Additional file 1 of Cross-species examination of X-chromosome inactivation highlights domains of escape from silencing
Bibliographic record
Abstract
Additional file 1: Figure S1. The Xi/Xa expression ratio vs promoter DNAme level in individual human samples. Figure S2. The Xi/Xa expression ratio vs promoter DNAme level in individual mouse samples. Figure S3. Male vs female DNAme across species. Figure S4. A comparison of imprinted genes and genes subject to XCI. Figure S5. Comparison of DNAme data generated using WGBS and the 450 k array. Figure S6. Cross-species comparison of a primate-specific escape domain. Figure S7. Number of repeats within 15kb per TSS for genes subject or escaping XCI across species. Figure S8. Tests on mouse CTCF of our model trained on human CTCF. Figure S9. Mean female/male ATAC-seq signal across samples within 250 bp of TSSs, separated by tissue. Figure S10. Clustering of species by XCI status calls.
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 | 0.017 |
| Meta-epidemiology (narrow) | 0.001 | 0.001 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.002 | 0.003 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.002 | 0.002 |
| Open science | 0.002 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.832 | 0.215 |
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".