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# System prepended metadata

title: Lydia Lookbook HH23
tags: [HH23]

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tags: HH23
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# Lydia Lookbook HH23
## key links
* [Lydia's Google Drive Folder](https://drive.google.com/drive/folders/1YKb7SZXXdjAd8hIjghmLISCc417sw-wL?usp=share_link)
* [Lydia's Airtable Record in the HH Base](https://airtable.com/appwIObT71aBHeEtu/tblS1resjotcEHRvc/viwQdnPbIlkZCWaW1/recKAnpi5gIhGixjx?blocks=hide)
## microproject docs
* [HH Visual: Lydia - Ptown Montage](/HgNKnD5aTeSPKV-Xo5hnAg)
* [HH Visual: Lydia - Genome Sequence Data to Representation Animation](/uc1FaiRHS5q8u7RhoIy6xQ)
* [HH Visual: Lydia - Genome Dots Visualization and Animation](/xutuNc88RmCouHDiQh01LA)
* [HH Visual: Lydia - Genome Tree Representation Animation](/PGN0dU4cTYSqQKxPS67dxA)
* [HH Visual: Lydia - Vestibule Animation Series](/YyxlQD1FSc6vWi0wDzkzjw)
* [HH Visual: Lydia - Organization Network](/BSZ_QUNFRDavm7GrXtXa2A)
* [HH Visual: Lydia - CDC news montage](/y48Naz8cS66IPRB-unZVqw)
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## notes from session 1 (20230127):

bursting with complexity and networks!

* virus transmission
* of academic collaboration, all the organiztation and all the data sets

have all the organizations pop up of screen. there are a dozen or so, each with their own logo.

they have some pretty visuals they use. will send?

need a way to visualize sequencing. a simplified version. a visual metaphor. show movement geographically. have a family tree of virus and then after that overlay over a map.


## MK notes from meeting

- learning from pandemics (here's what we can learn)
- outbreak reconstruction
    - covid virus leading to descended covid virus 
    - family tree of covids
    - then how it looks to layer on data (like from public health partner)
- genomics platform that did the sequencing
- maybe new footage from p-town outbreak



P-town outbreak images

![](https://bostonglobe-prod.cdn.arcpublishing.com/resizer/Y26L5lUUdx8MyuHk_qME_l2iia8=/1440x0/cloudfront-us-east-1.images.arcpublishing.com/bostonglobe/3PBHREIPD2HAZYEJR7S6KM2TTU.jpg)
![](https://www.gannett-cdn.com/presto/2021/10/22/NCCT/8bf0cb1e-9f18-4fbc-a67a-e589cf5ee0b3-Ptown_Covid.jpg?width=1320&height=738&fit=crop&format=pjpg&auto=webp)

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### Global COVID-19 Visualization: Map and Phylogenetic Tree Analysis of Delta Wave
"here is a visualization our team made of covid sequences around the world, on a map and in their phylogenetic tree—up to the start of the Delta wave. you can see Delta appearing as a new branch at the bottom and then blowing up the map"
![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04PRF08TCY/gif-1_360.gif?pub_secret=33dfbb3177)

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### Delta Wave Illuminated by Genome Sequencing

![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYS2VBB7/gif-2_360.gif?pub_secret=9c48553b36)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NRQASK9U/thoughtcafe_cellcover.jpg?pub_secret=5f73c0777a)

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here is the gorgeous journal cover made for us by Thought Café—it shows the Delta wave crashing onto the lighthouse (representing Ptown—the lighthouse is modeled on lighthouses in Ptown). you can see the SARS-CoV-2 viruses in the wave; the genomes are illuminated by the light from the lighthouse (the light represents genome sequencing)

![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NVF3BZNZ/graphical_abstract.png?pub_secret=0c9310b55c)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYDFNM1Q/flowchart.png?pub_secret=e5315890f6)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NHTQ8947/ptown_descendants.png?pub_secret=0eab7c0129)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NRS7NKF0/phylogeny.png?pub_secret=96a185bb49)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYCHS9B5/detected_transmission_events.png?pub_secret=c4e47e3e17)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYGM73GS/risk_of_transmission.png?pub_secret=9fb8d78c7f)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYHU0L90/infection_transmission.png?pub_secret=2c191eba3b)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04PCAGN9GR/image.png?pub_secret=ac9f87f603)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYNL7V61/screenshot_2023-02-10_at_8.00.36_am.png?pub_secret=d8263386eb)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NYNLJA5B/screenshot_2023-02-10_at_8.00.46_am.png?pub_secret=2f811dbdbe)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NZGHQFV1/image.png?pub_secret=441df6bceb)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NWMMFARK/image.png?pub_secret=907a72f47d)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NZKNRD6W/image.png?pub_secret=bbebe4acf2)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04PPAES6M6/image.png?pub_secret=57c1d43cd9)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04P240HT0U/image.png?pub_secret=bd7fd80e38)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NSSPD9L6/image.png?pub_secret=013d76c311)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NZBQ47RR/image.png?pub_secret=eb2f29b5d4)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NSSNUUGN/image.png?pub_secret=5bddddaf2d)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NZDQUWLS/screen_shot_2023-02-09_at_3.20.23_pm.png?pub_secret=dcbd0ed4dc)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04PC2ZS533/image.png?pub_secret=b6530c30e0)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NZCY6RQS/image.png?pub_secret=3e76af7e1a)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NJS67ZD5/image.png?pub_secret=3d80a77a0b)

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![alt text](https://files.slack.com/files-pri/T0HTW3H0V-F04NSQ48R0E/image.png?pub_secret=007e0e23a8)

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### notes from Friday

- if she starts with p-town, it does make sense to end with it
- how to get from one slide to another
- bird's eye view of infection
- images of p-town
- difference only in the DNA sequence
    - 