Porcine reproductive and respiratory syndrome virus: web-based interactive tools to support surveillance and control initiatives
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
BACKGROUND: Control of porcine reproductive and respiratory syndrome (PRRS) represents a tremendous challenge. The trend is now toward managing the disease collectively. In Quebec, area and regional control and elimination (ARC&E) initiatives started in 2011; diagnostic testing, including ORF5 sequencing, and sharing of information among stakeholders are largely promoted. At the provincial level, a data-sharing agreement was signed by Quebec swine practitioners allowing PRRS virus (PRRSV) sequences to be transferred to a database maintained by the Laboratoire d'épidémiologie et de médecine porcine (LEMP-DB). Several interactive tools were developed and are available to veterinarians to allow comparison of PRRSV ORF5 sequences within ARC&E projects or provincially while managing confidentiality issues. RESULTS: Between January 1st 2010 and December 31st 2018, 4346 PRRSV ORF5 sequences were gathered into the LEMP-DB, involving 1254 sites and 43 practicing veterinarians. Approximately 34% of the submissions were from ARC&E projects. Using a novel web-based sequence comparison tool, each veterinarian has access to information on his/her client sequences and can compare each sequence with 1) commercial vaccine strains, 2) historical samples from the same site, and 3) all sequences submitted to the database over the last 4 years. Newly introduced PRRSV into breeding herds can be monitored using a new sequence comparison tool based on comparison of sequences at the provincial level. Each month, graphs providing the number of introductions per month and the yearly cumulative are updated. Between August 1st 2014 and December 31st 2018, 233 introductions were detected on 180 different breeding sites. Following a data-sharing agreement, veterinarians involved in ARC&E projects have access to an interactive mapping tool to locate pig sites, compare sequence similarity between participating sites and visualize the results on the map. CONCLUSIONS: The structure developed in Quebec to collect, analyse and share sequencing data was efficient to provide useful information to the swine industry at both provincial and regional levels while dealing with confidentiality issues.
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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 | 0.001 | 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 it