Reproducibility readiness
Scored 71 / 100
Read as a narrative review of a topic, without a systematic search, against SANRA.
The paper clearly defines its aims and importance, provides extensive references, presents detailed quantitative re-analyses of data from cited literature across multiple figures, and includes ethical, data availability, funding, and competing interest statements. However, as is common for narrative reviews, it does not detail a systematic literature search method. Limitations are only addressed in general terms regarding open research questions, and no code availability statement is provided.
The paper explains why the topic matters
Shown“Maintenance of centromere stability and structure is essential for faithful cell division, and therefore genome stability, and perturbations at the centromere can lead to aneuploidy or structural variations in daughter cells (reviewed in [23]).”
The paper states the review's aims or questions
Shown“In this review, we explore the emerging roles of SWI/SNF complexes in safeguarding centromere stability and discuss how disruption of PBAF leads to centromere fragility.”
The paper describes how the literature was searched: databases or sources, dates and search terms
MissingThe paper supports its key statements with references
Shown“Human centromeres are defined at the DNA level by highly repetitive sequences known as alpha-satellite (α-satellite) sequences arranged into tandem arrays known as higher-order repeats (HORs; figure 1a) [1,2].”
The paper weighs the strength of the evidence it cites, rather than only listing it
MissingThe scorer claimed: Shown
“While SMARCA4-binding patterns in HCT116 cells show patterns of anti-correlation with H3K9me3 enrichment (figure 5a,b) similar to what is observed in RPE1 cells, SWI/SNF subunits mapped in 786-O cells [70,71] do not show such a clear pattern”
The scorer quoted a passage that isn't in the paper's text, so the check counts as missing.
The paper presents relevant results of the studies it cites, such as outcomes or numbers
Shown“In a panel of 375 cancer cell lines from the Cancer Cell Line Encyclopedia (CCLE) [51], PBRM1 protein abundance was positively correlated with the abundance of centromere-associated proteins, suggesting this tend to be a conserved function of PBRM1 across cell and tissue types (figure 3)”
The paper names the ethics approval for work on people or animals, and the consent of the people studied
Shown“Ethics. This work did not require ethical approval from a human subject or animal welfare committee.”
The paper says where the data behind the results can be found, or why they cannot be shared
Shown“Data accessibility. Datasets analysed in this article have been published elsewhere and are available in publicly available repositories. Accession codes relevant to each analysis are listed in the figure captions.”
The paper says where the analysis code or scripts can be found, or that no custom code was written
MissingThe paper states who funded the work, or that it had no funding
Shown“Funding. This work was supported by awards from Cancer Research UK (DRCRPGJun24/100004) and the Medical Research Council (MR/ W001276/1).”
The paper states the authors' competing interests, or that there are none
Shown“Conflict of interest declaration. We declare we have no competing interests.”
The paper discusses the limitations of the study
Partly shown“There are still many interesting unresolved questions about how these proteins function, such as the precise recruitment mechanisms that bring PBAF to specific locations in pericentromeres and centromeres.”