GlyGen Webinar Series: Difference between revisions
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For new, upcoming talks, click [[GlySpace Alliance Webinar Series|here]] to find the new schedule. | |||
The GlyGen project organizes public webinars on diverse topics, ranging from bioinformatics databases to new glycomics analysis techniques producing interesting data. Recordings of the talks are released on the [https://www.youtube.com/playlist?list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu GlyGen YouTube channel]. | The GlyGen project organizes public webinars on diverse topics, ranging from bioinformatics databases to new glycomics analysis techniques producing interesting data. Recordings of the talks are released on the [https://www.youtube.com/playlist?list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu GlyGen YouTube channel]. | ||
== September 16, 2025 - Daniel Bojar == | |||
'''Structure, Function, and Everything in Between: Glyco-AI goes 3D''' | |||
[[File:Daniel Bojar Headshot.jpg|alt=Picture of Daniel Bojar, Ph.D.|thumb|198x198px|'''Daniel Bojar, Ph.D.''']] | |||
'''Daniel Bojar, Ph.D.''' | |||
Associate Professor at the Department of Chemistry and Molecular Biology, University of Gothenburg, Sweden | |||
Glycans are structurally complex biomolecules that are difficult to characterize, leading to unclear structure-to-function relationships. We recently developed GlyContact, an open-source Python package that lets users easily analyze glycan 3D conformations from molecular dynamics simulations and experimental data. This platform reveals how sequence context affects glycan structure, improves AI models for lectin-glycan binding prediction, and enables the prediction of glycan structural parameters from sequence alone. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday September 16, 10am ET | |||
Meeting link: <nowiki>https://gwu-edu.zoom.us/j/97622783998?jst=2</nowiki> | |||
Meeting ID: '''97622783998''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/u/0/r/eventedit?text=GlySpace+Alliance+Webinar+Series:+Dr.+Daniel+Bojar+presents+Structure,+Function,+and+Everything+in+Between+-+Glyco-AI+goes+3D&dates=20250916T140000Z/20250916T150000Z&details=Join+us+for+the+GlySpace+Alliance+Webinar+Series+which+includes+talks+from+prominent+researchers+and+PIs+from+the+glycomics,+proteomics+and+bioinformatics+community.+This+series+is+held+once+a+month.+This+month+Daniel+Bojar,+Ph.D.+%28https://www.linkedin.com/in/daniel-bojar-418647b2/%29+will+be+presenting.%0A%0AAbstract:+Glycans+are+structurally+complex+biomolecules+that+are+difficult+to+characterize,+leading+to+unclear+structure-to-function+relationships.+We+recently+developed+GlyContact,+an+open-source+Python+package+that+lets+users+easily+analyze+glycan+3D+conformations+from+molecular+dynamics+simulations+and+experimental+data.+This+platform+reveals+how+sequence+context+affects+glycan+structure,+improves+AI+models+for+lectin-glycan+binding+prediction,+and+enables+the+prediction+of+glycan+structural+parameters+from+sequence+alone.%0A%0A**Zoom+Meeting**%0Ahttps://gwu-edu.zoom.us/j/97622783998?jst=2%0A%0AMeeting+ID:+97622783998&location=https://gwu-edu.zoom.us/j/97622783998?jst=2 Google] | [https://outlook.live.com/calendar/0/deeplink/compose?subject=GlySpace%20Alliance%20Webinar%20Series%3A%20Dr.%20Daniel%20Bojar%20presents%20Structure%2C%20Function%2C%20and%20Everything%20in%20Between%20-%20Glyco-AI%20goes%203D&body=Join%20us%20for%20the%20GlySpace%20Alliance%20Webinar%20Series%20which%20includes%20talks%20from%20prominent%20researchers%20and%20PIs%20from%20the%20glycomics%2C%20proteomics%20and%20bioinformatics%20community.%20This%20series%20is%20held%20once%20a%20month.%20This%20month%20Daniel%20Bojar%2C%20Ph.D.%20%28https%3A%2F%2Fwww.linkedin.com%2Fin%2Fdaniel-bojar-418647b2%2F%29%20will%20be%20presenting.%0A%0AAbstract%3A%20Glycans%20are%20structurally%20complex%20biomolecules%20that%20are%20difficult%20to%20characterize%2C%20leading%20to%20unclear%20structure-to-function%20relationships.%20We%20recently%20developed%20GlyContact%2C%20an%20open-source%20Python%20package%20that%20lets%20users%20easily%20analyze%20glycan%203D%20conformations%20from%20molecular%20dynamics%20simulations%20and%20experimental%20data.%20This%20platform%20reveals%20how%20sequence%20context%20affects%20glycan%20structure%2C%20improves%20AI%20models%20for%20lectin-glycan%20binding%20prediction%2C%20and%20enables%20the%20prediction%20of%20glycan%20structural%20parameters%20from%20sequence%20alone.%0A%0A**Zoom%20Meeting**%0Ahttps%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F97622783998%3Fjst%3D2%0A%0AMeeting%20ID%3A%2097622783998&startdt=2025-09-16T10:00:00&enddt=2025-09-16T11:00:00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F97622783998%3Fjst%3D2 Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': [https://www.linkedin.com/in/daniel-bojar-418647b2/ Daniel Bojar | LinkedIn] | |||
== July 29, 2025 - Rene Ranzinger == | |||
[[File:Headshot of Rene Ranzinger, Ph.D..png|alt=Picture of Rene Ranzinger, Ph.D.|thumb|198x198px|'''Rene Ranzinger, Ph.D.''']] | |||
'''Exploring GlyGen's v2.8 Features''' | |||
'''Rene Ranzinger, Ph.D.''' | |||
Co-Investigator, GlyGen, CCRC, University of Georgia, Athens | |||
GlyGen is a knowledgebase integrating and standardizing glycan and glycoprotein data to support glycobiology and biomedical research. In this webinar, recent enhancements and features from v2.8 will be showcased, including a new job status page, a unified cart feature, improved search options, and expanded species support. A brief walkthrough of glycan and protein searches and their corresponding details pages will also be covered. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday July 29, 10am ET | |||
Meeting link: https://gwu-edu.zoom.us/j/91498498310 | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/u/0/r/eventedit?dates=20250729T140000Z/20250729T150000Z&details=GlySpace+Alliance+Webinar+Series:+Exploring+GlyGen%E2%80%99s+v2.8+Features%0ATalk+by+Rene+Ranzinger%0AAbstract:+GlyGen+is+a+knowledgebase+integrating+and+standardizing+glycan+and+glycoprotein+data+to+support+glycobiology+and+biomedical+research.+In+this+webinar,+recent+enhancements+and+features+from+v2.8+will+be+showcased,+including+a+new+job+status+page,+a+unified+cart+feature,+improved+search+options,+and+expanded+species+support.+A+brief+walkthrough+of+glycan+and+protein+searches+and+their+corresponding+details+pages+will+also+be+covered.&text=GlySpace+Alliance+Webinar+Series:+Exploring+GlyGen%E2%80%99s+v2.8+Features Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=GlySpace%20Alliance%20Webinar%20Series%3A%20Exploring%20GlyGen%E2%80%99s%20v2.8%20Features%0ATalk%20by%20Rene%20Ranzinger%0AAbstract%3A%20GlyGen%20is%20a%20knowledgebase%20integrating%20and%20standardizing%20glycan%20and%20glycoprotein%20data%20to%20support%20glycobiology%20and%20biomedical%20research.%20In%20this%20webinar%2C%20recent%20enhancements%20and%20features%20from%20v2.8%20will%20be%20showcased%2C%20including%20a%20new%20job%20status%20page%2C%20a%20unified%20cart%20feature%2C%20improved%20search%20options%2C%20and%20expanded%20species%20support.%20A%20brief%20walkthrough%20of%20glycan%20and%20protein%20searches%20and%20their%20corresponding%20details%20pages%20will%20also%20be%20covered.&enddt=2025-07-29T11%3A00%3A00&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-07-29T10%3A00%3A00&subject=GlySpace%20Alliance%20Webinar%20Series%3A%20Exploring%20GlyGen%E2%80%99s%20v2.8%20Features Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': [https://www.linkedin.com/in/rene-ranzinger-8000b8322/ Rene Ranzinger | LinkedIn] | |||
== June 03, 2025 - Noël Burtt == | |||
[[File:Burtt headshot 2024.png|alt=Picture of Noël Burtt, Ph.D.|thumb|198x198px|'''Noël Burtt, Ph.D.''']] | |||
'''The Common Fund Data Ecosystem: a unique model for a resource of resources for the biomedical community''' | |||
'''Noël Burtt, Ph.D.''' | |||
Director, Operations & Development, Diabetes Research & Knowledge Portals in Medical and Population Genetics Program and Metabolism Program Broad Institute | |||
The Common Fund Data Ecosystem is a unique model for a resource of resources. Currently, the program combines 18 data resources and 5 centers to drive scientific discovery across biomedical research by making data, metadata, tools, and analytical results easy to access, use, and interpret. We will explore the ways members of the GlySpace community can navigate the ecosystem. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday June 03, 10am ET | |||
Meeting link: <nowiki>https://gwu-edu.zoom.us/j/91498498310</nowiki> | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20250603T140000Z%2F20250603T150000Z&details=The%20Common%20Fund%20Data%20Ecosystem%3A%20a%20unique%20model%20for%20a%20resource%20of%20resources%20for%20the%20biomedical%20community.%0A%0AThe%20Common%20Fund%20Data%20Ecosystem%20is%20a%20unique%20model%20for%20a%20resource%20of%20resources.%20Currently%2C%20the%20program%20combines%2018%20data%20resources%20and%205%20centers%20to%20drive%20scientific%20discovery%20across%20biomedical%20research%20by%20making%20data%2C%20metadata%2C%20tools%2C%20and%20analytical%20results%20easy%20to%20access%2C%20use%2C%20and%20interpret.%20We%20will%20explore%20the%20ways%20members%20of%20the%20GlySpace%20community%20can%20navigate%20the%20ecosystem.%0A%0ABy%20-%20Dr.%20No%C3%ABl%20Burtt%0A%0Ahttps%3A%2F%2Fwww.broadinstitute.org%2Fbios%2Fno%25C3%25ABl-burtt%0A%0Ahttps%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlySpace%20Alliance%20Webinar%20Series%3A%20Talk%20by%20Dr.%20No%C3%ABl%20Burtt Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=The%20Common%20Fund%20Data%20Ecosystem%3A%20a%20unique%20model%20for%20a%20resource%20of%20resources%20for%20the%20biomedical%20community.%0A%0AThe%20Common%20Fund%20Data%20Ecosystem%20is%20a%20unique%20model%20for%20a%20resource%20of%20resources.%20Currently%2C%20the%20program%20combines%2018%20data%20resources%20and%205%20centers%20to%20drive%20scientific%20discovery%20across%20biomedical%20research%20by%20making%20data%2C%20metadata%2C%20tools%2C%20and%20analytical%20results%20easy%20to%20access%2C%20use%2C%20and%20interpret.%20We%20will%20explore%20the%20ways%20members%20of%20the%20GlySpace%20community%20can%20navigate%20the%20ecosystem.%0A%0ABy%20-%20Dr.%20No%C3%ABl%20Burtt%0A%0Ahttps%3A%2F%2Fwww.broadinstitute.org%2Fbios%2Fno%25C3%25ABl-burtt%0A%0Ahttps%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&enddt=2025-06-03T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-06-03T10%3A00%3A00&subject=GlySpace%20Alliance%20Webinar%20Series%3A%20Talk%20by%20Dr.%20No%C3%ABl%20Burtt Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': https://www.broadinstitute.org/bios/no%C3%ABl-burtt | |||
== May 13, 2025 - Issaku Yamada == | |||
[[File:Issaku-Yamada pic.png|alt=Picture of Issaku Yamada, PhD|thumb|229x229px|Issaku Yamada, PhD]] | |||
'''Bridging Glycan Data: Integrating Structures, Notations and Knowledge with Semantic Web Technologies''' | |||
'''Issaku Yamada, Ph.D.''' | |||
Head of Laboratory at Noguchi Institute | |||
In the realm of glycoscience, the diversity of glycan notations and data formats poses a significant challenge to interoperability and knowledge integration. This talk introduces a suite of tools—including GlycanFormatConverter, MolWURCS, PDB2Glycan, SugarDrawer and GlycanBuilder—developed to unify text notations and support visualization, extraction, and semantic annotation of glycan structures. By leveraging Semantic Web technologies, we aim to enhance the accessibility and integration of glycan-related data across research platforms and international databases. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday May 13, 10am ET | |||
Meeting link: <nowiki>https://gwu-edu.zoom.us/j/91498498310</nowiki> | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20250513T140000Z%2F20250513T150000Z&details=Bridging%20Glycan%20Data%3A%20Integrating%20Structures%2C%20Notations%20and%20Knowledge%20with%20Semantic%20Web%20Technologies&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlyGen%20Webinar%20Series%20-%20May%202025 Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=Bridging%20Glycan%20Data%3A%20Integrating%20Structures%2C%20Notations%20and%20Knowledge%20with%20Semantic%20Web%20Technologies&enddt=2025-05-13T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-05-13T10%3A00%3A00&subject=GlyGen%20Webinar%20Series%20-%20May%202025 Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': https://www.linkedin.com/in/issaku-yamada-809885102/ | |||
== April 01, 2025 - Zhiyong Lu == | |||
[[File:Lu Zhiyong, PhD.jpg|alt=Picture of Zhiyong Lu, PhD|thumb|238x238px|Zhiyong Lu, PhD]] | |||
'''Biomedical Text Mining for Assisting Literature Retrieval and Curation''' | |||
'''Zhiyong Lu, Ph.D.''' | |||
Senior Investigator, National Library of Medicine, | |||
NIH Professor of Computer Science (Adjunct), UIUC | |||
In this talk, I will present our work on developing large-scale, machine-learning based tools for better accessing and analyzing scientific information in the biomedical literature. Moreover, I will demonstrate their uses in some real-world applications such as improving PubMed searches (Fiorini et al., Nature Biotechnology 2018), supporting literature data curation (Wei et al., Nucleic Acids Research, 2023; Allot et al., Nature Genetics 2023), and taming COVID-19 pandemic paper tsunami (Chen et al., Nature 2000). | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday Apr 01, 10am ET | |||
Meeting link: <nowiki>https://gwu-edu.zoom.us/j/91498498310</nowiki> | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20250401T140000Z%2F20250401T150000Z&details=Biomedical%20Text%20Mining%20for%20Assisting%20Literature%20Retrieval%20and%20Curation&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlyGen%20Webinar%20Series%20-%20Apr%202025 Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=Biomedical%20Text%20Mining%20for%20Assisting%20Literature%20Retrieval%20and%20Curation&enddt=2025-04-01T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-04-01T10%3A00%3A00&subject=GlyGen%20Webinar%20Series%20-%20Apr%202025 Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': <nowiki>https://www.linkedin.com/in/drzhiyonglu/</nowiki> | |||
== March 11, 2025 - Nicholas M. Riley == | |||
[[File:Riley Nick.jpg|alt=Picture of Nicholas M. Riley, Ph.D.|thumb|277x277px|Nicholas M. Riley, Ph.D.]] | |||
'''Tools To Explore Complex Glycoproteomics Data''' | |||
'''Nicholas M. Riley, Ph.D.''' | |||
Assistant Professor at the Department of Chemistry, University of Washington | |||
Glycopeptide tandem MS spectra are complex and often challenging to interpret, even with modern search engines that have significantly improved the ability to assign glycopeptide identifications. Here I will discuss several strategies our group is developing to improve our data analysis. I will also highlight several examples of how these tools have subsequently helped us refine the methods we use to interrogate the glycoproteome. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday Mar 11, 10am ET | |||
Meeting link: https://gwu-edu.zoom.us/j/91498498310 | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20250311T140000Z%2F20250311T150000Z&details=Tools%20To%20Explore%20Complex%20Glycoproteomics%20Data&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlyGen%20Webinar%20Series%20-%20Jan%202024 Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=Tools%20To%20Explore%20Complex%20Glycoproteomics%20Data&enddt=2025-03-11T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-03-11T10%3A00%3A00&subject=GlyGen%20Webinar%20Series%20-%20Jan%202024 Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': https://www.linkedin.com/in/nicholas-m-riley/ | |||
== February 04, 2025 - Parastoo Azadi == | |||
[[File:Parastoo Azadi, PH.D..jpg|alt=Picture of Parastoo Azadi, PH.D.|thumb|198x198px|Parastoo Azadi, PH.D.]] | |||
'''Research, Collaboration, Service and Training at the Complex Carbohydrate Research Center''' | |||
'''Parastoo Azadi, Ph.D.''' | |||
Associate Director of CCRC - Service & Training | |||
Executive Technical Director, Complex Carbohydrate Research Center, University of Georgia, Athens | |||
The Complex Carbohydrate Research Center (CCRC)’s service and training laboratory integrates research, collaboration, and training to develop tools for the structural characterization of glycoconjugates, including polysaccharides, glycoproteins, and glycolipids, using MS and NMR. These tools are shared with the broader scientific community through collaborative efforts and training programs. The center's mission includes initiating new collaborations and providing comprehensive training to cultivate the next generation of glycoscientists. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday Feb 04, 10am ET | |||
Meeting link: https://gwu-edu.zoom.us/j/91498498310 | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20250204T150000Z%2F20250204T160000Z&details=Research%2C%20Collaboration%2C%20Service%20and%20Training%20at%20the%20Complex%20Carbohydrate%20Research%20Center%20&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlyGen%20Webinar%20Series%20-%20Feb%202025 Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=Research%2C%20Collaboration%2C%20Service%20and%20Training%20at%20the%20Complex%20Carbohydrate%20Research%20Center%20&enddt=2025-02-04T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-02-04T10%3A00%3A00&subject=GlyGen%20Webinar%20Series%20-%20Feb%202025 Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': https://www.linkedin.com/in/parastoo-azadi-57a06133/ | |||
== January 28, 2025 - Zhiyong Lu == | |||
[[File:Lu Zhiyong, PhD.jpg|alt=Picture of Zhiyong Lu, PhD|thumb|238x238px|Zhiyong Lu, PhD]] | |||
'''<big>''<u>Cancelled</u>''</big>: Biomedical Text Mining for Assisting Literature Retrieval and Curation''' | |||
'''Zhiyong Lu, Ph.D.''' | |||
Senior Investigator, National Library of Medicine, | |||
NIH Professor of Computer Science (Adjunct), UIUC | |||
In this talk, I will present our work on developing large-scale, machine-learning based tools for better accessing and analyzing scientific information in the biomedical literature. Moreover, I will demonstrate their uses in some real-world applications such as improving PubMed searches (Fiorini et al., Nature Biotechnology 2018), supporting literature data curation (Wei et al., Nucleic Acids Research, 2023; Allot et al., Nature Genetics 2023), and taming COVID-19 pandemic paper tsunami (Chen et al., Nature 2000). | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday Jan 28, 10am ET | |||
Meeting link: https://gwu-edu.zoom.us/j/91498498310 | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20250128T150000Z%2F20250128T160000Z&details=Biomedical%20Text%20Mining%20for%20Assisting%20Literature%20Retrieval%20and%20Curation&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlyGen%20Webinar%20Series%20-%20Jan%202024 Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=Biomedical%20Text%20Mining%20for%20Assisting%20Literature%20Retrieval%20and%20Curation&enddt=2025-01-28T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2025-01-28T10%3A00%3A00&subject=GlyGen%20Webinar%20Series%20-%20Jan%202024 Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': https://www.linkedin.com/in/drzhiyonglu/ | |||
== December 10, 2024 - John Cipollo == | |||
[[File:John Cipollo, PhD.jpg|alt=Picture of John Cipollo, PhD|thumb|199x199px|John Cipollo, PhD]] | |||
'''Mass Spectrometry Driven Glycoconjugate Analysis: Structure – Function Relationships in Vaccines and Infectious Disease''' | |||
'''John Cipollo, Ph.D.''' | |||
Food and Drug Administration Center for Biologics Evaluation and Research | |||
Mass spectrometry can provide a power suite of analytical approaches to investigate glycoconjugate structure. Presented in this talk, it is demonstrated how informatics, structural examination, modeling and mass spectrometry have been used in the vaccine and infectious disease space. Important immune recognition events are discussed as revealed by structural analysis and follow-on biochemical analysis. | |||
'''Zoom Meeting Details''' | |||
Date: Tuesday Dec 10, 10am ET | |||
Meeting link: https://gwu-edu.zoom.us/j/91498498310 | |||
Meeting ID: '''91498498310''' | |||
'''Add to Calendar: [https://calendar.google.com/calendar/render?action=TEMPLATE&dates=20241210T150000Z%2F20241210T160000Z&details=Mass%20Spectrometry%20Driven%20Glycoconjugate%20Analysis%3A%20Structure%20%E2%80%93%20Function%20Relationships%20in%20Vaccines%20and%20Infectious%20Disease&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&text=GlyGen%20Webinar%20Series%20-%20Talk%20By%20Dr.%20John%20Cipollo Google] | [https://outlook.live.com/calendar/0/action/compose?allday=false&body=Mass%20Spectrometry%20Driven%20Glycoconjugate%20Analysis%3A%20Structure%20%E2%80%93%20Function%20Relationships%20in%20Vaccines%20and%20Infectious%20Disease&enddt=2024-12-10T11%3A00%3A00&location=https%3A%2F%2Fgwu-edu.zoom.us%2Fj%2F91498498310&path=%2Fcalendar%2Faction%2Fcompose&rru=addevent&startdt=2024-12-10T10%3A00%3A00&subject=GlyGen%20Webinar%20Series%20-%20Talk%20By%20Dr.%20John%20Cipollo Outlook]''' | |||
'''Recorded Talk Video: TBA''' | |||
'''Link''': https://www.linkedin.com/in/john-cipollo-94485154/ | |||
== November 19, 2024 - Elisa Fadda == | == November 19, 2024 - Elisa Fadda == | ||
[[File:Elisa Fadda, PhD.jpg|alt=Picture of Elisa Fadda, PhD|thumb|Elisa Fadda, PhD]] | [[File:Elisa Fadda, PhD.jpg|alt=Picture of Elisa Fadda, PhD|200px|right|thumb|Elisa Fadda, PhD]] | ||
'''Restoring Protein Glycosylation with GlycoShape''' | '''Restoring Protein Glycosylation with GlycoShape''' | ||
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University of Southampton | University of Southampton | ||
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'''Link''': https://www.linkedin.com/in/elisa-fadda-a012b194/?originalSubdomain=ie | '''Link''': https://www.linkedin.com/in/elisa-fadda-a012b194/?originalSubdomain=ie | ||
'''Slides:''' [https://drive.google.com/file/d/1vIBq-KbByZiIjJ96XpzvhU2q9rTVso0Q/view?usp=sharing Elisa_Fadda_Slides] | |||
== October 22, 2024 - Daniel Kolarich == | == October 22, 2024 - Daniel Kolarich == | ||
[[File:Daniel Kolarich, PhD.jpg|alt=Picture of Daniel Kolarich, PhD|thumb|Daniel Kolarich, PhD]] | [[File:Daniel Kolarich, PhD.jpg|alt=Picture of Daniel Kolarich, PhD|200px|right|thumb|Daniel Kolarich, PhD]] | ||
'''Towards understanding the role of glycosylation in evolution and stem cell biology''' | '''Towards understanding the role of glycosylation in evolution and stem cell biology''' | ||
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This webinar will cover two major themes of our current research: First, the use of glycomics to understand how glycosylation features have evolved in vertebrae will demonstrate the importance to capture glycosylation features to decipher the actual glycosylation events, and second, the role glycosylation of key stem cell cytokines plays for erythropoiesis. These examples will highlight the importance to integrated different -omics technologies for deciphering the diverse roles of functional glycan involvement. | This webinar will cover two major themes of our current research: First, the use of glycomics to understand how glycosylation features have evolved in vertebrae will demonstrate the importance to capture glycosylation features to decipher the actual glycosylation events, and second, the role glycosylation of key stem cell cytokines plays for erythropoiesis. These examples will highlight the importance to integrated different -omics technologies for deciphering the diverse roles of functional glycan involvement. | ||
''' | '''Recorded Talk Video:''' [https://www.youtube.com/watch?v=mog-VZW5w4g&list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu&index=6 YouTube] | ||
'''Link''': [https://www.linkedin.com/in/daniel-kolarich-glycomics/ LinkedIn] | |||
''' | |||
== September 17, 2024 - Olga Gornik == | == September 17, 2024 - Olga Gornik == | ||
[[File:Olga Gornik, PhD.jpg|thumb|Olga Gornik, PhD]] | [[File:Olga Gornik, PhD.jpg|200px|right|thumb|Olga Gornik, PhD]] | ||
'''N-glycosylation in diabetes''' | '''N-glycosylation in diabetes''' | ||
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The webinar will provide an overview of our research on N-glycosylation of plasma proteins in diabetes. It will present our findings on glycan structures as potential diagnostic markers for predicting, diagnosing, and monitoring various diabetes subtypes. Additionally, the lecture will also cover the genetic regulation of glycosylation, focusing on specific proteins like immunoglobulin G and complement component 3 . | The webinar will provide an overview of our research on N-glycosylation of plasma proteins in diabetes. It will present our findings on glycan structures as potential diagnostic markers for predicting, diagnosing, and monitoring various diabetes subtypes. Additionally, the lecture will also cover the genetic regulation of glycosylation, focusing on specific proteins like immunoglobulin G and complement component 3 . | ||
''' | '''Recorded Talk Video:''' [https://www.youtube.com/watch?v=d_0WLPjJ65E&list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu&index=5 YouTube] | ||
'''Link''': [https://www.linkedin.com/in/olga-gornik-501bb813/ LinkedIn] | |||
== May 7, 2024 - Lara Mahal == | == May 7, 2024 - Lara Mahal == | ||
[[File:Lara Mahal, PhD.jpg|thumb|Lara Mahal, PhD]] | [[File:Lara Mahal, PhD.jpg|200px|right|thumb|Lara Mahal, PhD]] | ||
'''Adding a little sugar: how incorporating glycomics into multi'omic analysis reveals new biological insights''' | '''Adding a little sugar: how incorporating glycomics into multi'omic analysis reveals new biological insights''' | ||
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Glycosylation is an often underappreciated aspect of biology and is rarely incorporated into multi'omic systems biology. Our laboratory pioneered lectin microarray technology and has been using this method to integrate glycomic data into large multi'omic datasets. Here, I will discuss some of our latest work showcasing the importance of including the glycome. | Glycosylation is an often underappreciated aspect of biology and is rarely incorporated into multi'omic systems biology. Our laboratory pioneered lectin microarray technology and has been using this method to integrate glycomic data into large multi'omic datasets. Here, I will discuss some of our latest work showcasing the importance of including the glycome. | ||
'''Recorded Talk Video: TBA''' | '''Recorded Talk Video: TBA''' | ||
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== April 9, 2024 - Kristian Axelsen == | == April 9, 2024 - Kristian Axelsen == | ||
[[File:Axelsen.jpg|thumb|Kristian Axelsen, PhD]] | [[File:Axelsen.jpg|200px|right|thumb|Kristian Axelsen, PhD]] | ||
'''Glycobiology in the Rhea knowledgebase''' | '''Glycobiology in the Rhea knowledgebase''' | ||
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== March 12, 2024 - Juan Antonio Vizcaino == | == March 12, 2024 - Juan Antonio Vizcaino == | ||
[[File:Juan_Antonio_Vizcaino.jpg|thumb|Juan Antonio Vizcaino, PhD]] | [[File:Juan_Antonio_Vizcaino.jpg|200px|right|thumb|Juan Antonio Vizcaino, PhD]] | ||
'''The PRIDE database and ProteomeXchange: Making Proteomics data FAIR''' | '''The PRIDE database and ProteomeXchange: Making Proteomics data FAIR''' | ||
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== February 27, 2024 - Kiyoko Aoki-Kinoshita == | == February 27, 2024 - Kiyoko Aoki-Kinoshita == | ||
[[File:Kiyoko Aoki-Kinoshita-min.png|thumb|Kiyoko Aoki-Kinoshita, PhD]] | [[File:Kiyoko Aoki-Kinoshita-min.png|200px|right|thumb|Kiyoko Aoki-Kinoshita, PhD]] | ||
'''Glycoinformatics: past, present and future''' | '''Glycoinformatics: past, present and future''' | ||
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== January 30, 2024 - Clement Potel == | == January 30, 2024 - Clement Potel == | ||
[[File:Clement Potel, PhD.jpg|thumb|Clement Potel, PhD]] | [[File:Clement Potel, PhD.jpg|200px|right|thumb|Clement Potel, PhD]] | ||
'''Deep quantitative glycoproteomics reveals gut microbiome induced remodeling of the brain glycoproteome''' | '''Deep quantitative glycoproteomics reveals gut microbiome induced remodeling of the brain glycoproteome''' | ||
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== December 12, 2023 - Daniel Bojar == | == December 12, 2023 - Daniel Bojar == | ||
[[File:Daniel Bojar, PhD.jpg|thumb|Daniel Bojar, PhD]] | [[File:Daniel Bojar, PhD.jpg|200px|right|thumb|Daniel Bojar, PhD]] | ||
'''From Complexity to Clarity: Algorithmic Exploration of Glycans''' | '''From Complexity to Clarity: Algorithmic Exploration of Glycans''' | ||
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== November 28, 2023 - Nadine Samara == | == November 28, 2023 - Nadine Samara == | ||
[[File:Nadine Samara, PhD.jpg|thumb|Nadine Samara, PhD]] | [[File:Nadine Samara, PhD.jpg|200px|right|thumb|Nadine Samara, PhD]] | ||
'''Evolution of the diverse substrate specificities of mucin-type O-glycosyltransferases (GalNAc-Ts) from pathogen to host''' | '''Evolution of the diverse substrate specificities of mucin-type O-glycosyltransferases (GalNAc-Ts) from pathogen to host''' | ||
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== October 31, 2023 - Stacia R. Engel == | == October 31, 2023 - Stacia R. Engel == | ||
[[File:Stacia Engel.jpg|thumb|Stacia R. Engel, PhD]] | [[File:Stacia Engel.jpg|200px|right|thumb|Stacia R. Engel, PhD]] | ||
'''The Awesome Power of SGD''' | '''The Awesome Power of SGD''' | ||
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== September 26, 2023 - Marissa Maciej-Hulme == | == September 26, 2023 - Marissa Maciej-Hulme == | ||
[[File:Marissa Maciej-Hulme.jpg|thumb|Marissa Maciej-Hulme, PhD]] | [[File:Marissa Maciej-Hulme.jpg|200px|right|thumb|Marissa Maciej-Hulme, PhD]] | ||
'''Pushing new frontiers in GAGomics''' | '''Pushing new frontiers in GAGomics''' | ||
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Glycosaminoglycans (GAGs) are long linear mammalian polysaccharides synthesized on select protein cores that play a plethora of roles in development, homeostasis, and disease. GAGomics seeks to profile GAGs using mass spectrometry and bioinformatics for the identification of significant structures as diagnostics and treatment targets. Dr. Marissa Maciej-Hulme will explore the current status of GAGomics as well as future directions of the field. | Glycosaminoglycans (GAGs) are long linear mammalian polysaccharides synthesized on select protein cores that play a plethora of roles in development, homeostasis, and disease. GAGomics seeks to profile GAGs using mass spectrometry and bioinformatics for the identification of significant structures as diagnostics and treatment targets. Dr. Marissa Maciej-Hulme will explore the current status of GAGomics as well as future directions of the field. | ||
'''Recorded Talk Video:''' [https://www.youtube.com/watch?v=NsSy7LjiyM8&list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu&index=4 YouTube] | |||
'''Link''': [https://www.linkedin.com/in/marissa-maciej-hulme-38b5b651/?originalSubdomain=nl LinkedIn] | |||
== August 22, 2023 - Manfred Wuhrer == | == August 22, 2023 - Manfred Wuhrer == | ||
[[File:Photo_Manfred_Wuhrer.jpg|thumb|Manfred Wuhrer, PhD]] | [[File:Photo_Manfred_Wuhrer.jpg|200px|right|thumb|Manfred Wuhrer, PhD]] | ||
'''Mass spectrometry glycomics of tissues and biofluids''' | '''Mass spectrometry glycomics of tissues and biofluids''' | ||
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'''Recorded Talk Video:''' https://www.youtube.com/watch?v=F-B6kltstKM | '''Recorded Talk Video:''' [https://www.youtube.com/watch?v=F-B6kltstKM&list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu&index=3 YouTube] | ||
'''Link''': [https://www.universiteitleiden.nl/en/staffmembers/manfred-wuhrer#tab-1 Manfred Wuhrer (University Leiden)] | '''Link''': [https://www.universiteitleiden.nl/en/staffmembers/manfred-wuhrer#tab-1 Manfred Wuhrer (University Leiden)] | ||
== April 18, 2023 - Harry Brumer == | == April 18, 2023 - Harry Brumer == | ||
[[File:HarryBrumer.jpg|thumb|Harry Brumer, PhD]] | [[File:HarryBrumer.jpg|200px|right|thumb|Harry Brumer, PhD]] | ||
'''CAZypedia – A Living Encyclopedia of Carbohydrate-Active Enzymes''' | '''CAZypedia – A Living Encyclopedia of Carbohydrate-Active Enzymes''' | ||
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== March 28, 2023 - Rebekah L. Gundry == | == March 28, 2023 - Rebekah L. Gundry == | ||
[[File:RebekahLGundry.png|thumb|Rebekah L. Gundry, PhD]] | [[File:RebekahLGundry.png|200px|right|thumb|Rebekah L. Gundry, PhD]] | ||
'''Expanding our View of the Cardiac Surfaceome: New Bioinformatic Tools and Technologies for Mapping Glycoproteins and Glycans from Small Sample Sizes''' | '''Expanding our View of the Cardiac Surfaceome: New Bioinformatic Tools and Technologies for Mapping Glycoproteins and Glycans from Small Sample Sizes''' | ||
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== February 07, 2023 - Christopher M. West == | == February 07, 2023 - Christopher M. West == | ||
[[File:ChrisWest.jpg|thumb|Christopher M. West, PhD]] | [[File:ChrisWest.jpg|200px|right|thumb|Christopher M. West, PhD]] | ||
'''A brief excursion through the glycobiology of unicellular eukaryotes''' | '''A brief excursion through the glycobiology of unicellular eukaryotes''' | ||
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'''Recording of the Talk''': [https://www.youtube.com/watch?v=jZi6fJc-iMo&list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu&index=2 YouTube] | '''Recording of the Talk''': [https://www.youtube.com/watch?v=jZi6fJc-iMo&list=PLLcSDnGh0I5024iBWt8ZUYnx6Gjh3_AUu&index=2 YouTube] | ||
'''Link''': [https://www.bmb.uga.edu/research/lab/west Lab webpage] | '''Link''': [https://www.bmb.uga.edu/research/lab/west Lab webpage] | ||
== December 06, 2022 - Lingjun Li == | == December 06, 2022 - Lingjun Li == | ||
[[File:LingjunLi.jpg|thumb|Lingjun Li, PhD]] | [[File:LingjunLi.jpg|200px|right|thumb|Lingjun Li, PhD]] | ||
'''Advancing Glycomics and Glycoproteomics via MultiplexedChemical Tagging Technology''' | '''Advancing Glycomics and Glycoproteomics via MultiplexedChemical Tagging Technology''' |
Latest revision as of 16:59, 15 September 2025
For new, upcoming talks, click here to find the new schedule.
The GlyGen project organizes public webinars on diverse topics, ranging from bioinformatics databases to new glycomics analysis techniques producing interesting data. Recordings of the talks are released on the GlyGen YouTube channel.
September 16, 2025 - Daniel Bojar
Structure, Function, and Everything in Between: Glyco-AI goes 3D

Daniel Bojar, Ph.D.
Associate Professor at the Department of Chemistry and Molecular Biology, University of Gothenburg, Sweden
Glycans are structurally complex biomolecules that are difficult to characterize, leading to unclear structure-to-function relationships. We recently developed GlyContact, an open-source Python package that lets users easily analyze glycan 3D conformations from molecular dynamics simulations and experimental data. This platform reveals how sequence context affects glycan structure, improves AI models for lectin-glycan binding prediction, and enables the prediction of glycan structural parameters from sequence alone.
Zoom Meeting Details
Date: Tuesday September 16, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/97622783998?jst=2
Meeting ID: 97622783998
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: Daniel Bojar | LinkedIn
July 29, 2025 - Rene Ranzinger

Exploring GlyGen's v2.8 Features
Rene Ranzinger, Ph.D.
Co-Investigator, GlyGen, CCRC, University of Georgia, Athens
GlyGen is a knowledgebase integrating and standardizing glycan and glycoprotein data to support glycobiology and biomedical research. In this webinar, recent enhancements and features from v2.8 will be showcased, including a new job status page, a unified cart feature, improved search options, and expanded species support. A brief walkthrough of glycan and protein searches and their corresponding details pages will also be covered.
Zoom Meeting Details
Date: Tuesday July 29, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: Rene Ranzinger | LinkedIn
June 03, 2025 - Noël Burtt

The Common Fund Data Ecosystem: a unique model for a resource of resources for the biomedical community
Noël Burtt, Ph.D.
Director, Operations & Development, Diabetes Research & Knowledge Portals in Medical and Population Genetics Program and Metabolism Program Broad Institute
The Common Fund Data Ecosystem is a unique model for a resource of resources. Currently, the program combines 18 data resources and 5 centers to drive scientific discovery across biomedical research by making data, metadata, tools, and analytical results easy to access, use, and interpret. We will explore the ways members of the GlySpace community can navigate the ecosystem.
Zoom Meeting Details
Date: Tuesday June 03, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.broadinstitute.org/bios/no%C3%ABl-burtt
May 13, 2025 - Issaku Yamada

Bridging Glycan Data: Integrating Structures, Notations and Knowledge with Semantic Web Technologies
Issaku Yamada, Ph.D.
Head of Laboratory at Noguchi Institute
In the realm of glycoscience, the diversity of glycan notations and data formats poses a significant challenge to interoperability and knowledge integration. This talk introduces a suite of tools—including GlycanFormatConverter, MolWURCS, PDB2Glycan, SugarDrawer and GlycanBuilder—developed to unify text notations and support visualization, extraction, and semantic annotation of glycan structures. By leveraging Semantic Web technologies, we aim to enhance the accessibility and integration of glycan-related data across research platforms and international databases.
Zoom Meeting Details
Date: Tuesday May 13, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/issaku-yamada-809885102/
April 01, 2025 - Zhiyong Lu

Biomedical Text Mining for Assisting Literature Retrieval and Curation
Zhiyong Lu, Ph.D.
Senior Investigator, National Library of Medicine,
NIH Professor of Computer Science (Adjunct), UIUC
In this talk, I will present our work on developing large-scale, machine-learning based tools for better accessing and analyzing scientific information in the biomedical literature. Moreover, I will demonstrate their uses in some real-world applications such as improving PubMed searches (Fiorini et al., Nature Biotechnology 2018), supporting literature data curation (Wei et al., Nucleic Acids Research, 2023; Allot et al., Nature Genetics 2023), and taming COVID-19 pandemic paper tsunami (Chen et al., Nature 2000).
Zoom Meeting Details
Date: Tuesday Apr 01, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/drzhiyonglu/
March 11, 2025 - Nicholas M. Riley

Tools To Explore Complex Glycoproteomics Data
Nicholas M. Riley, Ph.D.
Assistant Professor at the Department of Chemistry, University of Washington
Glycopeptide tandem MS spectra are complex and often challenging to interpret, even with modern search engines that have significantly improved the ability to assign glycopeptide identifications. Here I will discuss several strategies our group is developing to improve our data analysis. I will also highlight several examples of how these tools have subsequently helped us refine the methods we use to interrogate the glycoproteome.
Zoom Meeting Details
Date: Tuesday Mar 11, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/nicholas-m-riley/
February 04, 2025 - Parastoo Azadi

Research, Collaboration, Service and Training at the Complex Carbohydrate Research Center
Parastoo Azadi, Ph.D.
Associate Director of CCRC - Service & Training
Executive Technical Director, Complex Carbohydrate Research Center, University of Georgia, Athens
The Complex Carbohydrate Research Center (CCRC)’s service and training laboratory integrates research, collaboration, and training to develop tools for the structural characterization of glycoconjugates, including polysaccharides, glycoproteins, and glycolipids, using MS and NMR. These tools are shared with the broader scientific community through collaborative efforts and training programs. The center's mission includes initiating new collaborations and providing comprehensive training to cultivate the next generation of glycoscientists.
Zoom Meeting Details
Date: Tuesday Feb 04, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/parastoo-azadi-57a06133/
January 28, 2025 - Zhiyong Lu

Cancelled: Biomedical Text Mining for Assisting Literature Retrieval and Curation
Zhiyong Lu, Ph.D.
Senior Investigator, National Library of Medicine,
NIH Professor of Computer Science (Adjunct), UIUC
In this talk, I will present our work on developing large-scale, machine-learning based tools for better accessing and analyzing scientific information in the biomedical literature. Moreover, I will demonstrate their uses in some real-world applications such as improving PubMed searches (Fiorini et al., Nature Biotechnology 2018), supporting literature data curation (Wei et al., Nucleic Acids Research, 2023; Allot et al., Nature Genetics 2023), and taming COVID-19 pandemic paper tsunami (Chen et al., Nature 2000).
Zoom Meeting Details
Date: Tuesday Jan 28, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/drzhiyonglu/
December 10, 2024 - John Cipollo

Mass Spectrometry Driven Glycoconjugate Analysis: Structure – Function Relationships in Vaccines and Infectious Disease
John Cipollo, Ph.D.
Food and Drug Administration Center for Biologics Evaluation and Research
Mass spectrometry can provide a power suite of analytical approaches to investigate glycoconjugate structure. Presented in this talk, it is demonstrated how informatics, structural examination, modeling and mass spectrometry have been used in the vaccine and infectious disease space. Important immune recognition events are discussed as revealed by structural analysis and follow-on biochemical analysis.
Zoom Meeting Details
Date: Tuesday Dec 10, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/john-cipollo-94485154/
November 19, 2024 - Elisa Fadda

Restoring Protein Glycosylation with GlycoShape
Elisa Fadda, Ph.D.
University of Southampton
The introduction of machine learning (ML) for protein structure prediction, awarded with the 2024 Nobel Prize in Chemistry, revolutionized structural biology, boosting our ability to source and resolve protein structures, and broadening the potential for therapeutic discovery. One limitation affecting all ML-derived structures is the lack post-translational modifications, which are key to the correct folding, structural stability, and function of the underlying protein. In this webinar I will introduce GlycoShape (https://glycoshape.org and https://doi.org/10.1038/s41592-024-02464-7), a unique OA online resource that allows users to rapidly and easily restore glycoproteins from ML, from the Protein Data Bank, or own, to their native state by adding the missing glycan 3D information in seconds.
Zoom Meeting Details
Date: Tuesday Nov 19, 10am ET
Meeting link: https://gwu-edu.zoom.us/j/91498498310
Meeting ID: 91498498310
Add to Calendar: Google | Outlook
Recorded Talk Video: TBA
Link: https://www.linkedin.com/in/elisa-fadda-a012b194/?originalSubdomain=ie
Slides: Elisa_Fadda_Slides
October 22, 2024 - Daniel Kolarich

Towards understanding the role of glycosylation in evolution and stem cell biology
Daniel Kolarich, Ph.D.
Griffith University Institute for Biomedicine and Glycomics
This webinar will cover two major themes of our current research: First, the use of glycomics to understand how glycosylation features have evolved in vertebrae will demonstrate the importance to capture glycosylation features to decipher the actual glycosylation events, and second, the role glycosylation of key stem cell cytokines plays for erythropoiesis. These examples will highlight the importance to integrated different -omics technologies for deciphering the diverse roles of functional glycan involvement.
Recorded Talk Video: YouTube
Link: LinkedIn
September 17, 2024 - Olga Gornik

N-glycosylation in diabetes
Olga Gornik, Ph.D.
University of Zagreb
The webinar will provide an overview of our research on N-glycosylation of plasma proteins in diabetes. It will present our findings on glycan structures as potential diagnostic markers for predicting, diagnosing, and monitoring various diabetes subtypes. Additionally, the lecture will also cover the genetic regulation of glycosylation, focusing on specific proteins like immunoglobulin G and complement component 3 .
Recorded Talk Video: YouTube
Link: LinkedIn
May 7, 2024 - Lara Mahal

Adding a little sugar: how incorporating glycomics into multi'omic analysis reveals new biological insights
Lara Mahal, Ph.D.
University of Alberta
Glycosylation is an often underappreciated aspect of biology and is rarely incorporated into multi'omic systems biology. Our laboratory pioneered lectin microarray technology and has been using this method to integrate glycomic data into large multi'omic datasets. Here, I will discuss some of our latest work showcasing the importance of including the glycome.
Recorded Talk Video: TBA
Link: https://apps.ualberta.ca/directory/person/lkmahal
April 9, 2024 - Kristian Axelsen

Glycobiology in the Rhea knowledgebase
Kristian Axelsen, Ph.D.
SIB-Rhea
Switzerland
Rhea is a FAIR resource of expert curated biochemical and transport reactions described using the ChEBI ontology of small molecules, and is the reference vocabulary for enzyme annotation in UniProtKB. In this talk I will give a general presentation of the Rhea database, and also explore the curation of glycan metabolism in Rhea and UniProt, and opportunities to improve interoperability with GlyGen and other glycobiology community standards.
Recorded Talk Video: TBA
Link: https://www.sib.swiss/people/Kristian.Axelsen
March 12, 2024 - Juan Antonio Vizcaino

The PRIDE database and ProteomeXchange: Making Proteomics data FAIR
Juan Antonio Vizcaino, Ph.D.
EMBL-EBI
UK
The ProteomeXchange consortium has standardized data submission and dissemination of public MS proteomics data worldwide. ProteomeXchange resources are committed to comply with the FAIR (Findable, Accessible, Interoperable, Re-usable) principles, support reproducible research and represent the state-of-the-art in proteomics with regards to open data practices.
Within ProteomeXchange, the PRIDE database at the European Bioinformatics Institute is the most used resource worldwide, accounting for ~80% of all submitted datasets. The perceived reliability of PRIDE and the rest of the ProteomeXchange resources has enabled an unprecedented increase in the amount of proteomics data in the public domain, which is now comparable to other omics fields such as transcriptomics.
One concrete example of data re-use is the PTMeXchange project. In PTMeXchange, we are reanalyzing public enriched datasets in PTMs (post-translational modifications such as phosphorylation). The main aim is to disseminate high-quality PTM data to UniProt, linking it to the original mass spectrometry evidence in PRIDE and/or other ProteomeXchange resources. The overall aim is to make PTM data FAIR. The same framework could be used for glycoproteomics data in the future.
Link: https://www.ebi.ac.uk/people/person/juan-vizcaino/
February 27, 2024 - Kiyoko Aoki-Kinoshita

Glycoinformatics: past, present and future
Kiyoko Aoki-Kinoshita, Ph.D.
Soka University, Tokyo
Japan
Over the last twenty years, the field of glycoinformatics has expanded enormously: starting with just a handful of databases, there are now a plethora of databases, Web tools, software packages and Web portals. We can expect that technologies will continue to develop; thus, it will be important to be able to find our way through these informatics resources. Recollections, current trends, and future thoughts on where glycoinformatics may lead us will be discussed.
Link: https://www.linkedin.com/in/kiyokof/
Slides: Slides in Prezi
January 30, 2024 - Clement Potel

Deep quantitative glycoproteomics reveals gut microbiome induced remodeling of the brain glycoproteome
Clement Potel, PhD
EMBL Heidelberg
Germany
Methods capable of quantifying glycosylation dynamics are essential to start unraveling the biological functions of protein glycosylation. Here we introduce an approach that combines high-throughput sample preparation, high-sensitivity detection, and precise multiplexed quantification of protein glycosylation. We applied our methodology to characterize surface-exposed glycoforms, identify glycosites driving tissue-specificity and were able to demonstrate that the presence of a defined gut microbiota resulted in extensive remodeling of the brain glycoproteome when compared to that of germ-free animals.
Link: https://www.embl.org/groups/savitski/
December 12, 2023 - Daniel Bojar

From Complexity to Clarity: Algorithmic Exploration of Glycans
Daniel Bojar, PhD
University of Gothenburg
Sweden
Navigating the intricate world of glycans requires innovative approaches to untangle their complexity and reveal their functional roles. By merging advanced computational techniques with cutting-edge glycoscience research, we have developed a set of innovative tools that provide deeper insights into glycan properties and functions, shedding light on their roles in health and disease. As will be presented in the talk, we combined these approaches in our hub program, glycowork, including glycan sequence analysis, glycomics data analysis, biosynthetic analyses, and many more.
Link: https://www.linkedin.com/in/daniel-bojar-418647b2/
November 28, 2023 - Nadine Samara

Evolution of the diverse substrate specificities of mucin-type O-glycosyltransferases (GalNAc-Ts) from pathogen to host
Nadine Samara, PhD
National Institute of Dental and Craniofacial Research (NIDCR)
National Institutes of Health (NIH)
N-acetylgalactosaminyl transferases (GalNAc-Ts) are conserved from protozoa to mammals and catalyze the transfer of N-acetylgalactosamine (GalNAc) to Ser or Thr on protein substrates to initiate mucin-type O-glycosylation, an abundant and complex post-translational modification that regulates protein stability, structure, and function. Mucin-type O-glycosylation influences the rigidity of a cyst wall that encapsulates the infectious and currently untreatable bradyzoites of the protozoan pathogen Toxoplasma gondii (T. gondii). Our studies highlight GalNAc-T evolution in substrate recognition and enzyme function from protozoan pathogen to mammalian host and lay a framework for specifically inhibiting T. gondii-GalNAc-Ts in toxoplasmosis.
October 31, 2023 - Stacia R. Engel

The Awesome Power of SGD
Stacia R. Engel, PhD
Department of Medicine
Stanford University
The Saccharomyces Genome Database (SGD, https://www.yeastgenome.org) is the community resource for the most widely used scientific model organism, the budding yeast Saccharomyces cerevisiae. The SGD project provides encyclopedic information about the yeast genome and its genes, proteins, and other encoded features, including the reference genome sequence and official S. cerevisiae genetic nomenclature, all gathered and maintained through high-quality manual curation of experimental results as reported in peer-reviewed scientific literature. This complex collection of information is integrated with a variety of bioinformatic tools, a powerful query engine, a vast data warehouse, and a rich genome browser, then presented to users via a series of locus summary pages, in order to facilitate experimental design and analysis, allowing productive discovery of new biological details.
Link: https://www.linkedin.com/in/staciaengel/
September 26, 2023 - Marissa Maciej-Hulme

Pushing new frontiers in GAGomics
Marissa Maciej-Hulme, PhD
Department of Pharmacy
Oslo Metropolitan University Centre
Oslo, Norway
Glycosaminoglycans (GAGs) are long linear mammalian polysaccharides synthesized on select protein cores that play a plethora of roles in development, homeostasis, and disease. GAGomics seeks to profile GAGs using mass spectrometry and bioinformatics for the identification of significant structures as diagnostics and treatment targets. Dr. Marissa Maciej-Hulme will explore the current status of GAGomics as well as future directions of the field.
Recorded Talk Video: YouTube
Link: LinkedIn
August 22, 2023 - Manfred Wuhrer

Mass spectrometry glycomics of tissues and biofluids
Manfred Wuhrer, PhD
Center for Proteomics and Metabolomics
Leiden University Medical Centre
Leiden, Netherlands
Glycans play key roles in the etiology of many diseases. They shape cell-cell interactions and are entry points for pathogens. Mass spectrometry is emerging as the key technology assessing glycans in human specimens such as blood, saliva and biopsies. My laboratory develops mass spectrometry workflows which we apply for assessing the glycomic dimension of human diseases, with the aim of obtaining therapeutic and diagnostic leads for improving health.
Recorded Talk Video: YouTube
Link: Manfred Wuhrer (University Leiden)
April 18, 2023 - Harry Brumer

CAZypedia – A Living Encyclopedia of Carbohydrate-Active Enzymes
Harry Brumer, PhD
Department of Chemistry
The University of British Columbia
Vancouver, BC, Canada
CAZypedia was initiated in 2007 to create a comprehensive, living encyclopedia of the carbohydrate-active enzymes (CAZymes) and associated carbohydrate-binding modules. CAZypedia is closely connected with the actively curated CAZy database, which provides a sequence-based foundation for the biochemical, mechanistic, and structural characterization of these diverse proteins. Now comprising over 200 individual Curator Approved family pages, , CAZypedia is a successful example of dynamic, community-driven, and expert-based biocuration.
Link: CAZypedia
March 28, 2023 - Rebekah L. Gundry

Expanding our View of the Cardiac Surfaceome: New Bioinformatic Tools and Technologies for Mapping Glycoproteins and Glycans from Small Sample Sizes
Rebekah L. Gundry, PhD
Department of Cellular & Integrative Physiology, College of Medicine
University of Nebraska Medical Center
Omaha, NE, USA
Cell surface glycoproteins and glycans play critical roles in a range of biological functions and disease processes. However, the lack of facile methods for sample preparation and data analysis has historically posed major challenges to their characterization. This presentation will describe the new CellSurfer and glyPAQ platforms for robust and rapid mass spectrometry-based analysis of cell surface glycoproteins and glycans and their applications to the human heart.
Link: Lab webpage
February 07, 2023 - Christopher M. West

A brief excursion through the glycobiology of unicellular eukaryotes
Christopher M. West, PhD
Complex Carbohydrate Research Center
University of Georgia
Athens, GA, USA
Unicellular eukaryotes have evolved diverse adaptations to many earthly environments, including as pathogens of human and plant hosts. Their glycosylation is often similarly varied, and the extant record reflects a combination of evolutionary history and contributions to fitness that are only beginning to be explored in detail. I will introduce select aspects of the glycomics, glycogenomics and glycobiology of the soil-borne amoebozoan Dictyostelium discoideum, the apicomplexan human pathogen Toxoplasma gondii, and the agent for Chagas disease Trypanosoma cruzi.
Recording of the Talk: YouTube
Link: Lab webpage
December 06, 2022 - Lingjun Li

Advancing Glycomics and Glycoproteomics via MultiplexedChemical Tagging Technology
Lingjun Li, PhD
School of Pharmacy and Department of Chemistry
University of Wisconsin-Madison
Madison, WI, USA
Glycosylation is one of the most important and most complex protein post-translational modifications. Alterations in glycomic profiles have been linked to various diseases, including cancer, neurodegenerative disorders, and cardiovascular problems. Thus, new methods are needed for quantitative analysis of glycans to facilitate the elucidation of their diverse functional roles in human diseases.Advances in mass spectrometry (MS)-based glycoproteomics and glycomics are increasingly enabling qualitative and quantitative approaches for site-specific structural analysis of protein glycosylation. In this presentation, Iwill describe our recent efforts in developing both MS1 and MS2-based relative quantification strategies for glycomic and glycoproteomicanalysis ofbiological samples. Several cost-effective and novel isobariclabeling reagents will be highlighted for their utility in quantitativeglycanand glycopeptideanalyses ofhuman serum and cerebrospinal fluid samples.
Recording of the Talk: YouTube
Link: Lab webpage