[Study]: Study on characteristics of gut flora composition of pregnant women with preeclampsia

[annemarie-sharp]

The Digital Object Identifier (DOI)

10.1186/s12884-025-07760-4

Code of Conduct Agreement

• I agree to follow this project's Code of Conduct

[github-actions]

Title

Study on characteristics of gut flora composition of pregnant women with preeclampsia

DOI

https://doi.org/10.1186/s12884-025-07760-4

PMID

40450263

Author

Genxia Li

Journal

BMC Pregnancy and Childbirth

Year

2025

👋 Thanks for submitting!

[lightamadi-stack]

Good day @SvetlanaUP I’ve completed my first contribution and would like to curate this paper ([Study]: Study on characteristics of gut flora composition of pregnant women with preeclampsia #1051) as my second contribution, thank you.

[lightamadi-stack]

@SvetlanaUP please can you guide me on how to correct the PMID from “Https:/doi.org/10.1186/s12884-025-07760-4” to “40450263”? I tried editing it, but it is uneditable. Also, when I use this link: https://bugsigdb.org/Https:/doi.org/10.1186/s12884-025-07760-4, I can only see the Experiment 1 I curated, but I can’t see Experiments 2 and 3. Experiments 2 and 3 appear as separate edits when I access them through Contributions under my profile tab. I was expecting to see everything together when opening the link.

Also i have four signatures added by mistake to experiment 1 when I was trying to input signatures for the other experiments and couldn’t see everything as one edit. I later tried deleting the Signature 3 and 4, but they wouldn’t delete.

Experiment 1 has this URL: https://bugsigdb.org/Https:/doi.org/10.1186/s12884-025-07760-4/Experiment_1,

But the other experiments below were created when i was duplicating the experiments and their URL is not same with the one above:

1. Experiment 1** with this URL: https://bugsigdb.org/Https:/doi.org/10.1186/Experiment_1 (which i want to also remove)
2. Experiment 2 and 3 should be kept or corrected to have the same URL structure as the first Experiment 1 so that i will only need to change the experiment number to have access each one:
   https://bugsigdb.org/Https:/doi.org/10.1186/Experiment_2 and
   https://bugsigdb.org/Https:/doi.org/10.1186/Experiment_3

Please help!
Thank you.

[SvetlanaUP]

URL and PMID corrected: https://bugsigdb.org/40450263

https://bugsigdb.org/Https:/doi.org/10.1186/Experiment_1 deleted.

Please note that we can not edit Experiment number.

You can check your Experiment/Signature recordings by manually adding them to the main URL:

https://bugsigdb.org/40450263/Experiment_1/Signature_1
https://bugsigdb.org/40450263/Experiment_1/Signature_2
https://bugsigdb.org/40450263/Experiment_1/Signature_3 deleted as requested.
https://bugsigdb.org/40450263/Experiment_1/Signature_4 deleted as requested.

https://bugsigdb.org/40450263/Experiment_3/Signature_1
https://bugsigdb.org/40450263/Experiment_3/Signature_2

https://bugsigdb.org/40450263/Experiment_2/Signature_1
https://bugsigdb.org/40450263/Experiment_2/Signature_2

For the next actions or doubts, please ask your peers in the Zulip.

[lightamadi-stack]

Ok. thank you so much.

[lightamadi-stack]

Good day @SvetlanaUP I have completed this paper: https://bugsigdb.org/40450263 and would like to put it up for review.
Thank you.

[TheTosin]

Good day @SvetlanaUP

I’d like to review this study, thank you

[TheTosin]

Hi @lightamadi-stack, good job done here! I have some observations below:

• Request to delete Experiment 1 and 4 as Table 4 should be curated alongside the other Mann-Whitney (Wilcoxon) results. You can combine results of significant taxa on different taxonomical level (phylum, species, class etc…) if it has same comparison, statistical test and similar details.

Experiment 2 & 5:

• Remove Mann/whitney from the statistical test as the curation is specific to LEfSe.
• Description can be clearer in both signatures: e.g. “Linear discriminant analysis effect size (LEfSe) clustering chart between Pregnant Women with Preeclampsia (PRE) and Healthy Controls (NOR)”. Specify the exact comparison in the description for other experiments.

Experiment 3 & 6:

• MHT correction was done and was insignificant, but we can curate the significant taxa with p value as it seems useful (Add a note on this). Hence curate only the significant taxa stated within text.
• Add Table 4 as a source and curate the taxa. Also, change the signatures description.
• Remove LEfSe as a statistical test and leave the LDA score empty.

I’d be happy to review this again🌷

Item	Description	max	points
1	All elements marked "Needs review" (none "Incomplete")	1	1
2	Correct study design	1	1
3	Entered all relevant experiments and no irrelevant experiments	1	0
4	Body site correctly identified (i.e. does not include multiple sites)	1	1
5	Condition entered according to contrast (correct EFO ontology)	1	1
6	Contrast groups correctly identified	1	1
7	Groups correctly labeled as 1 and 0 (1=cases, 0=controls)	1	1
8	Antibiotic exclusion correctly identified	1	1
9	Correctly identified sequencing details	2	2
10	Identified correct statistical test	1	0.5
11	Identified MHT correction	1	1
12	Correctly recorded matched on factors	1	1
13	Entered correct number of statistical tests per experiment	1	0
14	All diversity measures identified	1	1
15	Diversity results correctly entered as increased/decreased/unchanged	1	1
16	All signature sources correctly identified (-1 for each error)	2	0
17	Abundance direction correctly selected	1	1
18	Members of Signatures identified correctly	2	1
19	Correct use of NCBI taxonomy	2	2
	TOTAL	23	17.5