Monday, April 19, 2021

Northern red bishop: Could we double Drosophila melanogaster vinegar fly species' lifespans via a spray or food into this jar (of a genetic drug researchers might develop) even? * * * Broad Institute of MIT and Harvard ... Science For All Seasons - Clarity from comparison: How other animals' genomes illuminate our own * * * Fascinating Tzumin Lee Drosophila fruit fly Connectome and temporal lineages talk today, 4/21/21 (organized by CalTech - https://www.allen-lineage.org/portfolio-item.html). The title of Tzumin Lee's talk was changed at the last minute, as announced by Jay Shendure (moderator and introducer and geneticist)

 

Monday, April 18, 2021

Broad Institute of MIT and Harvard ... 

Science For All Seasons - Clarity from comparison: How other animals' genomes illuminate our own 


Broad Institute Follow Up Emails to Survey


Dear Elinor Karlsson, (and George Church), 


Greetings again, and I hope this finds you both very well.

As a follow up (having filled out the Broad Institute's survey form today
 - https://www.surveymonkey.com/r/2CCVQVL - with questions per your edifying January Broad Institute talk), and regarding a Drosophila fly longevity conversation: 

In what ways could we double the lifespans of actual individual Drosophila flies in the jar - 




Could we double Drosophila melanogaster vinegar fly species' lifespans via a spray or food into this jar (of a genetic drug researchers might develop) even?

 
In what ways could we map an individual fly's genome at a certain point in time - to A G C Ts ? And with machine learning, in what ways could we map this genome out in new AGCTs as an extended lifespan, say to 180 days (if 40-50 days or 90 days is the outer limit of a Drosophila fly's life span) - so virtually and digitally? (These Actual-Virtual developments as conversation, I'm particularly interested in). 

And if gene function declines as an organism ages - per Harvard MIT Professor of Genetics' George Church - 
https://youtu.be/bnCEIPQFNnk - what does this look like in A G C & Ts at different time points?


Further, if one could develop a film-to-3D App for 'everything,' and here for Drosophila flies, in what ways could one transpose these flies in this jar into 3D Drosophila flies - think Google Poly, a library of virtual objects (which is closing soon) - and in a realistic virtual earth for species 
DDD
https://twitter.com/TheOpenBand/status/1367587550274015232?s=19 (and at the cellular and molecular levels too)? 


Is it possible to tag Drosophila flies individually, like in this jar, and sequence their genomes at different time points? 

Thank you,
Scott
(See 'longevity' label too)

 PS
In what ways WOULD it be possible to build a realistic virtual earth for species as new genetic tools that would allow us to make hybrid organisms like this genetically engineered Axolotl-Bird hybrid -

Northern Red Bishop bird (female) WITH Axolotl - 



Axolotl


Thanks,
Scott
- CC-4 MIT OCW-centric wiki worlduniversityandschool.org



*

Dear Elinor, 

I just filled out this survey, and also have some questions about a Drosophila genetics' project I'm interested in. I'm interested in this particular project with regards to developing CC-4 MIT OCW-centric wiki World University and School and also regarding an Actual-Virtual realistic virtual earth for genetics (see below) - and for longevity, and aging reversal, questions especially. I think your knowledge could help shape this further in great and fascinating ways. 

Below are the questions I asked in your January talk, as well as my responses to the survey questions I just finished. 

Am exploring the idea of heading back to Cuttyhunk island, Massachusetts (where my family has a home), from the SF Bay Area, from around June 28th until August 4th or 5th or so, and wonder if you might like to meet for a cup of coffee sometime? I'd like to see the Worcester Art Museum as well as the Ecotarium (if they will be open during the coronavirus pandemic), and wonder if one of these places could even be good to meet at?

Thank you for your interesting Broad Institute talk in January - https://youtu.be/YKjYFydrje0. 

Sincerely, Scott


PS This is the idea in the big picture -

Where to begin with Vast #Wiki #WUaSData project of 1 #RealisticVirtualEarth for EVERYTHING since 4.6 billion yrs ago & at cell & atomic levels too & as #RealisticVirtualEarthForGenetics? #BeginAtTheBeginning? https://www.goodreads.com/quotes/6305-begin-at-the-beginning-the-king-said-very-gravely-and Is this #StreetView #TimeSlider #TensorFlowAI?











Written responses to survey:

1
World University and School's President, Founder, CEO, a Professor here (where WUaS is like CC-4 MIT OCW in 4 languages with Wikipedia in 300 languages))


5
Interested in Genetics at MIT OCW-centric WIKI World University and School, and potentially regarding planning for genetics for all 7.8 billion people (eg in collaborating with WikiTree), and for other species, and individuals too, for ex., in a single #RealisticVirtualEarthForGenetics - https://twitter.com/hashtag/RealisticVirtualEarthForGenetics?src=hashtag_click - and also regarding questions of Actual-Virtual (#ActualVirtual) developments, and for Digital Species, and regarding longevity and aging reversal questions too, eg see - https://twitter.com/WorldUnivAndSch/status/1376645462556438529?s=20 ~


9
Broad question: How could we best explore these phenotype questions about genomics and adaptations (hibernation) in a realistic virtual earth (think Google Street View with time slider, Maps, Earth, TensorFlow AI and Samsung Neons' artificial humans and artificial species' individuals - even with a film-to-3D App) at the cellular and molecular levels too? I'm thinking in terms of a  RealisticVirtualEarthForEvolution and RealisticVirtualEarthForGenetics in particular (see below). Thank you.


https://twitter.com/hashtag/RealisticVirtualEarthForEvolution?src=hashtag_click

https://twitter.com/hashtag/RealisticVirtualEarthForGenetics?src=hashtag_click

Scott (sgkmacleod@worlduniversityandschool.org)



10
Longevity, aging reversal with genetic therapies, Actual-Virtual Drosophila melanogaster research in these regards, new tools for genetic virtual research, perhaps emerging from a realistic virtual earth for CRISPR - https://twitter.com/hashtag/RealisticVirtualEarthForCRISPR?src=hashtag_click - into a single realistic virtual earth for evolutionary biology - https://twitter.com/hashtag/RealisticVirtualEarthForEvolutionaryBiology?src=hashtag_click - eg - https://twitter.com/HarbinBook/status/1370926854257876995?s=20 (where Actual-Virtual Harbin Hot Springs is also my long term ethnographic field site, and at the cellular and molecular levels too). Thank you.



12
Into a realistic virtual earth - thinking Google Street View with TIME SLIDER (re seasons' word), Maps, Earth, TensorFlowAI, Translate - and even realistic avatar bots like Samsung Neons, and even group buildable like Google Monster Mash - https://twitter.com/hashtag/RealisticVirtualEarthForSTEM?src=hashtag_click ? DataPools? How best to plan for #WUaSDataPools FOR #DigitalSpecies like #ActualVirtual #Drosophila flies -  https://twitter.com/DrPinarUstaoglu/status/1374328288894664705 &vav "place," & coding (javascript, #TensorFlowAI?) in #GoogleStreetView with #TIMESLIDER / Maps / Earth & even #AvatarBotElectronicMedicalRecords?
https://twitter.com/sgkmacleod/status/1379228262249852935?s=20


~ #GrabTheAIcode #GoogleMonsterMash
to co-create your own #ActualVirtual #AvatarBotElectronicMedicalRecords for 7.8 B Peops with #StanfordDukeProjectBaseline #RealisticVirtualEarthForLegoRobotics in #GoogleStreetViewMaps #NextKillerApp like #EmailForBusiness? #MosaicGUIbrowser?
https://twitter.com/WorldUnivAndSch/status/1380909570944462855?s=19

https://scott-macleod.blogspot.com/2021/04/sapphire-lake-evolution-basin-high.html



Questions and text chat from your talk:

Thank you!  

Sophia Wolfe (she/her)       02:16 PM
Is the human reference genome at the human genome project a single genome or an 'average' from all samples collected?

This question has been answered live

Anonymous Attendee       02:21 PM
How much of the genome is conserved across the 240 mammals?

This question has been answered live

Stephanie Lam       02:25 PM
when comparing across diverse mammals, what % of human coding genes are conserved compared to completely new genes of unknown function?

This question has been answered live

Scott GK MacLeod (You)       02:28 PM
How do breeds (the labs) & ‘outbreeds’ (or what you called the cats)) - and humans’ genomes - retain fertility but donkeys mules and donkeys don’t  even in terms of the genetic characterizations, Elinor, that you’re making for Zoonomia? Thank you. Scott (sgkmacleod@worlduniversityandschool.org)

Ms.Borrelli (she/her)       02:31 PM
This presentation is so awesome. I begin teaching my next high school Zoology class on Monday and would love to show the students this presentation. Will the recording be available?

Tom Ulrich       02:45 PM
Thank you so much! Yes, we will post a recording of the talk on our YouTube channel: https://www.youtube.com/user/broadinstitute

Family Healthy Choices       02:31 PM
Is the Powerpoint presentation available to access and download?  Thank you.

Tom Ulrich       02:46 PM
I will ask Elinor and Diane if they’d like to make the slides available. If they do, we’ll post them on our website. Thanks!

Heather Remoff       02:33 PM
Might it be possible for the natural world to shape a gene drive that could be inserted into our genomes via pandemic viral infections?

Tom Ulrich       02:43 PM
Great question! In a sense, the natural world already did that, millions of years ago. Researchers think that somewhere between 5 and 8% of our genome came from ancient viruses.

Anonymous Attendee       02:44 PM
Will this seminar be available online? I find it very inspiring and would love to revisit some of the concepts.

Tom Ulrich       02:47 PM
Thank you so much! Yes, we will post a recording of the talk on our YouTube channel: https://www.youtube.com/user/broadinstitute

Hamid Gaikani       02:46 PM
Hi. Is there any position in the genome that is 100% conserved? I mean, any mutation would cause death.

Scott GK MacLeod (You)       02:51 PM
Broad question: How could we best explore these phenotype questions about genomics and adaptations (hibernation) in a realistic virtual earth (think Google Street View with time slider, Maps, Earth, TensorFlow AI and Samsung Neons' artificial humans and artificial species' individuals - even with a film-to-3D App) at the cellular and molecular levels too? I'm thinking in terms of a  RealisticVirtualEarthForEvolution and RealisticVirtualEarthForGenetics in particular (see below). Thank you.


https://twitter.com/hashtag/RealisticVirtualEarthForEvolution?src=hashtag_click

https://twitter.com/hashtag/RealisticVirtualEarthForGenetics?src=hashtag_click

Scott (sgkmacleod@worlduniversityandschool.org)



Mammals & genomics. Diane Genereux and I distill it to (comparative) essentials in
@broadinstitute
 public lecture “Clarity from comparison: How other animals' genomes illuminate our own.” Sadly, few
@ZoonomiaProject
 species survived the #2021MMM #carnage https://youtu.be/YKjYFydrje0

https://twitter.com/eenork/status/1374216872384724993?s=20


Thank you, Elinor, 

All the best, Scott




University of Massachusetts Medical School
368 Plantation Street, Sherman Center, AS4.1065
Worcester MA 01605
Email Elinor.Karlsson@umassmed.edu
https://profiles.umassmed.edu/display/11661398





* * 

Monday, January 25, 20201

Science For All Seasons - Clarity from comparison: How other animals' genomes illuminate our own 


Thursday, April 15, 2021

Broad Institute: Science For All Seasons Survey

To whom it may concern:


Thank you for attending one of our recent Science For All Seasons events. In order to help us make these events as good as they can be, we ask that you take a few minutes to answer a few questions about yourself, the talks, and how we might improve them going forward.


If you have any questions or suggestions about Science For All Seasons or other Broad Institute events, please email events@broadinstitute.org; we'd love to hear them.


Sincerely,

The Broad Institute Communications Team






* * * 

Wednesday, April 21, 2021


Fascinating Tzumin Lee Drosophila fruit fly Connectome and temporal lineages talk today,  4/21/21 (organized by CalTech - https://www.allen-lineage.org/portfolio-item.html). The title of Tzumin Lee's talk was changed at the last minute, as announced by Jay Shendure (moderator and introducer and geneticist)


The video recording should be posted here - https://www.youtube.com/channel/UCrszkCFQtagROYcbqv2lxuQ 



Tzumin Lee, PhD

Janelia Research Campus


https://www.janelia.org/people/tzumin-lee

https://www.janelia.org/lab/lee-tzumin-lab



*

My question in the Q&A text: 

Thank you for your fascinating talk, Tzumin, and the remarkable tools, and research you shared. Yesterday in a Stanford Medicine Drug Discovery conference (#SDDS2021), presenter Joan Mannick MD showed a video of 2 older mice (2 years+), one placebo, and the other with LAMPa (I’m not sure I have the name of this right), and the older mouse with Lampa was remarkably active, as well as had a robust fur (where the old placebo mouse was losing fur). Have you studied LAMPa in mice, or flies? And could one add LAMPa to old Drosophila flies, and trace neuronal lineages with the remarkable tools you shared, in new ways - and observe lengthening of Drosophila lives too? 



Stanford Medicine Drug Discovery Symposium M April 19, and Tu April 20, 2021 (one talk, to which I refer, but this talk by Joan Mannick MD wasn't posted, that I could find) - 







*










https://en.wikipedia.org/wiki/Northern_red_bishop

https://commons.wikimedia.org/wiki/Euplectes_franciscanus

...



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