An adaptable genomic-proteomic approach to characterize cell-surface Vimentin's membrane topology and interactome
Bibliographic record
Abstract
When found on the cell surface, Vimentin, a cytoskeletal protein, engages in multiple pathophysiological processes. Here, in human fibroblasts and endothelial cells, we used CRISPR-Cas9 to insert a hemagglutinin tag at six different loci within the vim gene. We then utilized tag immunodetection to define cell surface Vimentin's (csVim) membrane topology, followed by proximity biotinylation to identify its extracellular interactome; validating a subset of hits with a quantitative in vitro binding assay. • Genomically inserted hemagglutinin tags shed light on cell surface Vimentin's membrane topology. • Cell surface Vimentin's interactome is systematically characterised by proximity proteomics. • A list of high-scoring potential cell-surface Vimentin binders and proximal proteins is provided. • Five novel, high-affinity cell-surface Vimentin receptors/ligands are validated in vitro.
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How this classification was reachedexpand
Full frame distilled prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one teacher head, not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".