Alterations of conjunctival microbiota associated with orthokeratology lens wearing in myopic children

[Folakunmi21]

Alterations of conjunctival microbiota associated with orthokeratology lens wearing in myopic children - Zhang et al - BMC https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-023-03042-1

[Ebere330]

@SvetlanaUP Please may I be assigned to this paper to be curated?

[Ebere330]

Hi, I am through with my second contribution and would like for it to be reviewed. Here is the link below: https://bugsigdb.org/Study_913

@SvetlanaUP

[Peacesandy]

Hello @Ebere330 this is a fair curation attempt, you missed out on a lot of details, which I will point out below.

• The condition in the study is Myopia, which is available on EFO
• The groups were correctly entered, but it would have been great, if a little explanation was added to Group 0, instead of just writing N group, this will describe what the N group does.
• The statistical test used is LEfSe
• Data transformation is relative abundance
• There is an MHT correction
• Figure 6 is not curatable since we are not interested in receiver-operating characteristic (ROC) curves. Thus, we curated Figure 4 for significant differential abundances.

N/B: For ease, please go through the paper and the reviewed study. All corrections have been made and the study has been marked reviewed.

CURATION RESULTS

All elements marked "Needs review" (none "Incomplete") (1 point): 1 Correct study design (1 point): 1 Entered all relevant experiments and no irrelevant experiments (1 point): 1 Body site correctly identified (i.e. does not include multiple sites) (1 point): 1 Condition entered according to contrast (correct EFO ontology) (1 point): 0 Contrast groups correctly identified (1 point): 1 Groups correctly labeled as 1 and 0 (1=cases, 0=controls) (1 point): 1 Antibiotic exclusion correctly identified (1 point): 1 Correctly identified sequencing details (2 points): 2 Identified correct statistical test (1 point): 0 Identified MHT correction (1 point): 0 Correctly recorded matched on factors (1 point): 1 Entered correct number of statistical tests per experiment (1 point): 0 All diversity measures identified (1 point): 1 Diversity results correctly entered as increased/decreased/unchanged (1 point): 1 All signature sources correctly identified (-1 for each error) (2 points): 0 Abundance direction correctly selected (1 point): 0 Members of Signatures identified correctly (2 points): 0 Correct use of NCBI taxonomy (2 points): 2

Total (maximum 23 points): 14

@SvetlanaUP https://bugsigdb.org/Study_913 corrected and reviewed ✅

[Ebere330]

Thank you @Peacesandy and @SvetlanaUP for the review and corrections made. Will make necessary amendments as suggested ... corrections well taken and noted