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BSI-google.html
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<!DOCTYPE html>
<html>
<head>
<title>BSI+Google</title>
<meta http-equiv="Content-Type" content="text/html; charset=UTF-8"/>
<link rel="stylesheet" href="fonts/quadon/quadon.css">
<link rel="stylesheet" href="fonts/gentona/gentona.css">
<link rel="stylesheet" href="slides_style.css">
<script type="text/javascript" src="https://cdn.plot.ly/plotly-latest.min.js"></script>
</head>
<body>
<textarea id="source">
class: left,
name:opening
## Data Intensive Brain Science
Joshua T. Vogelstein
<br>
Kavli Neuroscience Discovery Institute
<!-- {[bme](http://www.bme.jhu.edu/),[icm](http://icm.jhu.edu/),[cis](http://cis.jhu.edu/),[idies](http://idies.jhu.edu/),kavli,[cs](http://engineering.jhu.edu/computer-science/), [ams](http://engineering.jhu.edu/ams/), [neuro](http://neuroscience.jhu.edu/)} | [jhu](https://www.jhu.edu/) -->
<br>
questions: [[email protected]](mailto:jovo at jhu dot edu)
<br>
slides: <http://brainx.io/BSI-google>
<br>
funding: DARPA I2O {GRAPHS, XDATA, D3M, L2M}
.center[
<img src="images/biomedical-engineering.small.horizontal.white.png" STYLE="HEIGHT:100px;"/>
]
---
class: center, middle
.h1[# <center>Motivation</center>]
---
class: center, middle
<img src="images/GeneralMHFacts.png" style="width: 100%;"/>
<footer>source: NAMI</footer>
---
class: left
## The Human Condition
<iframe width="800" height="500" frameborder="0" scrolling="no" src="//plot.ly/~jovo/17.embed"></iframe>
---
class: left
## The Grazing Goat Starves
<img src="images/grazing-goat.png" style="width: 60%;"/>
---
class: left
## Our Social Cage
<img src="images/PlanetOTApes_099Pyxurz.jpg" style="width: 60%;"/>
---
# Goal
Give each individual the tools she needs to move herself in the desired direction by the desired amount in our high-dimensional experience
---
class: center, middle
.h1[# <center>Challenges</center>]
---
class: center, middle
<img src="images/APA1.png" style="width: 100%;"/>
<img src="images/APA2.png" style="width: 100%;"/>
---
class: center, middle
<img src="images/PNAS_israeli_judges1.png" style="width: 100%;"/>
<img src="images/PNAS_israeli_judges2.jpg" style="width: 100%;"/>
---
class: center, middle
<img src="images/nuisance1.png" style="width: 100%;"/>
<img src="images/nuisance2.png" style="width: 100%;"/>
---
class: left, middle
# Enter NeuroData
<img src="images/neurodata_venn.png" style="width: 60%;"/>
---
class: left
## Our Idea
Multiple measurements from same subject should be more similar to one another than they are to any measurement of any other subject
--
$P[|| x\_{ij} - x\_{ij'}|| < || x\_{ij} - x\_{i'j''}||]$
--
<br>
Without that, how can we trust biomarkers?
--
(we prove a bunch of stuff about our estimator)
---
class: top, left
## Our model
<img src="images/connectome-coding-schematic.png" style="width: 100%;"/>
---
class: top, left
## Our Pipeline
<img src="images/pipe.png" style="width: 100%;"/>
---
class: center, middle
<iframe width="760" height="515" src="https://www.youtube.com/embed/TxlV50P6NEI?start=99" frameborder="0" allow="autoplay; encrypted-media" allowfullscreen></iframe>
---
class: top, left
## Our Result
Within a study, subjects are "discriminable"
.pull-left[
- 25+ studies
- 6000+ scans
- largest "meganalysis"
- largest open repo
]
.pull-right[
<img src="images/discr.jpeg" style="height: 100%;"/>
]
--
(we tried 200+ pipelines ⇒ 1M+ compute hours)
---
class: top, left
### But...
- Across studies, populations are significantly different
- Conditioning on Phenotype Fails
<img src="images/conditional.png" style="width: 100%;"/>
--
<span style="font-size:200%;">☹</span>
---
class: top, left
### Our Proposed Solutions
- better pipelines
- better data (eg, quantitative MRI)
- deep phenotyping
- data acquisition harmonization
---
class: top, left
## Acknowledgements
<img src="faces/mim.jpg" style="width: 150px;"/>
<img src="faces/randal.jpg" style="width: 150px;"/>
<img src="faces/cep.png" style="width: 150px;"/>
<img src="faces/bcaffo.jpg" style="width: 150px;"/>
<img src="faces/milham.jpg" style="width: 150px;"/>
<img src="faces/gkiar.jpg" style="width: 150px;"/>
<img src="faces/ebridge.jpg" style="width: 150px;"/>
<img src="faces/cshen.jpg" style="width: 150px;"/>
<img src="images/funding/nsf_fpo.png" STYLE="position:absolute; TOP:550px; LEFT:10px; HEIGHT:100px;"/>
<img src="http://brainx.io/images/funding/nih_fpo.png" STYLE="position:absolute; TOP:550px; LEFT:120px; HEIGHT:100px;"/>
<img src="http://brainx.io/images/funding/darpa_fpo.png" STYLE="position:absolute; TOP:550px; LEFT:230px; HEIGHT:100px;"/>
<img src="http://brainx.io/images/funding/iarpa_fpo.jpg" STYLE="position:absolute; TOP:550px; LEFT:430px; HEIGHT:100px;"/>
<img src="http://brainx.io/images/funding/kavli_fpo.png" STYLE="position:absolute; TOP:550px; LEFT:550px; HEIGHT:100px;"/>
<img src="http://brainx.io/images/funding/kndi_fpo.png" STYLE="position:absolute; TOP:550px; LEFT:650px; HEIGHT:100px;"/>
---
### Questions?
- dimensionality reduction: [LOL](https://github.com/neurodata/LOL)
- classification & regression: [RerF](https://github.com/neurodata/R-RerF/)
- hypothesis testing: [MGC](https://github.com/neurodata/mgc)
- clustering: [knor](https://github.com/neurodata/knorr)
- email: [[email protected]](mailto:[email protected])
- lab: [neurodata](http://neurodata.io/)
- startup: [gigantum](http://gigantum.com/)
<br>
<span style="font-size:200%; color:red;">♥, 🦁, 👪, 🌎, 🌌</span>
<img src="images/liono.JPG" STYLE="position:absolute; TOP:130px; LEFT:480px; HEIGHT:500px;"/>
<!-- background-image: url("images/OCPaper.png")
background-size: contain;
-->
<!-- <img src="images/OCPaper.png" style="width: 100%;"/> -->
</textarea>
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