Anammox enrichment culture glycoproteomics
Why this work is in the frame
A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.
Bibliographic record
Abstract
The physiology of the planctomycetal anammox bacteria makes them particularly special because they share features with all three domains of life. Anammox bacteria have been reported recently to produce surface-layer proteins, which represent the outermost layer and provide structure, shape and protection under extreme conditions. Furthermore, we report on the unique cell surface-layer glycosylatio...\nRead more\nSample Processing Protocol\nSAMPLE PREPARATION. Biomass from enrichment cultures and reference strains were transferred into a B-PER/TEAB buffer solution (50mM TEAB, 1% (w/w) NaDOC, adjusted to pH 8.0, incl. protease inhibitor) and lysed using bead-beating homogenization. In the following, the homogenate were centrifuged and the supernatant was transferred to a new tube before precipitating the protein content using TCA (tri...\nRead more\nData Processing Protocol\nWhole cell lysate shotgun proteomics raw data were analysed using PEAKS Studio X (Bioinformatics Solutions Inc., Canada). The anammox enrichment cultures were searched against a metagenomics constructed database (two-round search, to create a focused database in the initial search), where the pure reference strains were analysed using a Uniprot reference proteome database (of closely related subst...
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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) | 0.002 | 0.002 |
| Meta-epidemiology (broad) | 0.002 | 0.001 |
| Bibliometrics | 0.002 | 0.004 |
| Science and technology studies | 0.002 | 0.001 |
| Scholarly communication | 0.001 | 0.001 |
| Open science | 0.003 | 0.001 |
| Research integrity | 0.002 | 0.003 |
| Insufficient payload (model declined to judge) | 0.000 | 0.002 |
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 it