Digital Twin to Model the Effect of Spaceflight on the Retina

AWG Projects AIML AWG Open Projects
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We are investigating the effect of spaceflight on gene expression of retina through the RR9 dataset (combining other RR datasets), build data augmentation methods and digital twin models to make currently rather limited dataset more useful.

This is a subgroup of AWG AIML.

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In the same manner as those out of Mt Sinai i.e. Jen Van Eyk? @james.casaletto @jgong ?

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Hi @joel.steele
I’m not very familiar with Jen’s research, but at first glance it looks like she does a lot with proteomics. At this point, with the data we have, we’re looking at transcriptomic data (along with phenotypic data). Is there something particular about Jen’s work that you’re thinking of here?

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Hi @james.casaletto and @jgong , what type of phenotypic data do you have for retinas?

My company can measure shapes very uniquely.

Example:

Video [12 min]: Shape Analysis of PAP Smears by Shape Genie

Slides from video:

Regards, Dave

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Hi Dave
Thank you for sharing your Shape Genie work – really awesome stuff!! The phenotypes we have for murine retina include:

  1. depths (retina, choroid, sclera, pigment layer) and eye dimensions (ant-post, sup-inf)
  2. photoreceptor layer immunostaining (HNE, PNA)
  3. microscopy (ZO, TUNEL, PECAM)
  4. tonometry

And we have associated transcriptomic data for some of the same samples.

cheers and happy Friday
-james

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Hi @james.casaletto , If you send me some example pictures of control vs. experimental, I’d be happy to explain how Shape Genie can be used. Shape Genie offers free, long-term accounts and has tutorials. My email is dave@brainscanology.com if you want to send the images privately.

These other use-cases will give you a good idea of how we can measure the phenotypes you listed.

Video [11 min]: LCPC Transform Measures Shape Distinctly From Area in 2D Cell Culture

Video [14 min] Shape Genie Identifies Sub-Groups of Lung Alveoli

Best,

Dave

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Hello @jgong & @james.casaletto ! I would like to contribute to this project of yours. Do you have any space left in the group?

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Hi Alavia
Absolutely we have space. Jian please add Alavia to our email list. We look forward to meeting you at our next meeting.
cheers
-james

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Thank you so much! Looking forward to the meeting.

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I’ve added you to our email list, Alavia, thank you for the interest! We will meet again very soon!

Jian.

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Hi Jian,

Would you be able to add me to the mailing list too, I’m also interested in the project.

Satyam

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Thank you Satyam. Will add you and keep you informed!

Jian.

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Hi @jgong, I hope you are doing well! Ethan Waisberg (ethan.waisberg@gmail.com) and I (ongjo@med.umich.edu) would be very interested in joining this project if there are spots available. Thank you!

Best,
Joshua

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Thanks so much @ongjo & Ethan :tada:

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Hello @jgong, I just joint AWG recently and I find this project interesting! I would love to learn more about it and contribute, so I am very interested in joining this project if there are spots available! Thank you very much!

Best,
Eunice (eunicecwyan@gmail.com)

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Hello! Are you guys accepting people to help contribute to the model from undergraduates?

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Yes we do. Please send them (their emails) my way!

Jian.

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I sent you a message!

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@jgong @james.casaletto when you get the subgroup set, need help setting up the calendar for the regular subgroup mtg?

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Hi Ryan, Thanks so much for posting the tutorial on setting up the calendar for sub-group meetings! Very useful!!

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