Protein Measurements - Do the Ratios Add Up

Archived study

Tests whether deposited PXD000001 TMT measurements recover intended spike-in ratios. Across 20 protein/channel contrasts, correlation was high (r=0.984) but ratios were compressed. Additional background scaling changed overall log2 RMSE from 0.45354 to 0.45322, an improvement of less than 0.1%.

Interpretation and limits

High correlation does not imply accurate ratio recovery. This processed-data study uses one acquisition, with dependent peptide and common-reference contrasts; prior normalization is undocumented. It neither re-quantifies raw spectra nor identifies the cause of compression.

Package and provenance

The unchanged research package comes from the upstream archive. It retains the original conversation and included scientific artifacts, including analysis code, results and figures. The poster is an AI-generated thematic illustration, not study evidence. This introduction summarizes archived findings; the analysis was not rerun. Later bounded checks do not certify the entire study or mean the original package was corrected.

Import provenance

This case was added to the Academic Research category on 2026-10-13, with the archived upstream case recorded as its source. The supplied session export and poster were uploaded without changing their contents. This introduction summarizes the archived findings and was standardized for the repository. The study, external data sources, and scientific results were not rerun or independently reverified for this import.

This GitHub catalog imports the case from the verified Hugging Face snapshot. The session export is referenced through that fixed revision; the cover and introduction are stored in this repository.

Case files

• Session export
• Case poster