Characterization of snoRNA 3’‐end formation in <i>Saccharomyces cerevisiae</i> reveals a broad role for the Paf1 complex and locus‐specific roles for histone post‐translational modifications
Bibliographic record
Abstract
One eukaryotic protein complex involved in regulating RNA polymerase II transcription is the Paf1 complex (Paf1C), which has well‐characterized roles in promoting histone modifications and transcription elongation. Beyond these roles, the human and yeast Paf1 complexes also interact with RNA 3’‐end processing components to affect RNA formation. Specifically, the S. cerevisiae Paf1C is known to promote the proper 3’‐end formation of at least two small nucleolar RNAs (snoRNAs). To determine how Paf1C‐dependent functions regulate formation of these non‐coding RNAs, we used high‐density tiling arrays to analyze transcripts in cells lacking PAF1 and uncover new snoRNA targets of Paf1. Increased levels of RNA polymerase II seen downstream of snoRNA genes in the absence of PAF1 suggest that these snoRNA 3’‐end defects reflect impaired transcription termination. Examination of Paf1‐regulated snoRNA genes revealed locus‐specific requirements for post‐translational histone modifications and for other transcriptional regulators. Cumulatively, our work reveals a broad requirement for Paf1C in snoRNA 3’‐end formation and suggests that Paf1C contributes to the fine‐tuning of transcriptional regulation at individual loci.
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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 | 0.000 | 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) | 0.001 | 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 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".