Additional file 7 of TRIM25 promotes Capicua degradation independently of ERK in the absence of ATXN1L
Bibliographic record
Abstract
Additional file 7: Figure S6 Validation of CIC-ATXN1L-TRIM25 Interaction. A) Representative Western blot of GBM cell lines treated with MEK/ERK inhibitors trametinib/LY3214996 for 16 hours. DMSO was used as a negative control. B) Representative Western blot of GBM cell lines treated with ATXN1L siRNA for 48 hours. Scrambled siRNA was used as negative control. C) Relative mRNA expression of CIC and CIC target genes ETV1/4/5, DUSP6, and SPRY4 in GBM cell lines LN229, U343, and U87-MG following siRNA knockdown of ATXN1L or TRIM25 for 48 hours. Expression was normalized to TBP and scrambled siRNA was used as a negative control. D) Relative mRNA expression of CIC and CIC target genes ETV1/4/5, DUSP6, and SPRY4 in BTIC cell lines MGG119 and BT054 following siRNA knockdown of ATXN1L or TRIM25 for 48 hours. Expression was normalized to TBP and fluorescent RNA was used as a negative control. E) Representative Western blot of GBM cell lines LN18, U251, and U87-MG treated with MEK/ERK inhibitors trametinib/LY3214996 and/or ATXN1L siRNA. DMSO and scrambled siRNA were used as negative control. Below: barplot quantifications of CIC protein expression. F) Representative Western blot of GBM cell lines LN18, LN229, and U87-MG treated with ATXN1L and/or TRIM25 siRNA. Scrambled siRNA were used as negative control. Below: barplot quantifications of CIC protein expression. * RT-qPCR and Western blot quantifications were collected from 3 independent experiments. Error bars represent one standard deviation. p-values were calculated using the two-tailed independent Student’s t-test. Statistically significant values are denoted (* = p < 0.05, ** = p < 0.01). Individual data values can be found in Additional file 17: Table S10.
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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 | 0.002 | 0.017 |
| Meta-epidemiology (narrow) | 0.002 | 0.001 |
| Meta-epidemiology (broad) | 0.002 | 0.002 |
| Bibliometrics | 0.002 | 0.003 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.003 | 0.003 |
| Open science | 0.002 | 0.001 |
| Research integrity | 0.002 | 0.001 |
| Insufficient payload (model declined to judge) | 0.878 | 0.244 |
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".