Portal release notes

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The GlyGen portal was first released on September 14th, 2018. A new update has been released every three to fifth months.

Version 2.4

This version was released on April 1st, 2024.

  • Implemented new Organism display on Glycan, Publication details page.
  • Added support for Pig on Glycan, Protein, Quick search and details pages.
  • Added support for isoforms on blast search and blast result page.
  • Bug fixing.

Version 2.3

This version was released on January 22nd, 2024.

  • Implemented Glycan Highlighting Widget for Glycan details page.
  • Implemented motif highlighting on Motif details page.
  • Implemented outreach page.
  • ProtVista page improvements.
  • Added support for scheduling GlyGen demo from home page.
  • New datasets for Slime Mold (Dictyostelium discoideum) added (GLY_000823, ...)
  • Categories for Protein and Glycan Xrefs created
  • Bug fixing.

Version 2.2

This version was released on October 2nd, 2023.

  • Implemented server side pagination for tables in protein, glycan and publication details pages.
  • Added biomarker data to the GlyGen portal.
  • Added yeast data to GlyGen portal.
  • Added Mastodon widget in the News section of GlyGen portal.
  • Updated grant information and added CFDE and GSA links on GlyGen portal.
  • Bug fixing.

Version 2.1

This version was released on July 3rd, 2023.

  • Download icon for tabular data section (all pages).
  • Send filter as part of download request on list pages.
  • Download API changes on list and details pages.
  • Change Opacity, Size of carbohydrates in 3d glycan structures.
  • "Please wait" icon for all downloads.
  • Integrate Nathans Sandbox links into frontend.
  • Update Raja's Photo in About page.
  • 3D structures not visible on beta.
  • New interface and search functionality on data.glygen.org
  • Bug fixing.

Version 2.0

This version was released on April 12th, 2023.

  • Migration to recent React Framework.
  • 3D structure viewer for Glycans.
  • N-Glycan Gnome Browser integration.
  • Update About us page.
  • Update menu structure.
  • BLAST Improvements.
  • BLAST and GSD on Homepage.
  • Accession history error messages.
  • Bug fixing.

Version 1.12

This version was released on April 28th, 2022.

  • Implemented BLAST.
  • Implemented structure search.
  • Implemented substructure search.
  • Added GlycoGlyph tool support in structure and substructure search.
  • Added evidence badges to the publication detail page.
  • Added digital sequence, cross reference and history to the motif detail page.
  • Added new papers to the how to cite page.
  • Bug fixing.

Version 1.11

This version was released on December 24th, 2021.

  • Redesign of the site view page.
  • Number of proteins on the motif list page.
  • Searching by glycosylation subtypes.
  • Additional columns in the site list page.
  • Filter options for the site list page.
  • Improved hit score for glycan list, protein list, and site list pages.
  • Feature of the month video on the home page.
  • Improved help text (tooltips) for details pages.
  • Score column added to expression tissue table.
  • Subsumption table changes on the glycan detail page.
  • Added link to glycan structure dictionary from motif detail page.
  • New Glycan Biosynthetic Pathways knowledge base in the Resources page.
  • Bug fixes.

Version 1.10

This version was released on October 16th, 2021.

  • Support of composition strings in simple and global search.
  • Batch search feedback.
  • Glycan List export into Byonic format.
  • Sorting option for publications.
  • Dropdown for Glycan ID namespace in search.
  • Search result explanation function (Hit score tooltip).
  • Glycosylation abundance data.
  • URL passed searches.
  • Glycan category on global search result for proteins.
  • Add tolerance to the site search.
  • Byonic sequence moved to General section.
  • New Glycowork library tool in the Resources page.
  • Updated former team members.
  • Bug fixes.

Version 1.9

This version was released on July 12th, 2021.

  • Direct search from protein, glycan details page.
  • Protein sequence highlighter from alignment page.
  • Text search in protein sequence from protein details and alignment page.
  • Filter on protein and glycan list page.
  • Paper Specific Detail page.
  • Phosphorylation Data in Protein detail, Sequence section, and Protvista.
  • Glycation data in Protein detail, Sequence section, and Protvista.
  • Subsumption information on Glycan details page.
  • Added notes to Glycosylation, Mutagenesis, Phosphorylation, and Glycation.
  • Added new database "GPTWiki" resource and fixed links on the Resources page.
  • New presentations on the Media page.
  • Bug fixing.

Version 1.8

This version was released April 1st, 2021.

  • GlyGen Mapper (ID mapping).
  • Event alert.
  • New resource and license.
  • Added new tools to the header.
  • About us and team members' updates.
  • New posters in media/portfolio.
  • Animated GlyGen logo.
  • Supersearch.
  • Cell line and tissue data.
  • Tracking of IDs (merged, renamed, deleted).
  • Scoring of search results.
  • Pro integration.
  • Site-specific search page.
  • Sand Box tool.
  • Composition search templates.
  • SNFG symbols next to the monosaccharide name in composition search tooltip.
  • The back button on the glycan, protein, and motif details page.
  • Sand Box tool button from the glycan details page.
  • Bug fixing.

Version 1.7

This version was released October 30th, 2020.

  • PTM annotations table in protein details.
  • List of synthesized Glycans to Enzymes (Proteins) table.
  • List of motifs page.
  • Gene and protein names.
  • Subsumption option for species search on Glycan advanced search page.
  • Subsumption option for glycan ID search on Glycan advanced search page.
  • Binding Protein search on Glycan advanced search page.
  • Glycan Binding Protein section on Glycan details page.
  • Covalently Attached Glycan search on Protein advanced search page.
  • Bound Glycan search on Protein advanced search page.
  • Disease Name search on Protein advanced search page.
  • Disease ID search on Protein advanced search page.
  • Pubmed ID typeahead support.
  • Disease section on the protein details page.
  • Glycan Ligands section on the protein details page.
  • Mutagenesis table in protein details.
  • Glycosylation table with four different categories in protein details.
  • Single Nucleotide Variation table with two different categories in protein details.
  • Protvista button on multiple tabs of protein details.
  • Protvista page with Mutagenesis, Single Nucleotide Variation information.
  • Site view page with Mutagenesis, Single Nucleotide Variation information. Also, a new API connected.
  • Update to the New Motif list. Replacing GlyTouCan Motif accessions with GlyGen motif list with GlyTouCan Motifs as X-ref's.
  • Addition of Motif synonyms.
  • Including glycosylation annotation (Protein+PMID+Glycan) on unreported sites from GlyConnect.
  • Refined/corrected BioSynthetic enzyme data.
  • Addition of new Glycan subtypes (o-fucose, o-mannose).
  • Updated glycan images from GlyTouCan.
  • New data: Protein+GAGs data from MatrixDB.
  • Addition of GlyGen x-ref on GlyConnect protein entry pages.
  • Addition of GlyGen x-ref on PubChem compound and PubChem protein pages.
  • Addition of new glycans into ChEBI.
  • Addition of Mutagenesis data from UniProt
  • Addition of PMIDs for SNV data
  • GlyGen dataset BCO prefix changed from DSBCO to GLY

Version 1.6

This version was released August 14th, 2020.

  • React Migration.
  • Text and style updates.
  • Four new search cards on the homepage.
  • New presentation on the Media page.
  • Our papers on the How to Cite page.
  • Updated frameworks.
  • Informational pages are grouped.
  • GlyGen members updates.
  • Updated metadata.
  • New license resources.

Version 1.5

This version was released January 14th, 2020.

  • Isoform Alignment.
  • Homolog Alignment.
  • New Usecase added in the quick search.
  • Composition Search.
  • Go ID search.
  • PMID search.
  • Batch search on advanced protein and glycan search page.
  • Multi-select option for amino acids on advanced glycoprotein search.
  • Multi-select option for organisms on advanced glycan search.
  • Integrate subsumption browser.

Version 1.4

This version was released September 23rd, 2019.

  • New "Media" page displays GlyGen presentations, talks, brochures, posters, logos, and templates.
  • New "Frameworks" page acknowledgment of libraries and frameworks that used to develop GlyGen.
  • New "How to cite" page displays GlyGen publications and citations.
  • Sequon data on sequence view.
  • Site-Specific page.
  • Protvista sequence viewer.
  • Search by GO term.
  • Add search for pMe structures.
  • Cascaded type ahead.
  • Compressed file download support.

Version 1.3

This version was released June 10th, 2019.

  • Added breadcrumbs on list & detail pages.
  • Display of error generated by ajax failure method even if javascript code breaks.
  • Global search page is more intuitive now.
  • Improved new sequence display with more data and badge.
  • Orthologous info on protein detail pages.
  • Feedback widget on each dynamic page with contact API.
  • Gene location publication and RefSeq summary to protein detail.
  • Breadcrumbs lead to a proper search page (eg. Global search page when you come to a List page from there).
  • Replaced "No results found" pop-up alert messages with inline alert messages in search pages and quick search.
  • Added help tooltip next to each label in search pages.
  • Added progress bar to the feedback page.
  • Added map image for mobile view in the about us page.
  • New team members on the About us page.
  • Multiple bug fixes and text changes.

Version 1.2

This version was released March 29th, 2019.

  • Changed the 'Found Glycoproteins' section to a table on the glycan detail page.
  • The map on the about us page is highlighted four countries with a hover tooltip that involved in GlyGen's project.
  • A new team member added to the about us page.
  • Added helpful links to find my accession numbers or IDs with hover tooltips under every input field in every search page.
  • Added a motif detail page which can be accessed by clicking on one of the motif's links in the glycan detail page.
  • Implementation of global search functionality.
  • Added links on the disclaimer, privacy_policy pages to GitHub explaining how we tracking user activity.
  • Updated Evidence display by adding color badge with the data number.
  • A new "GlyGen Funding" section on the about us page.
  • The blue border around the selected question in the quick search page indicates that the user came from the home page.

Version 1.1

This version was released December 7th, 2018.

  • Added summary table for quick search results.
  • Added protein sequence highlight tool on protein detail pages.
  • Created simple search, advanced search, and tutorials for glycan, protein, and glycoprotein searches.
  • Added download button with an option in various formats on List and Detail pages.
  • Dynamic display of statistics and version info on the homepage.
  • Created clickable text examples for search pages.
  • Improved error handling.
  • Added link to the Beta server to the header.
  • Several text updates, bug fixes, and improvements.

Version 1.0

This version was released September 14th, 2018.

  • The initial release of the GlyGen portal.
  • GlyGen Portal available with three Protein and Glycan and Glycoprotein advanced search pages.
  • Result of searches is available in Protein and Glycan and Glycoprotein list pages.
  • Each list page provides details of Protein and Glycan available with one click on accession.