Proteomics Data Standards & FAIR Repositories — Hands-on

Understand how proteomics data is structured, annotated and shared in community repositories. This module focuses on core open formats, metadata and minimal reporting ideas, PRIDE style submission concepts and FAIR data management planning so that your proteomics projects are easier to reuse, review and publish.

Proteomics Data Standards & FAIR Repositories

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Session Index

Session 1 — Proteomics Data Formats & Reporting Basics Session 2 — Metadata, Annotation & Minimal Requirements Session 3 — Repositories, FAIR Principles & Access Session 4 — Mini Capstone: Data Management & Deposition Plan

Session 1

Fee: Rs 8800

Proteomics Data Formats & Reporting Basics

From vendor raw files to open proteomics formats (concepts)

instrument vendor raw idea mzML and mzXML overview why open formats help reuse

Identification and quantitation formats at high level

mzIdentML and pepXML concepts mzTab and tabular output ideas linking spectra to peptide and protein level

Basic reporting elements for proteomics experiments (idea level)

instrument and method description search engine and database details FDR and quality summary concepts

Session 2

Fee: Rs 11800

Metadata, Annotation & Minimal Requirements

Sample, run and study level metadata concepts

sample identifiers and groups instrument run level information linking metadata to data files idea

Controlled vocabularies and annotation standards (concepts)

ontology and term usage idea consistent naming of experiments advantages for search and reuse

Minimal reporting and MIAPE style guidelines at high level

what information journals expect essential vs nice to have fields checklist thinking for experiment description

Session 3

Fee: Rs 14800

Repositories, FAIR Principles & Access

Conceptual overview of proteomics repositories

PRIDE and ProteomeXchange ideas MassIVE and other resources accession and dataset concept

FAIR data principles applied to proteomics (high level)

Findable and Accessible ideas Interoperable and Reusable thinking persistent identifiers and licences

Submission life cycle, embargo and reuse concepts

private, review and public states embargo and reviewer access idea how others can find and cite datasets

Session 4

Fee: Rs 18800

Mini Capstone: Data Management & Deposition Plan

Conceptual data management plan for a proteomics project

Theory + Practical (planning oriented)

From raw files to submission package outline (idea level)

file organisation and naming ideas simple metadata and readme structure choosing target repository and licence concept

Mini capstone deliverables (design and checklist focused)

data and metadata map outline FAIR and submission checklist draft short narrative on reuse and citation plan

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Proteomics Data Standards & FAIR Repositories Training | Formats, Metadata & Sharing Concepts

Proteomics Data Standards & FAIR Repositories — Hands-on