@pride_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…
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PRIDE at EBI
1.6K posts
PRIDE at EBI
@pride_ebi
The PRIDE PRoteomics IDEntifications database is a centralized, standards compliant, public data repository for proteomics data at EMBL-EBI @emblebi
Hinxton, Cambridge Katılım Nisan 2010
138 Takip Edilen1.5K Takipçiler
PRIDE at EBI retweetledi
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.
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PRIDE at EBI retweetledi
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/…
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PRIDE at EBI retweetledi
#HUPO2024 is here. This week, we are releasing the v3 of @pride_ebi API ebi.ac.uk/pride/ws/archi… . Apart from major upgrades of the existing endpoints, the killing feature is streaming. #reactiveprogramming #proteomics #opendata 🧵
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PRIDE at EBI retweetledi
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_ebi FAIR and accessible to everyone. Thanks to Sebastian, Jonas, and Enrique for helping us with the benchmark.
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PRIDE at EBI retweetledi
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…
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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!
Filipino
PRIDE at EBI retweetledi
During January, we worked on a new submission mechanism for @pride_ebi using the @globus protocol (ebi.ac.uk/pride/markdown…). In summary:
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PRIDE at EBI retweetledi
@DeeptiJaiswal, the lead curator of @pride_ebi, has created a short video tutorial on how to transfer data to PRIDE using Globus. youtube.com/watch?v=VRNums…
YouTube
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This is a great job opportunity to join our team!
EMBL-EBI Jobs@EMBLEBIjobs
NEW: Scientific Curator Our goal is to help researchers to make the most of public #proteomics data! Join us, & you'll play a crucial role supporting @pride_ebi users through our helpdesk #bioinformatics #lifesciencejobs @emblebi Closing 1st Feb 2024 embl.org/jobs/position/…
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PRIDE at EBI retweetledi
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 @hupo_org @pride_ebi
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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
Filipino
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.
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PRIDE at EBI retweetledi
The @pride_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.
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PRIDE at EBI retweetledi
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.
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PRIDE at EBI retweetledi
Attending #ISMB2023 in Lyon. My first ISMB meeting in many years. Will be giving a talk about @proteomeXchange and @pride_ebi in a couple of hours!
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PRIDE at EBI retweetledi
We are currently working with multiple databases that systematically reanalyze data from PRIDE to link their peptide evidence to PRIDE Spectrum Viewer.
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PRIDE at EBI retweetledi
Release day at @pride_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.
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