ASBMB 2021 GlyGen Supersearch
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GlyGen.org is a web portal that integrates glycomics data from multiple sources to enable exploration of glycans and glycosylation. It features tools for navigating and searching glycan data as well as detail pages on glycans and glycosylation sites. A recent update introduced enhanced search capabilities, allowing users to find glycosylation sites impacted by changes to the Asn residue. Future enhancements will incorporate additional data types and annotations as well as new search and display features to further facilitate glycoscience research.
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ASBMB 2021 GlyGen Supersearch
- 1. https://glygen.org https://data.glygen.org https://api.glygen.org Web portal: Data store: WS API: https://twitter.com/gly_gen GlyGen.org Computational and Informatics Resources for Glycoscience NIH Common Fund Glycoscience Program 1U01GM125267-01 (York & Mazumder) PI: Raja Mazumder The George Washington University PI: Michael Tiemeyer CCRC, University of Georgia CONTACT Will York will@ccrc.uga.edu Raja Mazumder mazumder@gwu.edu Michael Tiemeyer mtiemeyer@ccrc.uga.edu CONTACT Will York will@ccrc.uga.edu Raja Mazumder mazumder@gwu.edu Michael Tiemeyer mtiemeyer@ccrc.uga.edu Enhanced interface for retrieving glycan and glycosylation data at GlyGen Michael Tiemeyer, Sujeet Kulkarni, Robel Kashay, Rene Ranzinger, and Raja Mazumder
- 2. GlyGen.org Representing and Integrating Glycan Diversity • Glycoconjugates, whether secreted from cells or found at the surface or inside of cells, regulate essential functions in health and disease • Almost all currently marketed biologic pharmaceuticals are glycoproteins (antibodies, growth factors, enzyme replacements) • Glycan structural features influence glycoconjugate functions • Where is this data captured? Can it be harvested in a way that is informative and that may reveal new knowledge?
- 3. GlyGen.org Protein Glycan Type Disease Mass Mass Motif Pathway Mutation Structure Ortholog Sub-Type Expression Sequence Sequence RefSeq GlyTouCan Sources of data currently integrated into GlyGen Glycoprotein Glycosylation Glycan Accession Numbers UniProtKB Accession Numbers
- 4. GlyGen.org Navigating GlyGen Features Introduction to GlyGen and spotlight a new feature of the most recent GlyGen release (v1.8, Apr. 2021) Introduction to Portal • Navigating and orienting, Try Me query GlyGen Super Search • Arriving at GlyGen with only a motif in mind • Acquiring novel answers to important questions
- 5. GlyGen.org Navigating GlyGen Features The Home Page Scroll Down
- 6. GlyGen.org Navigating GlyGen Features The Home Page
- 7. GlyGen.org Navigating GlyGen Features The Home Page Explore this
- 10. GlyGen.org Navigating GlyGen Features Types of data available on the detail page Scroll Down
- 12. GlyGen.org Navigating GlyGen Features Types of data available on the detail page
- 13. GlyGen.org Navigating GlyGen Features Introduction to GlyGen and spotlight a new feature of the most recent GlyGen release (v1.8, Apr. 2021) Introduction to Portal • Navigating and orienting, Try Me query GlyGen Super Search • Arriving at GlyGen with only a motif in mind • Acquiring novel answers to important questions
- 14. GlyGen.org Navigating GlyGen Features This paper may have captured your interest??
- 15. GlyGen.org Navigating GlyGen Features Undifferentiated stem cells express a much higher abundance of proteins that are modified with Lewis X glycans than differentiating neurons What is Lewis X? What proteins are modified with Lewis X? Is Lewis X or are the proteins that carry it associated with any disease?
- 16. GlyGen.org Navigating GlyGen Features The Home Page Explore this
- 21. GlyGen.org Navigating GlyGen Features The Home Page
- 28. GlyGen.org Navigating GlyGen Features Introduction to GlyGen and spotlight a new feature of the most recent GlyGen release (v1.8, Apr. 2021) Introduction to Portal • Navigating and orienting, Try Me query GlyGen Super Search • Arriving at GlyGen with only a motif in mind • Acquiring novel answers to important questions
- 31. GlyGen.org Navigating GlyGen Features Show me all N-linked glycosylation sites that are impacted by a change in the Asn residue of the NXS/T/C sequon
- 36. GlyGen.org Navigating GlyGen Features Invitation to Explore Features, Provide Feedback, Contact with Questions
- 37. GlyGen.org • New data types: additional species, natural variants, phenotypes, phosphorylation, glycan binding protein interactions, protein-protein interactions, protein-GAG interactions, more glycosylation sites through automated literature mining • New annotations: PTM functional annotations, more glycosylation subtypes, glycan names and relations (subsumption), biosynthetic pathways mapping enzymes to glycan precursor and products • New features: enhanced filtering and sorting options, highlight hot-topics in glycoscience on the portal home page, new routes for accessing data through function/biosynthesis/disease, extensive help system using mediawiki, intuitive displays of data statistics, improved mobile friendliness Future plans, data integration, feature development: Future Enhancements
Editor's Notes
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- So what data does GlyGen include:- This slide kind of a snapshot of what are data looks like, how we are connecting different resources that allow users to perform queries across different platforms. Our primary resources are UniProt- for protein and GlyTouCan for glycan. For any new data (weather its from a database or author submitted that we wmap it to either of those resources based on the data.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.
- To achieve this, our major areas of focus points include: data collection, QC-QA, building a interface that targets community-wide questions, open access data, documentation and playing a vital role in promoting community research.