Microbial gut evaluation in an angolan paediatric population with sickle cell disease

[Scholarpat]

Microbial gut evaluation in an angolan paediatric population with sickle cell disease - Mariana Delgadinho – J Cell Mol Med. https://onlinelibrary.wiley.com/doi/10.1111/jcmm.17402

[azizgueye47]

hi, I would like to work on this project @SvetlanaUP

[Nathcynthia]

Microbial gut evaluation in an angolan paediatric population with sickle cell disease - Mariana Delgadinho – J Cell Mol Med. https://onlinelibrary.wiley.com/doi/10.1111/jcmm.17402

Good day, @SvetlanaUP can this paper be assigned to me @Cynthia Iwuoha

[SvetlanaUP]

This paper is under curation by @azizgueye47 @Nathcynthia please select other one.

[AleruDivine]

Hi @azizgueye47, hope you're doing well!

I wanted to check in and see how your curation is progressing. I'd be happy to help if you're having any challenges.

Thanks!

[AleruDivine]

Hello @azizgueye47, I'm checking in again. This study is yet to be added on BugSigDB, are you having any challenges curating this paper? I'll be more than happy to help you out.

Having gone through this paper briefly, I identified one experiment with signatures to be curated. Please feel free to reach out to me on Slack if you need help. @AleruDivine

In case you have difficulty getting the PMID, here's the PubMed link to the article, which also contains the PMID = 36168945

Thank you so much!

[TheTosin]

Hi @azizgueye47 I would like to know if you need assistance on creating this study.

16s, illumina. Group 0: 36 Healthy siblings Group 1: 36 SCA patients.

Figure 5 seems curatable. Relative abundance of the ten most prevalent bacterial genera between SCA children and corresponding healthy siblings.

You can reach me at @Adeshile Oluwatosin on slack. We can collaborate to make this curation faster. I hope to hear from you.

[SvetlanaUP]

@TheTosin please note Figure 5 is not of BugSigDB interest since we are curating statistically significant differences and differential abundances not prevalence.

Since @AleruDivine was the first one asking for this curation, it's assigned to Aleru. @TheTosin, you can do its peer review if you are still interested.

[TheTosin]

Thank you for clarifying @SvetlanaUP I would drop a peer review on slack.

[AleruDivine]

Thank you so much @SvetlanaUP I'll get started on curating the study.

I'll be sure to tag you once I'm finished @TheTosin

[AleruDivine]

Good evening @SvetlanaUP I'd like to put this study up for review. Link: https://bugsigdb.org/Study_1183

[SvetlanaUP]

@KateRasheed https://github.com/KateRasheed could you please do review of this curation?

[KateRasheed]

Thank you @SvetlanaUP . I would get on it.

[KateRasheed]

Good evening @AleruDivine .

Welldone on your curation. Here are some corrections to be made on the study:

1. The study design is cross-sectional not case-control
2. Group 1 name for experiment 1 should be Sickle Cell Anaemia children(rather than Sickle Cell Anaemia cases)
3. Clostridium XI is missing in experiment 1, signature 1
4. MHT correction should be No

Thank you. @SvetlanaUP

[AleruDivine]

Thank you so much for the review @KateRasheed I will go ahead to make the necessary corrections.

[AleruDivine]

Thanks again for the review @KateRasheed I’ve changed the following:

1. Study design has been changed from case-control to cross-sectional observational, not case-control.
2. Group 1 name has been updated to Sickle Cell Anaemia Children.
3. MHT correction has been updated to NO (my apologies for the omission).

As for Clostridium XI, this isn’t missing. It is resolved as Peptostreptococcaceae with Taxonomy ID 186804.

@SvetlanaUP In addition, I also updated the alpha diversity (Shannon Index) I missed initially in experiment 1 between siblings and SS groups.

Thank you so much @KateRasheed 😊

[KateRasheed]

Thanks for the changes @AleruDivine .

@SvetlanaUP This study has been reviewed and everything is good.