🔥The 9th Round of Easy Loan, Earn $40 Reward is in progress❗️ ⏰ Promotion Period: January 15th - Feburary 15th, 2025 👉 Register now and check more details at gate.io/campaigns/358

For those that need statistics about public proteomics data, here are some cool endpoints in PRIDE: - Data Volume: ebi.ac.uk/pride/ws/archi… - Monthly submissions: ebi.ac.uk/pride/ws/archi… - Submissions per Country: ebi.ac.uk/pride/ws/archi…

Release day at PRIDE at EBI. We released the possibility to visualize & retrieve spectra using USIs for private submissions. ebi.ac.uk/pride/archive/…. You can now put in the supplementary information USIs to your novel claims: peptides, PTMs, SAAVs & the reviewer can check them.

We are currently working with multiple databases that systematically reanalyze data from PRIDE to link their peptide evidence to PRIDE Spectrum Viewer.

Attending #ISMB2023 in Lyon. My first ISMB meeting in many years. Will be giving a talk about ProteomeXchange and PRIDE at EBI in a couple of hours!

Paper out: Tissue-based absolute quantification using large-scale TMT and LFQ experiments …iencejournals.onlinelibrary.wiley.com/doi/10.1002/pm…. Thanks, @OpenMS and #quantms teams.

The PRIDE at EBI submission system will experience disruptions from August 16th to 18th due to scheduled system maintenance. While validations and submissions may be delayed, data deposition will remain unaffected.

Due to summer holidays and a long weekend here in the UK, our support related responses are slow at the moment. Apologies for this. Please be patient. Situation should get better from next Tuesday August 29th.

Last Thursday we processed ProteomeXchange dataset #PXD045000. #proteomics #opendata. Thanks to all submitters! PXD000001- March 2012 PXD010000- Jun 2018 PXD020000- Jun 20 PXD025000- Mar 21 PXD030000- Nov 21 PXD040000- Feb 2023 PXD045000 - Aug 31st 2023 In 2024 #PXD050000

Just had a great time presenting at #HUPO2023 about #lesSDRF! If you want to use it, add to it or have some feedback ➡️ lessdrf.streamlit.app CompOmics Human Proteome PRIDE at EBI

Many congratulations Henning!

This is a great job opportunity to join our team!

During January, we worked on a new submission mechanism for PRIDE at EBI using the Globus protocol (ebi.ac.uk/pride/markdown…). In summary:

Deepti Jaiswal, the lead curator of PRIDE at EBI, has created a short video tutorial on how to transfer data to PRIDE using Globus. youtube.com/watch?v=VRNums…

We have just processed ProteomeXchange dataset #PXD050000. #proteomics #opendata. Thanks to all submitters! PXD000001- March 2012 PXD010000- Jun 2018 PXD020000- Jun 20 PXD025000- Mar 21 PXD030000- Nov 21 PXD040000- Feb 2023 PXD050000- Feb 2024! Congrats to the team!

I started today to curate some of the datasets the proteomics community has curated over the last 3 years in SDRF. More than 200 experiments are now annotated. No bad, Hope more people contribute in the future. github.com/bigbio/proteom…

You can read about the project here: github.com/PRIDE-Archive/… Feel free to add issues and give us feedback. We are focused on making PRIDE at EBI FAIR and accessible to everyone. Thanks to Sebastian, Jonas, and Enrique for helping us with the benchmark.

#HUPO2024 is here. This week, we are releasing the v3 of PRIDE at EBI API ebi.ac.uk/pride/ws/archi… . Apart from major upgrades of the existing endpoints, the killing feature is streaming. #reactiveprogramming #proteomics #opendata 🧵

You can use now pridepy to download this data: - pridepy stream-projects-metadata -o all_pride_projects.json - pridepy stream-files-metadata -o all_pride_files.json Here is pridepy which also allows you to download files etc. github.com/PRIDE-Archive/…

Multiple members of the team will be next week at #HUPO2024, that is the moment to ask about future features and bugs, and let us know in person what you think about PRIDE and how we can improve the infrastructure.

PRIDE at EBI team is working on a new API endpoint version v3 with multiple functionalities for streaming metadata. v2 of the API will be retired in January 2025. ebi.ac.uk/pride/ws/archi…