Comprehensive Protocol for Total Protein Extraction, Precipitation, and Assay Measurement from Plankton Samples v2
Bibliographic record
Abstract
This protocol outlines an optimized method for extracting total protein from plankton samples, encompassing both phytoplankton and zooplankton. The procedure involves the use of lysing matrix tubes with beads of varying sizes (0.1 mm, 1.4 mm, and 4 mm), eight homogenizing cycles, and a protein extraction buffer composed of 2% SDS, 10% glycerol, 5 mM EDTA in 100 mM Tris (pH 7). The extracted crude protein is quantified using the Pierce Micro BCA assay equivalent to bovine serum albumin (BSA), with a linear detection range of 12.5 to 1000 ug/sample. To remove interference from chlorophyll, monosaccharides and other substances, the extracted protein undergoes precipitation using a chloroform and methanol solvent mixture, followed by re-dissolution in re-solubilization buffer composed of 1% sarcosine in 50 mM Tris (pH 7). BCA assay is then used to quantify the precipitated protein, with BSA as the standard. The absence of glycerol and the use of sarcosine instead of SDS enable a linear detection range of 5 to 2000 µg/sample. https://assets.thermofisher.com/TFS-Assets/LSG/manuals/MAN0011430_Pierce_BCA_Protein_Asy_UG.pdf
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How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.004 | 0.003 |
| Meta-epidemiology (narrow) | 0.004 | 0.003 |
| Meta-epidemiology (broad) | 0.004 | 0.002 |
| Bibliometrics | 0.004 | 0.003 |
| Science and technology studies | 0.003 | 0.001 |
| Scholarly communication | 0.002 | 0.001 |
| Open science | 0.004 | 0.002 |
| Research integrity | 0.002 | 0.005 |
| Insufficient payload (model declined to judge) | 0.044 | 0.064 |
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 source (direct Gemma or distilled Codex), 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".