journal of Cell Science

A total of 3915 unique protein sequences were downloaded for analysis. Of the 3915 proteins, 842 lacked any N-x≠P-T/S sequences ... most N-linked glycans are added to ribosome-bound nascent polypeptides as the protein is passing through the protein ... The analysis of tandem arrays of gap-1 NxT sites provided support for a scanning mechanism of acceptor site recognition. The ... Bioinformatics analysis of the murine glycoproteomic database. A murine glycopeptide database (4922 glycopeptides in 1902 ...
more infohttp://jcs.biologists.org/content/126/23/5513

Insights into Ionizing-Radiation-Resistant Bacteria S-Layer Proteins and Nanobiotechnology for Bioremediation of Hazardous and...Insights into Ionizing-Radiation-Resistant Bacteria S-Layer Proteins and Nanobiotechnology for Bioremediation of Hazardous and...

Insights into Ionizing-Radiation-Resistant Bacteria S-Layer Proteins and Nanobiotechnology for Bioremediation of Hazardous and ... ionization or electrospray ionization mass spectrometry have been introduced for the analysis of the protein and glycan ... the bioinformatics pipeline, as illustrated in Figure 5, was developed to perform an integrated analysis of IRRB SLPs (domains ... domains from Bacillus anthracis surface array protein. J Biol Chem 2011, 286(29):26042-26049. ...
more infohttps://www.intechopen.com/books/management-of-hazardous-wastes/insights-into-ionizing-radiation-resistant-bacteria-s-layer-proteins-and-nanobiotechnology-for-biore/

Most recent papers with the keyword MASA tool | Read by QxMDMost recent papers with the keyword MASA tool | Read by QxMD

... including glycan arrays with glycan-binding proteins. However, there are few bioinformatics techniques to analyze large amounts ... Pathological and molecular analyses of atherosclerotic lesions in ApoE-knockout mice.. Masa-Aki Shibata, Eiko Shibata, Kentaro ... Aim: This study aimed to assess the efficacy of the endometrial receptivity array (ERA) as a diagnostic tool and the impact of ... Motivation: A glycan consists of monosaccharides linked by glycosidic bonds, has branches and forms complex molecular ...
more infohttps://www.readbyqxmd.com/keyword/113944

Accelerate your Biomarker discovery with High Density arrays | tebu-bios blogAccelerate your Biomarker discovery with High Density arrays | tebu-bio's blog

High density arrays are a complementary approach to Mass spectrometry for biomarker discovery, for protein profiling, ... To determine your sample glycan profile or find novel glycan ligands, all within limited sample volume, this lectin array ... A combination of 4 arrays allows for a 2000 human protein screening, including metabolic enzymes, structural proteins, ... We provide different types of analysis according to your need: data clean up, differential expression analysis, pathway ...
more infohttps://www.tebu-bio.com/blog/2019/10/01/accelerate-your-biomarker-discovery-with-high-density-arrays/

Ellis L. Reinherz, MD - Dana-Farber Cancer Institute | Boston, MAEllis L. Reinherz, MD - Dana-Farber Cancer Institute | Boston, MA

The heterogeneity of human antibody responses to vaccinia virus revealed through use of focused protein arrays. Vaccine. 2009 ... Human leukocyte antigen typing using a knowledge base coupled with a high-throughput oligonucleotide probe array analysis. ... BMC Bioinformatics. 2008 Dec 12; 9 Suppl 12:S22.. View in: PubMed. Choi YI, Duke-Cohan JS, Ahmed WB, Handley MA, Mann F, ... Sun ZY, Dötsch V, Kim M, Li J, Reinherz EL, Wagner G. Functional glycan-free adhesion domain of human cell surface receptor ...
more infohttps://www.dana-farber.org/find-a-doctor/ellis-l-reinherz/

Serum MicroRNA Profiling and Bioinformatics of Patients with Spleen-Deficiency SyndromeSerum MicroRNA Profiling and Bioinformatics of Patients with Spleen-Deficiency Syndrome

miRNA Real-Time qPCR Array. The miRCURY LNA™ universal RT microRNA PCR array, serum/plasma panel I (Exiqon, Danmark), ... "Bioinformatics research on chronic superficial gastritis of Pi-deficiency syndrome by gene arrays," Chinese Journal of ... genes related to protein metabolism participated in signaling pathways, amino acid metabolism, and protein ubiquitination and ... All of the funders had no further role in study design, data collection and analysis, decision to publish, or preparation of ...
more infohttps://www.hindawi.com/journals/ecam/2016/8726720/

Systems biology coupled with label-free high-throughput detection as a novel approach for diagnosis of chronic obstructive...Systems biology coupled with label-free high-throughput detection as a novel approach for diagnosis of chronic obstructive...

Yuk JS, Ha KS: Proteomic applications of surface plasmon resonance biosensors: analysis of protein arrays. Exp Mol Med 2005,37( ... Lebrilla CB, An HJ: The prospects of glycan biomarkers for the diagnosis of diseases. Mol Biosyst 2009,5(1):17-20.PubMedView ... Elshal MF, McCoy JP: Multiplex bead array assays: performance evaluation and comparison of sensitivity to ELISA. Methods 2006, ... BMC Bioinformatics 2008, 9:288.PubMedPubMed CentralView ArticleGoogle Scholar. ...
more infohttps://respiratory-research.biomedcentral.com/articles/10.1186/1465-9921-10-29

EndoS2 is a unique and conserved enzyme of serotype M49 group A Streptococcus that hydrolyses N-linked glycans on IgG and α1...EndoS2 is a unique and conserved enzyme of serotype M49 group A Streptococcus that hydrolyses N-linked glycans on IgG and α1...

Exoglycosidase digestion arrays. Analysis of glycan sequence, composition and linkage specificities was facilitated by the use ... All sequences were included in phylogenetic analyses of the proteins, and the non-GH18 proteins served as outgroup. A total of ... In the present study, we characterize EndoS2 using bioinformatics, recombinant expression and LC-MS analysis to study the ... Streptococcus pyogenes [GAS (group A Streptococcus)] is a leading Gram-positive bacterial pathogen exhibiting a wide array of ...
more infohttp://www.biochemj.org/content/455/1/107

Pili and Flagella: Current Research and Future TrendsPili and Flagella: Current Research and Future Trends

Although inducible lateral flagella systems were considered uncommon, comparative bioinformatics analysis indicate the presence ... Not only are they expressed by a vast array of phlyogenetically distinct species, they are associated with a dazzling array of ... These helical arrays of thousands of copies of a single pilin subunit are extremely thin and flexible yet remarkably strong, ... The flagellins are typically modified by the addition of N-linked glycans which are necessary for proper assembly and/or ...
more infohttps://www.caister.com/flagella

Natural Sciences - NUI GalwayNatural Sciences - NUI Galway

CFG Glycan Array/Bioinformatics workshop, Lokesh Joshi (2010) Host-Microbial Interactions in the Gut and Glycan-Lectin Arrays ... A Comparative Glycan and Lectin Microarray Analysis of Virulent and Attenuated Strains of Campylobacter Jejuni at Host and ... O-glycosylation of protein subpopulations in alcohol-extracted rice proteins Kilcoyne, M,Shah, M,Gerlach, JQ,Bhavanandan, V, ... Invited Oral Presentation], CFG Glycan Array/Bioinformatics workshop, Atlanta, USA , 19-SEP-10 - 20-SEP-10. [Details] ...
more infohttp://www.nuigalway.ie/our-research/people/natural-sciences/lokeshjoshi/

Correlation analysis reveals the emergence of coherence in the gene expression dynamics following system perturbation | BMC...Correlation analysis reveals the emergence of coherence in the gene expression dynamics following system perturbation | BMC...

We selected a 20% threshold for the Drosophila array and 5% threshold for the rat array. In fact, the Drosophila array ... This article has been published as part of BMC Bioinformatics Volume 8, Supplement 1, 2007: Italian Society of Bioinformatics ( ... The D. melanogaster diet arrays provide a higher resolution dataset and genes were selected via GeneTrace, which looks for ... Binding of tamoxifen to the estrogen receptor domain elicits a conformational change that allows the fusion protein to migrate ...
more infohttps://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-8-S1-S16

Peptidomics in veterinary science: focus on bovineparatuberculosis - Peptidomics - Volume 2, Issue 1 (2015) - PSJD - YaddaPeptidomics in veterinary science: focus on bovineparatuberculosis - Peptidomics - Volume 2, Issue 1 (2015) - PSJD - Yadda

Development and use of a partial Mycobacterium aviumsubspecies paratuberculosis protein array. Proteomics 2008,8, 463-474.[ ... Bioinformatics 2008, 24, 1459-1460.[Crossref]. * [75] Liang, S., Zheng, D., Standley, D. M., Yao, B., et al., EPSVR andEPMeta: ... paratuberculosis K10 byproteomic analysis. Proteome Sci 2010, 8, 21.[Crossref]. * [29] Mikkelsen, H., Aagaard, C., Nielsen, S. ... 80] Comstock, L. E., Kasper, D. L., Bacterial glycans: key mediatorsof diverse host immune responses. Cell 2006, 126, 847-850.[ ...
more infohttp://psjd.icm.edu.pl/psjd/element/bwmeta1.element.-psjd-doi-10_1515_ped-2015-0001

Maurizio Labbate | University of Technology SydneyMaurizio Labbate | University of Technology Sydney

Analysis of sequenced V. cholerae integron arrays showed that their evolution can proceed by rearrangements and deletions/ ... Modification Of The Campylobacter Jejuni N-linked Glycan By EptC Protein-mediated Addition Of Phosphoethanolamine, Journal Of ... One cassette array was the same as that in In70.2; however, the second was different, generating a transposon that collectively ... BMC Bioinformatics, vol. 10, no. 118, pp. 1-9.View/Download from: UTS OPUS or Publishers site ...
more infohttps://www.uts.edu.au/staff/maurizio.labbate
  • An efficient sample preparation workflow was developed to facilitate deep N-glycomics analysis of human serum by capillary electrophoresis also accommodating the higher sample concentration requirement of CE-ESI-MS. The temperature gradient denaturing protocol prevented protein precipitation when larger amounts of samples were processed. (mcponline.org)
  • The projects of the NCFG are as follows Analysis of potential Glycan-binding proteins (GBPs) on various glycan arrays (CFG glycan array, Microbial glycan array, NCFG-derived arrays) Structural analysis of glycans Production of naturally occurring glycans by isolation The center researches shotgun glycomics techniques in which glycans harvested and purified from various materials such as breast milk and pig lungs. (wikipedia.org)
  • This process involves household bleach treatment of tissues to release glycans for glycomics.The eventual aim of this approach is to make glycomics accessible by a larger community of scientists by the development of tools which are easily available. (wikipedia.org)
  • The previous symposia brought the stakeholders in the area of glycomics together and provided a platform to discuss the role of bioinformatics in this emerging field. (beilstein-institut.de)
  • With the involvement of the scientific community this group of internationally renowned scientists develops publication guidelines for the reporting of glycomics data as well as data exchange formats with the aim of setting up a framework to integrate glyco-bioinformatics in a comprehensive platform that will serve biologists, chemists and all interested in glycosciences. (beilstein-institut.de)
  • Combining this frequent subtree mining approach with a state-of-the-art feature selection algorithm termed minimum-redundancy, maximum-relevance (mRMR), we have generated a classification pipeline that is trained on data from a glycan microarray. (biomedcentral.com)
  • Core D also synthesizes glycans for and prints the CFG glycan array (see Core H below) Gene Microarray Core (E), located at The Scripps Research Institute, screens RNA samples provided by investigators on a custom-designed glycogene chip array developed using Affymetrix technology. (wikipedia.org)
  • Analysis of a murine glycoprotein database revealed that closely spaced sequons are surprisingly common, and are enriched for paired NxT sites when the gap between sequons is less than three residues. (biologists.org)
  • However, analysis and interpretation using computational means could not keep step with the experimental and technical advances due to the initial lack of applicable software tools which are required for processing, annotating, storing and mining of data. (beilstein-institut.de)
  • In addition, the validation of glycan structure assignments is impeded by a common reporting procedure which does not allow for the comprehensive description of relevant experimental parameters, computational methods and underlying assumptions. (beilstein-institut.de)
  • Computational pipeline for an integrated analysis including structural predictions of S-layer proteins (SLPs) as illustrated with Deinococcus radiodurans R1 SlpA and Hpi. (intechopen.com)
  • Analysis of different levels of gene expression in healthy and diseased tissues by proteomic approaches is as important as the detection of mutations and polymorphisms at the genomic level and may be of more value in designing a rational therapy. (researchandmarkets.com)
  • Protein distribution/characterization in body tissues and fluids, in health as well as in disease, is the basis of the use of proteomic technologies for molecular diagnostics. (researchandmarkets.com)
  • The sample requirements of the various MS-based approaches are being reduced regularly, but at present, sample amounts can be a problem when analyzing a protein from a clinical specimen or a model system with limited amounts of the protein available. (mcponline.org)
  • We have characterized mature breast milk, saliva, and plasma IgA N-glycan profiles from lactating individuals and studied the potential differences among individuals who delivered infants vaginally or by cesarean section. (mcponline.org)
  • Here, we investigated whether close spacing between acceptor sites in a nascent protein promotes site skipping by the STT3A complex. (biologists.org)
  • Model for the interaction between an S-layer protein (SLP) and an actinide (uranium) at pH 4.3 [10- (intechopen.com)
  • In this work, we customised a frequent subtree mining approach by altering the glycan notation to include information on terminal connections. (biomedcentral.com)
  • This new workflow enabled deep CE-LIF analysis of the human serum N-glycome and provided the appropriate amount of material for CE-ESI-MS analysis in negative ionization mode. (mcponline.org)
  • Biosynthetic analysis of four human glycoproteins revealed that closely spaced sites are efficiently glycosylated by an STT3B-independent process unless the sequons contain non-optimal sequence features, including extreme close spacing between sequons (e.g. (biologists.org)
  • Surface layer homology (SLH) domains (blue shapes) at the N-terminal and C-terminal of two S-layer proteins (SLPs) of Lysinibacillus sphaericus JG-A12. (intechopen.com)
  • We achieved this by including additional nodes in a graph representation of the glycan structure to indicate the presence or absence of a linkage at particular backbone carbon positions. (biomedcentral.com)
  • In the case of D. radiodurans, for example, the template used is the structure of OpdL protein (PDB code: 2Y0H). (intechopen.com)
  • The comparative analysis obtained by nano-HPLC-chip/TOF-MS reveals a body fluid-specific profile of 50+ N-glycan species some of which can also be influenced by delivery mode. (mcponline.org)
  • The oxidative release of natural glycans (ORNG) technique was developed at the NCFG. (wikipedia.org)