Single-Cell Proteomics and Nano-MS — Hands-on

Develop a conceptual understanding of single-cell proteomics and nano-scale mass spectrometry workflows. This module focuses on the challenges of ultra-low input samples, design ideas for nano-LC–MS experiments, carrier and multiplexing concepts, and how to interpret single-cell level proteome readouts for heterogeneity and cell state analysis.

Single-Cell Proteomics and Nano-MS

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Session Index

Session 1 — Foundations of Single-Cell Proteomics Session 2 — Sample Preparation & Nano-Scale Handling Session 3 — Nano-LC–MS Workflows & Quantitative Thinking Session 4 — Mini Capstone: Single-Cell Proteomics Study Design

Session 1

Fee: Rs 8800

Foundations of Single-Cell Proteomics

Why single-cell proteomics and what makes it different

cellular heterogeneity concepts population averages vs single cells comparison with bulk proteomics thinking

Sensitivity and dynamic range challenges at concept level

few picogram proteome ideas ion statistics and sampling limitations missing values and stochasticity awareness

Overview of main experimental families for single-cell proteomics (conceptual)

label free low input concepts carrier based multiplexing ideas integration with single-cell biology questions

Session 2

Fee: Rs 11800

Sample Preparation & Nano-Scale Handling (Concepts)

Concepts for isolating and dispensing single cells or few cells

sorting and picking ideas minimizing losses and contamination plate and droplet style handling concepts

Lysis, digestion and clean up thinking for ultra-low inputs

small volume reaction ideas surface adsorption awareness one pot workflow concepts

Carrier and reference channel concepts for multiplexed designs

role of carrier proteome ideas trade off between identification and ratio compression layout of reference and single-cell channels (conceptual)

Session 3

Fee: Rs 14800

Nano-LC–MS Workflows & Quantitative Thinking

Nano-flow separation and injection concepts for single-cell work

low flow benefits and challenges carryover and gradient ideas batch organization thinking

Acquisition strategy concepts for low input samples

balance between depth and duty cycle cycle time and number of cells per run identification versus consistency ideas

Quantitative interpretation thinking for single-cell proteomics data

normalization and batch effect concepts handling missing values at high level cell type and state clustering ideas

Session 4

Fee: Rs 18800

Mini Capstone: Single-Cell Proteomics Study Design

Conceptual study design for a simple single-cell proteomics experiment

Theory + Practical (planning oriented)

From biological question to layout of plates, batches and carriers (idea level)

number of cells and conditions thinking controls and reference strategies simple power and effect size awareness

Mini capstone deliverables (concept and report focused)

study design and batch map outline expected data structure and QC checklist short narrative of biological interpretation plan

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Single-Cell Proteomics & Nano-MS Training | Low-Input Proteomics Concepts

Single-Cell Proteomics and Nano-MS — Hands-on