waldronlab / BugSigDBcuration

For documenting issues related to BugSigDB curation.
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External light-dark cycle shapes gut microbiota through intrinsically photosensitive retinal ganglion cells #292

Closed Folakunmi21 closed 1 month ago

Folakunmi21 commented 7 months ago

External light-dark cycle shapes gut microbiota through intrinsically photosensitive retinal ganglion cells - Lee et al - EMBO Rep https://www.embopress.org/doi/full/10.15252/embr.202052316

AleruDivine commented 7 months ago

Aleru Divine Hi @SvetlanaUP if it is okay, I'd like to take this up for curation.

Thank you so much!

AleruDivine commented 7 months ago

Thank you so much @SvetlanaUP I'll get started on this.

AleruDivine commented 7 months ago

Hello and good afternoon @SvetlanaUP, I'd like to submit this curation for review.

Link to study: https://bugsigdb.org/Study_1008

Thank you so much!

Scholarpat commented 3 months ago

Hi @AleruDivine,

For this study, the report mentions 3 experiments with signatures:

Additionally, there are 2 experiments without signatures but with significant alpha diversity measures, as presented in Fig. 3c/d. However, I noticed that 9 experiments were curated. Could you please clarify this? I might be missing something.

Thank you.

AleruDivine commented 3 months ago

I will revisit the study and review the notes I kept during the curation of this paper. Hopefully, this will provide useful insights. Thank you so much for the review.

AleruDivine commented 1 month ago

Hi @Scholarpat, thank you so much for the observation.

I must admit, I made a huge mistake. Because of the alpha measures, I recorded an extra 6 experiments;

Control vs MKO (LD) Control vs DTA (LD)

Control vs MKO (dLAN) Control vs DTA (dLAN)

MKO vs DTA (LD) MKO vs DTA (dLAN)

For the signatures I curated, they're only repeated.

@SvetlanaUP please I'd like to delete experiments 4 - 9 with their signatures.

My apologies for the mistake. At the time I really thought it was correct.

SvetlanaUP commented 1 month ago

https://bugsigdb.org/Study_1008 reviewed.