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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no">
<title>Home</title>
<meta property="og:title" content="Home" />
<meta property="og:image" content="https://heyufan1995.github.io/img/me_yf.jpg" />
<meta name="description" content="Yufan He webpage">
<meta property="og:description" content="Yufan He webpage" />
<meta name="author" content="Yufan He">
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<meta name="generator" content="Hugo 0.53" />
</head>
<body id="page-top">
<nav class="navbar navbar-expand-lg navbar-dark bg-primary fixed-top" id="sideNav">
<a class="navbar-brand js-scroll-trigger" href="#page-top">
<span class="d-block d-lg-none">Yufan He</span>
<span class="d-none d-lg-block">
<img class="img-fluid img-profile rounded-circle mx-auto mb-2" src="/img/me_yf.jpg" alt="">
</span>
</a>
<button class="navbar-toggler" type="button" data-toggle="collapse" data-target="#navbarSupportedContent" aria-controls="navbarSupportedContent" aria-expanded="false" aria-label="Toggle navigation">
<span class="navbar-toggler-icon"></span>
</button>
<div class="collapse navbar-collapse" id="navbarSupportedContent">
<ul class="navbar-nav">
<li class="nav-item">
<a class="nav-link js-scroll-trigger" href="/#about">About</a>
</li>
<li class="nav-item">
<a class="nav-link js-scroll-trigger" href="/#education">Education</a>
</li>
<li class="nav-item">
<a class="nav-link js-scroll-trigger" href="/#publications">Publications</a>
</li>
<li class="nav-item">
<a class="nav-link js-scroll-trigger" href="/#experience">Experience</a>
</li>
<li class="nav-item">
<a class="nav-link js-scroll-trigger" href="/#miscellaneous">Miscellaneous</a>
</li>
</ul>
</div>
</nav>
<div class="container-fluid p-0">
<section class="resume-section p-3 p-lg-5 d-flex d-column" id="about">
<div class="my-auto">
<div class="resume-item d-flex flex-column flex-md-row">
<div class="mr-auto">
<h1 class="mb-0">Yufan
<span class="text-primary">He</span>
</h1>
<p>Contact: <a href="mailto:heyufan1995@gmail.com">heyufan1995@gmail.com</a></p>
</div>
<div class="p0 m0 text-center" ></div>
</div>
<div>
<p>I am currently an applied research scientist at <a href="https://www.nvidia.com/en-us/about-nvidia/">NVidia</a>, and I'm working on AutoML, transformers, self-supervised learning, and <a href="https://monai.io/">Project MONAI</a>.
<p>Before that, I received my M.S. and Ph.D. from the Johns Hopkins University and my B.S. from Tsinghua University.</p>
<p>[View my <a href="/files/yufan_resume.pdf">Resume</a>] </p>
<ul class="list-inline list-social-icons mb-0">
<li class="list-inline-item">
<a href="https://github.com/heyufan1995" data-toggle="tooltip" title="GitHub" data-offset="0 10">
<span class="fa-stack fa-lg">
<i class="fa fa-circle fa-stack-2x"></i>
<i class="fab fa-github fa-stack-1x fa-inverse"></i>
</span>
</a>
</li>
<li class="list-inline-item">
<a href="https://www.linkedin.com/in/yufan-he-991523182/" data-toggle="tooltip" title="Linkedin" data-offset="0 10">
<span class="fa-stack fa-lg">
<i class="fa fa-circle fa-stack-2x"></i>
<i class="fab fa-linkedin fa-stack-1x fa-inverse"></i>
</span>
</a>
</li>
<li class="list-inline-item">
<a href="https://scholar.google.com/citations?user=btkEZXIAAAAJ&hl=en" title="Google Scholar">
<span class="fa-stack fa-lg" aria-hidden="true">
<i class="fas fa-circle fa-stack-2x"></i>
<i class="fa fa-graduation-cap fa-stack-1x fa-inverse"></i>
</span>
<span class="sr-only">Google Scholar</span>
</a>
</li>
</ul>
</div>
</div>
</section>
<section class="resume-section p-3 p-lg-5 d-flex flex-column" id="education">
<div class="my-auto">
<h2 class="mb-5">Education</h2>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">Johns Hopkins University</h3>
<div class="subheading mb-3">Master of Science</div>
<div class="subheading mb-3">Doctor of Philosophy</div>
<div>Electrical and Computer Engineering</div>
</div>
<div class="resume-date text-md-right">
<span class="text-primary">2016 - 2021</span>
</div>
</div>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">Tsinghua University</h3>
<div class="subheading mb-3">Bachelor Degree</div>
<div>Electronic Engineering</div>
<div>Economics and Management (Second Degree)</div>
</div>
<div class="resume-date text-md-right">
<span class="text-primary">2012 - 2016</span>
</div>
</div>
</div>
</section>
<section class="resume-section p-3 p-lg-5 d-flex flex-column" id="publications">
<div class="my-auto" id="projects-content">
<h2 class="mb-5">Publications</h2>
<p>This section contains part of projects that I have participated.
Visit my <a href="https://scholar.google.com/citations?user=btkEZXIAAAAJ&hl=en">Google Scholar</a> for a full list of papers </p>
</p>
<h3 class="mb-3">DiNTS: Differentiable Neural Network Topology Search for 3D Medical Image Segmentation. (CVPR 2021 oral)</h3>
<div class="resume-item d-flex flex-column flex-md-row mb-3">
<div class="resume-content " style="width:350px;!important;">
<img src="/img/dints.png" style="max-width:300px;padding: 5px"/>
</div>
<div class="resume-date">
<p> A differentiable neural archtecture search method for 3D medical image segmentation. It contains a new search space
and a novel multi-path relaxation scheme for differentiable search.
[<a href="https://github.com/Project-MONAI/MONAI/blob/dev/monai/networks/nets/dints.py">code</a>]
[<a href="https://arxiv.org/abs/2103.15954">paper</a>].
</p>
</div>
</div>
<h3 class="mb-3">TransMorph: Transformer for unsupervised medical image registration. (submitted to Medical Image Analysis)</h3>
<div class="resume-item d-flex flex-column flex-md-row mb-3">
<div class="resume-content " style="width:350px;!important;">
<img src="/img/transformer.png" style="max-width:300px;padding: 5px"/>
</div>
<div class="resume-date">
<p> A state-of-the-art unsupervised 3D medical image registration package using swin transformer.
[<a href="https://github.com/junyuchen245/TransMorph_Transformer_for_Medical_Image_Registration">code</a>]
[<a href="https://arxiv.org/abs/2111.10480">paper</a>].
</p>
<p>
An ealier conference version "ViT-V-Net: Vision Transformer for Unsupervised Volumetric Medical Image Registration", MIDL 2021, is available
[<a href="https://github.com/junyuchen245/ViT-V-Net_for_3D_Image_Registration_Pytorch">code</a>]
[<a href="https://arxiv.org/abs/2104.06468">paper</a>].
</p>
</div>
</div>
<h3 class="mb-3">Self domain adapted network. (MICCAI 2020 oral)</h3>
<div class="resume-item d-flex flex-column flex-md-row mb-3">
<div class="resume-content " style="width:350px;!important;">
<img src="/img/tda.png" style="max-width:300px;padding: 5px"/>
</div>
<div class="resume-date">
<p> A test-time self domain adaptation method is proposed. It uses auto-encoders' reconstruction loss as a source-target alignment measurement.
A set of adaptors are trained and used for domain adaptation in test-time.
[<a href="https://github.com/heyufan1995/self-domain-adapted-network">code</a>]
[<a href="https://arxiv.org/pdf/2007.03162.pdf">paper</a>].
</p>
<p>
The journal version "Autoencoder based self-supervised test-time adaptation for medical image analysis", Medical Image Analysis 2021, is available
[<a href="https://www.sciencedirect.com/science/article/pii/S1361841521001821?casa_token=8YIoRKvtqEQAAAAA:psP4vq0j2C9cnMymG490Or4o67bOLH6Muqs27eFFU8jxaego4OuUrhkQVKo0AuIglhK6k-1i">paper</a>].
</p>
</div>
</div>
<h3 class="mb-3">Validating uncertainty in medical image analysis. (ISBI 2020 & SPIE2020)</h3>
<div class="resume-item d-flex flex-column flex-md-row mb-3">
<div class="resume-content " style="width:350px;!important;">
<img src="/img/uncertainty.png" style="max-width:300px;padding: 5px"/>
</div>
<div class="resume-date">
<p> Two papers about estimating and utilizing the uncertainty in medical image translation.
[<a href="https://github.com/jcreinhold/uncertaintorch">code</a>]
[<a href="https://arxiv.org/pdf/2002.04639.pdf">ISBI paper</a>]
[<a href="https://arxiv.org/abs/2002.04626">SPIE paper</a>].
</p>
</div>
</div>
<h3 class="mb-3">Fully Convolutional Boundary Regression for Retina OCT Segmentation. (MICCAI 2019 oral)</h3>
<div class="resume-item d-flex flex-column flex-md-row mb-3">
<div class="resume-content " style="width:350px;!important;">
<img src="/img/fcn.png" style="max-width:300px;padding: 5px"/>
</div>
<div class="resume-date">
<p> A novel fully convolutional boundary regression method is proposed for efficient, end-to-end, and topology guaranteed
surface segmentation.
[<a href="https://github.com/heyufan1995/oct_preprocess">code</a>]
[<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6918831/pdf/nihms-1060816.pdf">paper</a>].
</p>
<p>
The journal version "Structured layer surface segmentation for retina OCT using fully convolutional regression networks", Medical Image Analysis 2020, is also available
[<a href="https://www.sciencedirect.com/science/article/pii/S1361841520302206?casa_token=cb0XrUIUZM8AAAAA:GLwG3bV5NC4ZJ671YEzhMv-dnIub9EQo6n4T4oMSPLmpn_aKDSuY9STJ4f5jicchbo0RWv_X">paper</a>].
</p>
</div>
</div>
</div>
</section>
<section class="resume-section p-3 p-lg-5 d-flex flex-column" id="experience">
<div class="my-auto" id="experience-content">
<h2 class="mb-5">Experience</h2>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">Research Assistant</h3>
<div class="subheading mb-3"></div>
<p> <a href="http://iacl.ece.jhu.edu/index.php?title=Main_Page">IACL</a>, Johns Hopkins University, Sep.2016 - Nov.2021</p>
<div class="subheading mb-3"></div>
<p> <a href="http://picsl.upenn.edu/">PICSL</a>, University of Pennsylvania, June 2015 - Sep 2015</p>
</div>
<div class="resume-date text-md-right">
<span class="text-primary"></span>
</div>
</div>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">Teaching Assistant</h3>
<div class="subheading mb-3"></div>
<p>Compressed Sensing, Spring 2018 & 2019, Johns Hopkins University</p>
<div class="subheading mb-3"></div>
<p>Random Signal Analysis, Fall 2017, Johns Hopkins University</p>
</div>
<div class="resume-date text-md-right">
<span class="text-primary"></span>
</div>
</div>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">Internship</h3>
<div class="subheading mb-3"><a href="https://www.nvidia.com/en-us/about-nvidia/">NVidia</a></div>
<p>AutoML in Medical Imaging, June 2020 - Sep 2020</p>
<div class="subheading mb-3"><a href="https://www.sensetime.com/en">SenseTime</a></div>
<p>Autonomous Driving, July 2018 - Sep 2018</p>
</div>
<div class="resume-date text-md-right">
<span class="text-primary"></span>
</div>
</div>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">Awards</h3>
<div><p>IEEE TMI Distinguished Reviewer</p></div>
<div><p>MICCAI 2020 Student Travel Award</p></div>
<div><p>MICCAI 2019 Young Scientist Award</p></div>
<div><p>MICCAI 2019 Student Travel Award</p></div>
<div><p>The 2018 George M.L. Sommerman Engineering Graduate Teaching Assistant Award</p></div>
<div><p>4th MICCAI Workshop on Ophthalmic Medical Image Analysis 2017, Best Oral Paper Award</p></div>
</div>
<div class="resume-date text-md-right">
<span class="text-primary"></span>
</div>
</div>
</div>
</section>
<section class="resume-section p-3 p-lg-5 d-flex flex-column" id="miscellaneous">
<div class="my-auto" id="misc-content">
<h2 class="mb-5">Miscellaneous</h2>
<div class="resume-item d-flex flex-column flex-md-row mb-5">
<div class="resume-content mr-auto">
<h3 class="mb-0">My lovely dog <a href="https://dota2.fandom.com/wiki/Kunkka">Kunkka</a></h3>
<div class="resume-content " style="width:500px;!important;">
<img src="/img/kunkka/IMG_3262.JPG" style="max-width:500px;padding: 5px"/>
<img src="/img/kunkka/IMG_3263.JPG" style="max-width:500px;padding: 5px"/>
<img src="/img/kunkka/IMG_4186.JPG" style="max-width:500px;padding: 5px"/>
<img src="/img/kunkka/IMG_4188.JPG" style="max-width:500px;padding: 5px"/>
<img src="/img/kunkka/IMG_5149.jpg" style="max-width:500px;padding: 5px"/>
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