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Open Aging Genetics Experiment

aging logevity genetics exercise

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#1 Cosmo Mielke

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Posted 28 October 2015 - 02:52 PM


Hi all,

 

I did my PhD work at the Mayo Clinic in Type 2 Diabetes and Obesity, focusing on the genes responsible for both diseases and studying how their expression changes with exercise. I learned in my PhD that much of these common biological pathways share huge overlaps with aging research. For example, the whole insulin signaling axis, and the cellular mechanisms that control proteolysis.

 

Ive long been a huge proponent of aging and longevity research, but the current commercial trend appears to be in the Quantified Self wearables space. Everyone wants to lose weight, and because of this millions of people are buying step counters. A small minority of those people are also getting their genomes tested. We in the longevity research space should reach those people for help!

 

So about 2 years ago I kicked off an open genomics study. The idea is to combine those data types to create a dataset that aging researchers can find interesting patterns in. Such a dataset would be very useful to us, since we could study the interactions between genes and environment. Ive created a whole genome interpretation "search engine" for people to use. Now Im just having trouble getting exposure for it. Once I get a few thousand people onboard, I can start to replicate current findings in genomic research. The top obesity causing genes themselves appear to be intricately connected to the methionine pathway. Finding interactions with exercise, sleep, and diet could be a huge windfall for understanding why people get sick.

 

Anyone have any feedback on how I can make this better, and reach more people? Im hoping to reach both longevity enthusiasts, and the general public, of which I hope to get excited about the prospects of longevity research.

 

http://www.infino.me/join


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#2 Mind

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Posted 28 October 2015 - 09:24 PM

This a great idea, of course, and it has been floating around for a few years now in different forms, but the only people collecting genomic data are the big tech and pharma corporations, it seems.

 

Kronos is supposed to have a long running population study with periodic aging-biomarker tests.

 

Project youthification was proposed here: http://www.longecity...youthification/ (kind-of related in that testing biomarkers has been mentioned)

 

A similar idea was brought up in the GRG mailing list just yesterday.

 

Keys: It has to be open, but the data should be anonymized.

 

Cost: Full genome testing is expensive for most people, so is a full measurement of aging biomarkers. SNP testing is more reasonable for most.


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#3 Cosmo Mielke

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Posted 02 November 2015 - 04:21 PM

but the only people collecting genomic data are the big tech and pharma corporations, it seems.


I really want to change this! If we want to cure aging in our lifetimes, we need to tackle the research head-on and have as many eyes on it as possible. Imagine if millions of people hacked on the human source code in much the same way as Linux has arisen. Thats my vision here.

My ultimate goal is to create a research organization wherein the data can be centrally secured and maintained for privacy reasons, but also allow any researcher to submit analysis code to perform aggregate statistics or visualizations on the pile. I would run such analysis codes in an air-gapped environment to ensure that private data can't be leaked, and the findings can be freely published.

I want the opensource community to be able to do this kind of research in the open.

Project youthification was proposed here: http://www.longecity...youthification/ (kind-of related in that testing biomarkers has been mentioned)


I'll look into these! 


Keys: It has to be open, but the data should be anonymized.
 
Cost: Full genome testing is expensive for most people, so is a full measurement of aging biomarkers. SNP testing is more reasonable for most.


Open but anonymous indeed. A similar project to mine, openSNP, actually does provide data dumps of SNP files to the public. I don't do this, but I suppose this could be implemented as an opt-in feature later. Keeping the data internal is a better way of protecting privacy, but it does require people to jump through hoops to analyze it. I think my eventual goal is to opensource a set of api's that would clearly demonstrate how a python script could interact with the dataset server-side.


I would love feedback on how I can better reach people, particularly in the aging/longevity community. Since my tool is relatively new, it hasn't gotten much exposure.

#4 alc

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Posted 02 November 2015 - 11:53 PM

"Cost: Full genome testing is expensive for most people, so is a full measurement of aging biomarkers. SNP testing is more reasonable for most."

 

 

Some options are:

 

1. Personal Genome Project @ Harvard

 

http://www.personalgenomes.org/harvard

 

2. Another option is with Veritas Genetics for $1,000.

 

http://www.veritasgenetics.com/

 

I guess this price will go down in next years.

 

Both are connected with George Church.



#5 ceridwen

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Posted 03 November 2015 - 04:53 PM

Parabiosis experiment recruiting next year at Boynton Bay south Florida
Contact Dr Diblamean Maharaja
WPBF.com
10301 Hagen Ranch Road Ste 600
Boynton Beach
FL 33437
Phone 001 561 7525522

He is also based at Bethesda Hospital East
2815S Seacreast Boulevard
Boynton Beach
FL 33435

#6 Mind

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Posted 03 November 2015 - 06:42 PM

What database software do you propose? Are there free options?

 

What is your definition of "air-gapped". It varies.






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