Multivariate curve resolution of mixed bacterial DNA sequence spectra: identification and quantification of bacteria in undefined mixture samples
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
Abstract A comprehensive understanding of factors that influence microbial competition and cooperation, their diversity and processes will be greatly beneficial in many research areas. Current tools for microflora determinations are far from suitable for high‐throughput monitoring of development in complex microbial communities. Here, we describe the application of a calibration free method, multivariate curve resolution with alternating least squares (MCR‐ALS), for identification and quantification of different microbes in mixture samples. The idea is to utilize MCR‐ALS to enable close monitoring of ecology in a variety of microbial communities. The data from two designed experiments consisting of DNA sequence spectra measured on mixtures were analysed with MCR‐ALS using no prior information on the data except for appropriate constraints, such as non‐negativity and closure. The results were compared both to the known true concentrations as well as to the results obtained from the well‐established multivariate calibration method partial least squares (PLS) regression. MCR‐ALS performed as well as PLS regression, successfully extracting all pure bacterial spectra and quantitative information on these, with 97.81% and 97.91% explained variance for the first and the second data set, respectively. Copyright © 2008 John Wiley & Sons, Ltd.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
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 | 0.001 | 0.003 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.001 |
| 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 it