Additional file 1 of Insights into genomic evolution from the chromosomal and mitochondrial genomes of Ustilaginoidea virens
Bibliographic record
Abstract
Additional file 1: Table S1. Chromosome lengths in genome assemblies of U. virens strains UV8b and UVP1. Table S2. List of candidate effector proteins in U. virens. Table S3. The average distance of effector genes apart from adjacent transposable elements in U. virens genome. Table S4. Conservation analysis of candidate effector proteins in U. virens compared with the closely related fungal species M. anisopliae and F. graminearum. Table S5. Location of the U. virens strains collected in this study. Table S6. SNP frequencies in coding sequences of candidate effector- and secreted protein-encoding genes in different U. virens strains compared with the reference genome. Table S7. The predicted structural variations between U. virens UV8b and UVP1 genomes. Table S8. Lineage specific regions in UV8b genome identified through comparisons with other U. virens strains. Table S9. The sizes of fungal mitochondrial genomes collected from MiToFun database. Table S10. The putative open reading frames in intronic regions of the mitochondrial genes in UV8b. Table S11. The sizes of mitochondrial genomes in different U. virens strains. Table S12. The quality of genome assemblies using non-hybrid and hybrid assembling methods.
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.
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 | 0.002 | 0.008 |
| Meta-epidemiology (narrow) | 0.002 | 0.001 |
| Meta-epidemiology (broad) | 0.002 | 0.001 |
| Bibliometrics | 0.003 | 0.005 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.002 | 0.002 |
| Open science | 0.003 | 0.002 |
| Research integrity | 0.002 | 0.002 |
| Insufficient payload (model declined to judge) | 0.296 | 0.079 |
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".