Proteomics Data on Polly

Harmonize in-house proteomics data and find relevant datasets from PRIDE and CPTAC, fit for downstream analysis and insight generation.


How Does Proteomics Data on Polly Become ML-ready?

Why Harmonize Proteomics Data on Polly?

Make In-house and Public Proteomics Data ML-ready in a Fraction of the Time

Augment in-house proteomics datasets with ML-ready datasets from public sources like PRIDE, CPTAC, etc. through Polly’s data concierge services.

Our experts swiftly locate the datasets you need by querying through Polly’s metadata-annotated proteomics collection – all within minutes.

Let us handle the heavy lifting - we ensure every relevant study discovered includes vital information for your analysis, from data matrices to associated metadata and protein intensity tables.

Unify and Manage Data From In-house Assays

Automate data ingestion from your workflows (ELN, S3 bucket, CROs, and more) into Polly with our data importers.

Focus on discovery, not data wrangling! Polly automatically harmonizes your in-house datasets ensuring they adhere to your custom schema.

Integrate multi-modal datasets into one central Atlas to unveil hidden patterns, and expedite research breakthroughs.

Store, manage and analyze TBs of in-house and public proteomics data on Polly's secure compute infrastructure.

Configure Curation to Fit Your Analysis Needs

Eliminate the need to annotate individual datasets from in-house experiments or public databases.

Ensure precise annotation with 30+ ontology-backed metadata fields at dataset, sample and feature level using Polly’s harmonization engine.

Customize metadata fields and cohorts, data schema, or ontologies to best fit your specific analysis needs.

Use Data You Can Trust

Our experts implement comprehensive QA checks to validate metadata and remove technical artifacts & variations in every dataset.

The metadata annotated or data engineering methods used on Polly are not a black box. Learn how each proteomics dataset was harmonized by downloading a detailed QA/QC report from your Atlas on Polly.

Polly Verified - Our Quality Guarantee

We use a comprehensive list of QA/QC checks to ensure every dataset is:


Logical checks ensure that all dataset and sample-level metadata annotations contain non-NULL and non-blank values.


Rigorous QA and QC checks to validate whether metadata attributes are in agreement with publication and are human-readable.


Curated fields like disease, tissue, cell type, cell line, and organism follow their corresponding set of ontologies to preserve consistency in annotations.


Poor-quality samples are filtered out ensuring subsequent analyses rely on robust and meaningful findings.

Case studies

24x Faster Proteomics Research with PRIDE on Polly, $500K Savings

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