15 results on '"IBD-BIOM Consortium"'
Search Results
2. Immunoglobulin A Glycosylation Differs between Crohn's Disease and Ulcerative Colitis.
- Author
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Clerc F, Reiding KR, de Haan N, Koeleman CAM, Hipgrave Ederveen AL, Manetti N, Dotz V, Annese V, and Wuhrer M
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- Humans, Glycosylation, Immunoglobulin A, Biomarkers, Crohn Disease diagnosis, Crohn Disease epidemiology, Colitis, Ulcerative diagnosis, Colitis, Ulcerative epidemiology, Inflammatory Bowel Diseases
- Abstract
Inflammatory bowel diseases (IBD), such as Crohn's disease (CD) and ulcerative colitis (UC), are chronic and relapsing inflammations of the digestive tract with increasing prevalence, yet they have unknown origins or cure. CD and UC have similar symptoms but respond differently to surgery and medication. Current diagnostic tools often involve invasive procedures, while laboratory markers for patient stratification are lacking. Large glycomic studies of immunoglobulin G and total plasma glycosylation have shown biomarker potential in IBD and could help determine disease mechanisms and therapeutic treatment choice. Hitherto, the glycosylation signatures of plasma immunoglobulin A, an important immunoglobulin secreted into the intestinal mucin, have remained undetermined in the context of IBD. Our study investigated the associations of immunoglobulin A1 and A2 glycosylation with IBD in 442 IBD cases (188 CD and 254 UC) and 120 healthy controls by reversed-phase liquid chromatography electrospray-ionization mass spectrometry of tryptic glycopeptides. Differences of IgA O- and N -glycosylation (including galactosylation, bisection, sialylation, and antennarity) between patient groups were associated with the diseases, and these findings led to the construction of a statistical model to predict the disease group of the patients without the need of invasive procedures. This study expands the current knowledge about CD and UC and could help in the development of noninvasive biomarkers and better patient care.
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- 2023
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3. Serum N-Glycomic Biomarkers Predict Treatment Escalation in Inflammatory Bowel Disease.
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Shubhakar A, Jansen BC, Adams AT, Reiding KR, Ventham NT, Kalla R, Bergemalm D, Urbanowicz PA, Gardner RA, Wuhrer M, Halfvarson J, Satsangi J, Fernandes DL, and Spencer DIR
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- Humans, Glycomics, Biomarkers, Polysaccharides, Colitis, Ulcerative diagnosis, Crohn Disease complications, Inflammatory Bowel Diseases complications
- Abstract
Biomarkers to guide clinical decision making at diagnosis of inflammatory bowel disease [IBD] are urgently needed. We investigated a composite serum N-glycomic biomarker to predict future disease course in a discovery cohort of 244 newly diagnosed IBD patients. In all, 47 individual glycan peaks were analysed using ultra-high performance liquid chromatography, identifying 105 glycoforms from which 24 derived glycan traits were calculated. Multivariable logistic regression was performed to determine associations of derived glycan traits with disease. Cox proportional hazard models were used to predict treatment escalation from first-line treatment to biologics or surgery (hazard ratio [HR] 25.9, p = 1.1 × 10-12; 95% confidence interval [CI], 8.52-78.78). Application to an independent replication cohort of 54 IBD patients yielded an HR of 5.1 [p = 1.1 × 10-5; 95% CI, 2.54-10.1]. These data demonstrate the prognostic capacity of serum N-glycan biomarkers and represent a step towards personalised medicine in IBD., (© The Author(s) 2023. Published by Oxford University Press on behalf of European Crohn’s and Colitis Organisation. All rights reserved. For permissions, please email: journals.permissions@oup.com.)
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- 2023
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4. Genome-Wide Methylation Profiling in 229 Patients With Crohn's Disease Requiring Intestinal Resection: Epigenetic Analysis of the Trial of Prevention of Post-operative Crohn's Disease (TOPPIC).
- Author
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Ventham NT, Kennedy NA, Kalla R, Adams AT, Noble A, Ennis H, Mowat C, Dunlop MG, and Satsangi J
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- Adult, Humans, Child, Child, Preschool, DNA Methylation genetics, Genome-Wide Association Study methods, Epigenesis, Genetic, Membrane Proteins genetics, Crohn Disease genetics, Crohn Disease surgery, Inflammatory Bowel Diseases genetics
- Abstract
Background & Aims: DNA methylation alterations may provide important insights into gene-environment interaction in cancer, aging, and complex diseases, such as inflammatory bowel disease (IBD). We aim first to determine whether the circulating DNA methylome in patients requiring surgery may predict Crohn's disease (CD) recurrence following intestinal resection; and second to compare the circulating methylome seen in patients with established CD with that we had reported in a series of inception cohorts., Methods: TOPPIC was a placebo-controlled, randomized controlled trial of 6-mercaptopurine at 29 UK centers in patients with CD undergoing ileocolic resection between 2008 and 2012. Genomic DNA was extracted from whole blood samples from 229 of the 240 patients taken before intestinal surgery and analyzed using 450KHumanMethylation and Infinium Omni Express Exome arrays (Illumina, San Diego, CA). Coprimary objectives were to determine whether methylation alterations may predict clinical disease recurrence; and to assess whether the epigenetic alterations previously reported in newly diagnosed IBD were present in the patients with CD recruited into the TOPPIC study. Differential methylation and variance analysis was performed comparing patients with and without clinical evidence of recurrence. Secondary analyses included investigation of methylation associations with smoking, genotype (MeQTLs), and chronologic age. Validation of our previously published case-control observation of the methylome was performed using historical control data (CD, n = 123; Control, n = 198)., Results: CD recurrence in patients following surgery is associated with 5 differentially methylated positions (Holm P < .05), including probes mapping to WHSC1 (P = 4.1 × 10
-9 , Holm P = .002) and EFNA3 (P = 4.9 × 10-8 , Holm P = .02). Five differentially variable positions are demonstrated in the group of patients with evidence of disease recurrence including a probe mapping to MAD1L1 (P = 6.4 × 10-5 ). DNA methylation clock analyses demonstrated significant age acceleration in CD compared with control subjects (GrimAge + 2 years; 95% confidence interval, 1.2-2.7 years), with some evidence for accelerated aging in patients with CD with disease recurrence following surgery (GrimAge +1.04 years; 95% confidence interval, -0.04 to 2.22). Significant methylation differences between CD cases and control subjects were seen by comparing this cohort in conjunction with previously published control data, including validation of our previously described differentially methylated positions (RPS6KA2 P = 1.2 × 10-19 , SBNO2 = 1.2 × 10-11 ) and regions (TXK [false discovery rate, P = 3.6 × 10-14 ], WRAP73 [false discovery rate, P = 1.9 × 10-9 ], VMP1 [false discovery rate, P = 1.7 × 10-7 ], and ITGB2 [false discovery rate, P = 1.4 × 10-7 ])., Conclusions: We demonstrate differential methylation and differentially variable methylation in patients developing clinical recurrence within 3 years of surgery. Moreover, we report replication of the CD-associated methylome, previously characterized only in adult and pediatric inception cohorts, in patients with medically refractory disease needing surgery., (Copyright © 2023 The Authors. Published by Elsevier Inc. All rights reserved.)- Published
- 2023
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5. Challenges in IBD Research 2024: Precision Medicine.
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Syed, Sana, Boland, Brigid S, Bourke, Lauren T, Chen, Lea Ann, Churchill, Laurie, Dobes, Angela, Greene, Adam, Heller, Caren, Jayson, Christina, Kostiuk, Benjamin, Moss, Alan, Najdawi, Fedaa, Plung, Lori, Rioux, John D, Rosen, Michael J, Torres, Joana, Zulqarnain, Fatima, and Satsangi, Jack
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- 2024
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6. Soluble markers of viral rebound and post-treatment HIV control.
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Giron LB, Pasternak AO, and Abdel-Mohsen M
- Abstract
Purpose of Review: We focus on the different classes of biological molecules measurable in easily accessible bodily fluids that have the potential to serve as biomarkers for the HIV post-treatment controller (PTC) phenotype and/or the timing of viral rebound after stopping antiretroviral therapy (ART)., Recent Findings: Various viral components and host factors measurable in body fluids can play crucial roles in understanding and predicting the PTC phenotype. We review recent findings linking viral components, the quantitative and qualitative features of antibodies (including autologous HIV-specific antibodies), markers of inflammation and tissue damage, other host proteins (including hormones such as sex hormones), as well as metabolites, extracellular vesicles, and cell-free DNA to HIV control post-ART interruption. Several of these molecules can or have the potential to predict the time and probability of viral rebound after stopping ART and are biologically active molecules that can directly or indirectly (by modulating immune pressures) impact the size and activity of HIV reservoirs during and post-ART interruption., Summary: A comprehensive model combining multiple markers is needed to predict the PTC phenotype. This model can be leveraged to predict and understand the PTC phenotype, which can guide novel curative interventions to replicate this phenotype in post-treatment non-controllers., (Copyright © 2024 Wolters Kluwer Health, Inc. All rights reserved.)
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- 2024
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7. Inflammatory Bowel Diseases: An Updated Overview on the Heat Shock Protein Involvement.
- Author
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Federica, Scalia, Francesco, Carini, Sabrina, David, Marco, Giammanco, Margherita, Mazzola, Francesca, Rappa, Noemi Irma, Bressan, Giorgio, Maida, and Giovanni, Tomasello
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INFLAMMATORY bowel diseases ,HEAT shock proteins ,CROHN'S disease ,ULCERATIVE colitis ,GUT microbiome ,MOLECULAR chaperones - Abstract
Inflammatory bowel diseases (IBDs) represent chronic idiopathic disorders, including Crohn's disease (CD) and ulcerative colitis (UC), in which one of the trigger factors is represented by aberrant immune interactions between the intestinal epithelium and the intestinal microbiota. The involvement of heat shock proteins (HSPs) as etiological and pathogenetic factors is becoming of increasing interest. HSPs were found to be differentially expressed in the intestinal tissues and sera of patients with CD and UC. It has been shown that HSPs can play a dual role in the disease, depending on the stage of progression. They can support the inflammatory and fibrosis process, but they can also act as protective factors during disease progression or before the onset of one of the worst complications of IBD, colorectal cancer. Furthermore, HSPs are able to mediate the interaction between the intestinal microbiota and intestinal epithelial cells. In this work, we discuss the involvement of HSPs in IBD considering their genetic, epigenetic, immune and molecular roles, referring to the most recent works present in the literature. With our review, we want to shed light on the importance of further exploring the role of HSPs, or even better, the role of the molecular chaperone system (CS), in IBD: various molecules of the CS including HSPs may have diagnostic, prognostic and therapeutic potential, promoting the creation of new drugs that could overcome the side-effects of the therapies currently used. [ABSTRACT FROM AUTHOR]
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- 2023
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8. Microbial–Immune Crosstalk in Elderly-Onset Inflammatory Bowel Disease: Unchartered Territory.
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Meng, Guanmin, Monaghan, Tanya M, Duggal, Niharika A, Tighe, Paddy, and Peerani, Farhad
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- 2023
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9. Analysis of carbohydrates and glycoconjugates by matrix‐assisted laser desorption/ionization mass spectrometry: An update for 2017–2018.
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Harvey, David J.
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MASS spectrometry ,GLYCOCONJUGATES ,CARBOHYDRATES ,GLYCOLIPIDS ,GLYCOPROTEIN analysis ,ION mobility ,DESORPTION - Abstract
This review is the tenth update of the original article published in 1999 on the application of matrix‐assisted laser desorption/ionization mass spectrometry (MALDI) mass spectrometry to the analysis of carbohydrates and glycoconjugates and brings coverage of the literature to the end of 2018. Also included are papers that describe methods appropriate to glycan and glycoprotein analysis by MALDI, such as sample preparation techniques, even though the ionization method is not MALDI. Topics covered in the first part of the review include general aspects such as theory of the MALDI process, new methods, matrices, derivatization, MALDI imaging, fragmentation and the use of arrays. The second part of the review is devoted to applications to various structural types such as oligo‐ and poly‐saccharides, glycoproteins, glycolipids, glycosides, and biopharmaceuticals. Most of the applications are presented in tabular form. The third part of the review covers medical and industrial applications of the technique, studies of enzyme reactions, and applications to chemical synthesis. The reported work shows increasing use of combined new techniques such as ion mobility and highlights the impact that MALDI imaging is having across a range of diciplines. MALDI is still an ideal technique for carbohydrate analysis and advancements in the technique and the range of applications continue steady progress. [ABSTRACT FROM AUTHOR]
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- 2023
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10. Genetic and Epigenetic Etiology of Inflammatory Bowel Disease: An Update.
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Jarmakiewicz-Czaja, Sara, Zielińska, Magdalena, Sokal, Aneta, and Filip, Rafał
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INFLAMMATORY bowel diseases ,DISEASE remission ,DISEASE exacerbation ,ETIOLOGY of diseases ,CROHN'S disease ,EPIGENETICS - Abstract
Inflammatory bowel disease (IBD) is a chronic disease with periods of exacerbation and remission of the disease. The etiology of IBD is not fully understood. Many studies point to the presence of genetic, immunological, environmental, and microbiological factors and the interactions between them in the occurrence of IBD. The review looks at genetic factors in the context of both IBD predisposition and pharmacogenetics. [ABSTRACT FROM AUTHOR]
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- 2022
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11. Early Diagnosis, Early Stratification, and Early Intervention to Deliver Precision Medicine in IBD.
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Noor, Nurulamin M, Sousa, Paula, Paul, Stéphane, and Roblin, Xavier
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- 2022
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12. Effects of DNA methylation and its application in inflammatory bowel disease (Review).
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Akanyibah, Francis Atim, Zhu, Yi, Wan, Aijun, Ocansey, Dickson Kofi Wiredu, Xia, Yuxuan, Fang, An-Ning, and Mao, Fei
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- 2024
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13. N-glycan Characterization by Liquid Chromatography Coupled with Fluorimetry and Mass Spectrometry.
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Gardner RA, Urbanowicz PA, and Spencer DIR
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- Biomarkers, Chromatography, Liquid, Fluorometry, Glycosylation, Humans, Mass Spectrometry, Reproducibility of Results, Polysaccharides chemistry
- Abstract
Human blood plasma and serum have been a source of biomarkers for the indication and progression of many diseases for a few decades now. Human blood plasma is also an excellent source material to enable patients to monitor their health, with a multitude of biomarkers detectable for the assessment of health status. Blood sampling kits are increasingly available for use in the home with no specialist clinical skills required to obtain good quality samples for pathology lab analysis. Many of the proteins that constitute plasma are glycosylated with both N- and O-type glycans. There is increasing interest in the scientific community to identify potential glycan biomarkers or glycan features that are indicative of disease, and in particular disease at an early stage. The quality and reproducibility of glycan analysis data is key in order to identify and utilise glycan-based blood biomarkers with sufficient specificity and sensitivity; hence, the required analytical tools need to be robust. In this chapter, we describe an analytical method for the UHPLC separation of plasma N-glycans which utilizes both glycan reducing terminus fluorophore labeling, to ensure stoichiometric analysis of relative glycan abundance, and online mass spectrometry for glycan identification. Exoglycosidase digestions were employed as example technique to aid and enable structure identification., (© 2022. Springer Science+Business Media, LLC, part of Springer Nature.)
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- 2022
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14. Novel Perspectives in Economics of Personalized Medicine and Healthcare Systems
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Romina Pržiklas Družeta, PhD and Romina Pržiklas Družeta, PhD
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- Precision medicine--Economic aspects
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This book represents a valuable interdisciplinary contribution created to fill an existing gap in the field of health economics and healthcare systems. The book brings the latest insights from the growing field of health economics and healthcare systems. It deals with various economic, technological, sociological, ethical, legal and philosophical implications and questions arising from the development and implementation of personalized medicine. It is unprecedented in combining practical guidelines for the use of economic tools and techniques with an analysis of the current process of decision-making in the health service sector. The book also provides several insights into the factors that determine human health, the socioeconomic aspects of population aging and the social implications of the evolving burden of disease. Some contributions are highly innovative and cover extremely relevant branches of medicine such as oncology, neurology and endocrinology. In addition, in a brave, yet professional and sovereign manner, the book covers the issue of biological predictors of health outcomes; though they are currently mainly used as global analytical methods, they are yet to be applied or have only recently been applied in clinical medicine. Further, it provides an example from traditional Korean medicine, a proven and valuable tool for personalized medical healthcare. This edition is unique in the sense that 30 chapters were written by 41 authors, all of them experts in their respective fields of research. The authors hail from Croatia, Hungary, South Korea and the United States. The volume is intended to serve as valuable teaching material for university students, as well as a reference book for research scholars, policymakers, business executives, health managers, physicians and freelance readers.
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- 2022
15. Therapeutic Effects of Resveratrol in Inflammatory Bowel Diseases: Shedding Light on the Role of Cellular and Molecular Pathways
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Talebi, Marjan, Talebi, Mohsen, Farkhondeh, Tahereh, and Samarghandian, Saeed
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- 2022
- Full Text
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