Live on December 15th 2022

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 15th December 2022.

It includes the following changes:

🌟 New Features

• New track in the protein viewer. The AlphaFold confidence track is now included on the protein page and in the AlphaFold subpage. #421 #436
• Panther subfamilies now include GO terms associated with them. If a protein has a panther match, the GO terms of the matching subfamily are included in the protein page. #423
• Batch actions for iproscan jobs that were run together: Delete All, Re-run All, Download All #427
• Displaying the short name in the domain architecture results #417
• Updating the main citation. Also displaying it by default #433

🛠 Fixes

• Download of Pfam models includes the .gz extension #418
• Unintegrated Pfam were not rendered in the protein viewer when a Pfam-n entry was also matching the protein #426
• Links to sequence positions from pdb FIX: #435
• Layout issue in the overlay component covering the set viewer #432
• Minor style fixes

🏡 Housekeeping

• Dependencies update

Full Changelog: v1.15.0...v1.16.0

Live on 13th October 2022.

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 13th October 2022.

It includes the following changes:

🌟 New Features

• Panther subfamilies are now grouped on the page of their associated family. The popup for panther matches now includes info on the particular subfamily matching. #407
• CATH Funfams are now included if available in the protein viewer in the other features panel. #407
• The Download area now includes 2 more tabs: Prints and SFLD. #411
• Due to the decommissioning of the Pfam website we are removing all links to it. #410
• The sequence search now supports multiple sequences and groups them as a single job in the results. #406
• The style layout of the protein viewer was updated to use CSS grids. This makes better use of the space on the page and fixed a few issues with the space for labels #409
• The available AlphaFold models with an entry match are now listed on the entry page of all member DBs and not only InterPro. #414
• Including the protein viewer in the AlphaFold subpage of proteins so the user can see the position of the matches in the model. #403
• The <select> element listing available alignments now includes the number of sequences in it. #404
• Displaying PFam-N matches in the Other Features track.
• IDA search results are now scaled in reference to the result with the longest sequence on the page.
• Short name is now included in the list of entries of a clan

🛠 Fixes

• The protein viewer in the InterProScan results was not using the short name.
• Print and snapshot options in the protein viewer had some layout issues.

🏡 Housekeeping

• Small refactor on the AlphaFold components
• Small refactor ClanViewer component

Full Changelog: v1.14.0...v1.15.0

v1.14.0

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 5th August 2022.

It includes the following changes:

🌟 New Features

• Exact search by gene identifier. If using a gene id such as CYTB the results now include the proteins for our key species that have a protein expressing that gene. #395
• The download jobs are now stored in the browser(IndexedDB), instead of just kept in memory #396
• If an InterProScan result was run using a previous version, a new action to restart the job now appears, so it can be re-run with the same sequence and databases as before #397
• The list of entries in a Pfam set now has links to their domain architecture and alignment pages.
• Reorganisation of the Download page as tabs to include an area for Pfam downloads.

🛠 Fixes

• InterProScan results were modified to represent correctly matches with multiple locations #390
• The generated scripts in the Download form were fixed to avoid duplication of fasta sequences. #391
• Links for the download forms were not being escaped.
• The signature logo and the taxonomy widget had some styling issues, now corrected #392
• Bugfix for the release notes links #394

📃Documentation

• Updated documentation in https://interpro-documentation.readthedocs.io/en/latest/
• Adding a documentation page for the settings https://interpro-documentation.readthedocs.io/en/latest/settings.html

🏡 Housekeeping

• Dependencies update

Full Changelog: v1.13.0...v1.14.0

Live Version - 27th May 2022

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 27th May 2022.

It includes the following changes:

🌟 New Features

• External links in structure #378
• Side menu for entity pages, instead of the multiline tabs #380
• Linking PIRSR residues to their corresponding PIRSF family #381
• Labels in feature viewer can use now the short name of an entry if available. #385
• Labels in clan viewer can use now the short name of an entry if available. #388
• The selector of the content of the label is now saved in the settings, so it will be persistent in the browser.
• New styling on the settings page

🛠 Fixes

• Tooltips in residues #372
• RoseTTAFold page not displaying the seed alignment #376
• Minor Style issues that resulted from the previous release optimisations #379
• Issue in mobiles where the dropdowns of the main menu were not visible. #382

🏡 Housekeeping

• Dependencies update

Full Changelog: v1.21.0...v1.13.0

Live Version - 10th March 2022

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 10th March 2022.

It includes the following changes:

🌟 New Features

• New sunburst widget for the Taxonomy pages #370
• The taxonomy subpage has been reorganised:
  • Key Species table is now moved as a table view
  • The setting to the default view was removed.
  • Sunburst is the default view of the subpage.
• Updates in the IDA visualization to include the coordinates of a representative protein #369. This is used in:
  • Domain architectures of an entry
  • Results of an IDA search
  • Similar Proteins sub page
• Compression of big payloads for the cache #367

🛠 Fixes

• Fix message indicating the entry hits several proteins with AF models

🏡 House keeping

• Dependencies update
• Removing unused dependencies
• Flow typed update

Full Changelog: v1.11.0...v1.12.0

InterPro software for InterPro data release 87.0

Notable changes in this release:

• Updated Molstar to 2.x version
• Added RoseTTAFold models to entry pages
• Structure model matches now shown on the protein page
• Added ability to browse proteins with/without InterPro matches

Live version - 17th June 2021

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 7th June 2021.

It includes the following changes:

🌟 New Features

• Mol* is used for 3D structure visualisation replacing NGL viewer.
• New colouring scheme for structural model is implemented. The 3D structure is coloured by per-residue pLDDT score with a rainbow gradient going from blue (high quality) to red (low quality).
• #339 Heatmap visualisation is shown for contacts by taking distance metric in Structural model page.
• #340 New section called 'Residues' is added to Protein viewer. It groups all the residue information including PIRSR residues which was previously shown under the section 'Other features'.
• #335 Filter by reviewed proteins is added to similar proteins subpage. It helps users to filter when there is a long list of proteins.

🛠 Fixes

• #341 Split full screen mode in structure page is fixed.
• #329 The Proteins tab displays the "Reviewed" option under filters always even if an entry does not match any reviewed protein for better understanding.
• #323 Entry type filters in Browse By InterPro are reordered.
• #320 Fixed showing content in Help/Training by adding required elements.
• #318 Download links updated.
• #337 TIGERFAMs links updated to NCBI instead of JCVI.

🏡 House keeping

• Dependencies update

Live version - 13th April 2021

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 12th April 2021.

It includes the following changes:

🌟 New Features

• The conservation track in the protein pages are using PANTHER entries instead Pfam to ensure better coverage of the protein. Also the track which was shown as a heat map is replaced with a line graph.
• Scientific name search is allowed in the taxonomy tree view.

🛠 Fixes

• The duplication of the protein viewer's navigation track when printed is fixed.
• With the recent change in the autocomplete library used in the text search, 'paste on right click' was not efficient. It has been fixed to allow users to paste when the mouse click is made within the search box.
• #322: Footer overlap with Browse filters selection is fixed.
• #330: The issue about 3D viewer highlighting for some entries in structure page is fixed.
• #331: The protein links in the entry description are fixed.

🏡 House keeping

• JavaScript tagging framework gtag.js is used to send data to Google Analytics.
• The lightweight notifications that appear on first loading and as help tips on few pages are stacked on top of each other thus not taking too much space in the viewport.
• Following a user experience feedback, Member database description links are added near the name in the browse page and protein accession links are enhanced to look obvious with the addition of Protein icons.

Live version - 3rd March 2021

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 3rd March 2021.

It includes the following changes:

🌟 New Features

• Structural model subpage has been added for Pfam entries. More information can be found here - https://interpro-documentation.readthedocs.io/en/dev/browse.html#structure-model

🛠 Fixes

• FTP links for InterProScan are fixed.
• Broken link of DOI article is fixed.

🏡 House keeping

• Dependencies update.

Live version - 11th February 2021

This is the code set in the live site https://www.ebi.ac.uk/interpro/ on 11th February 2021.

It includes the following changes:

🌟 New Features

• The browse page has been redesigned following UX feedback thus moving all the filters to the left. The main endpoint tabs are moved to a dropdown list and breadcrumbs are added as part of that.
• Browsing entries by InterPro and Member Databases are separated for better understanding.
• Improved text search in the taxonomy table: searching by scientific name (e.g. Homo sapiens) now yields the corresponding species first. In the taxonomy tree, searching by scientific name now returns the corresponding node as the first result.
• Text searches are stored locally and options to remove them are available in 'Recent search' in the home page.
• Genome3D list can be filtered and sorted by UniProt accession, resource and confidence score.

🛠 Fixes

• #293 InterProScan search is enabled in the Protein overview page.
• The InterProScan search results are available to import as JSON if stored locally or uploaded into site. If the job is run within last 7 days, it is available to be downloaded in all formats.
• Improvements on resolution filter on Browse By Structure.
• FTP links are updated to https as major browsers are no longer providing FTP support.

🏡 House keeping

• EBI Visual framework is updated to 1.4.
• React-autocomplete has been replaced with react-select.
• Intergrated Database filter in the InterPro entry page is removed.
• MemberDBselector filter for browse by proteome is removed.
• Dependencies update.