DNA damage repair – investigating the conformations of DNA ligase and PCNA
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
DNA damage repair is a central pillar of genomic integrity and all DNA repair pathways include DNA Ligase carrying out a 3-step reaction. Damaged DNA is not only produced from exogenous sources but also arises from normal cellular activities like genome replication. During replication, the lagging strand is synthesized as Okazaki fragments that require DNA Ligase to function efficiently. The trimeric proliferating cell nuclear antigen (PCNA) orchestrates DNA Ligase with nucleases and polymerases through their PCNA interacting peptide (PIP) motif. The PIP motif of DNA Ligase I is found in its unstructured N-terminus. An N-terminal truncation led to the crystal structure of DNA Ligase I in complex with nicked DNA. However, questions remain on Ligase domain rearrangements throughout the three steps of ligation and on its interactions with PCNA.
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 | 0.000 | 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 | 0.001 |
| 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