558 lines
No EOL
20 KiB
HTML
558 lines
No EOL
20 KiB
HTML
<!DOCTYPE html>
|
|
|
|
|
|
|
|
|
|
<html lang="en" >
|
|
<head >
|
|
<meta charset="UTF-8">
|
|
<meta http-equiv="X-UA-Compatible" content="IE=edge">
|
|
|
|
<!-- Mobile properties -->
|
|
<meta name="HandheldFriendly" content="True">
|
|
<meta name="MobileOptimized" content="320">
|
|
<meta name="viewport" content="width=device-width, initial-scale=1.0">
|
|
|
|
|
|
<!-- Stylesheets -->
|
|
|
|
<link href="/research/bionlp/static/django_uswds/uswds/css/uswds.css" rel="stylesheet" />
|
|
|
|
|
|
|
|
<title>
|
|
Zhiyong Lu Publications - NIH
|
|
</title>
|
|
|
|
|
|
|
|
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/uswds.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/header.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/footer.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/form.css">
|
|
|
|
<!-- Labs template -->
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/atoms.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/docsum.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/media.css">
|
|
|
|
<!-- Additional template -->
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/journals.molecules.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/custom.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/journals.journal-page.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/iconic-glyphs.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/featherlight.min.css">
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/styles.css">
|
|
<!--[if lt IE 9]>
|
|
<link rel="stylesheet" href="/research/bionlp/static/main/css/iconic-glyphs-legacy.css">
|
|
<![endif]-->
|
|
|
|
<!-- Some JS -->
|
|
<script src="/research/bionlp/static/main/js/jquery.js"></script>
|
|
<script src="/research/bionlp/static/main/js/modernizr.js"></script>
|
|
<script src="/research/bionlp/static/main/js/featherlight.min.js"></script>
|
|
<script src="/research/bionlp/static/main/js/custom.js"></script>
|
|
|
|
|
|
|
|
|
|
</head>
|
|
<body >
|
|
|
|
|
|
<div>
|
|
<a class="skipnav" href="#maincontent">
|
|
Skip to main page content
|
|
</a>
|
|
<header class="ncbi-page-header" role="banner">
|
|
<div class="prefix">
|
|
<span class="nih" title="National Institutes of Health">
|
|
<a href="https://www.nih.gov/" title="To NIH homepage">
|
|
<img src="/research/bionlp/static/base/images/nih-logo-header.svg" alt="NIH">
|
|
</a>
|
|
</span>
|
|
<span class="nlm">
|
|
<a href="https://www.nlm.nih.gov/" title="To NLM homepage">U.S. National Library of Medicine</a>
|
|
</span>
|
|
</div>
|
|
|
|
<div class="ncbi">
|
|
<!-- <abbr class="abbr">
|
|
<a href="https://www.ncbi.nlm.nih.gov/" title="To NCBI homepage">NCBI</a>
|
|
</abbr>
|
|
<span class="name">
|
|
<a href="https://www.ncbi.nlm.nih.gov/" accesskey="1" title="To NCBI homepage">National Center for Biotechnology Information</a>
|
|
</span> -->
|
|
<!-- <abbr class="abbr">
|
|
<a href="https://www.nlm.nih.gov/research/index.html" title="To DIR homepage">DIR</a>
|
|
</abbr> -->
|
|
<span class="name">
|
|
<a href="https://www.nlm.nih.gov/research/index.html" accesskey="1" title="To DIR homepage">Division of Intramural Research</a>
|
|
</span>
|
|
<div class="right">
|
|
|
|
<a id="in" href="/research/bionlp/accounts/login/?next=/research/bionlp/">Log in</a>
|
|
|
|
</div>
|
|
</div>
|
|
</header>
|
|
|
|
<!--app-specific header, something that might want to take full width of screen -->
|
|
|
|
<a class="skipnav" href="#maincontent">
|
|
Skip to main page content
|
|
</a>
|
|
|
|
<div class="breadcrumbs-container menu">
|
|
<div class="usa-grid-full">
|
|
<ul class="topnav" accesskey="4">
|
|
<li class="current">
|
|
<a href="/research/bionlp/" title="Home">
|
|
Home
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/Zhiyong-Lu" title="Zhiyong Lu">
|
|
Zhiyong Lu
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/News" title="Media">
|
|
Media
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/Team" title="Team">
|
|
Team
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/Research" title="Research">
|
|
Research
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/Publications/" title="Publications">
|
|
Publications
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/Tools/" title="Tools">
|
|
Tools
|
|
</a>
|
|
</li>
|
|
<li>
|
|
<a href="/research/bionlp/APIs/" title="Tools">
|
|
Web APIs
|
|
</a>
|
|
</li>
|
|
<li class="separator"></li>
|
|
<li>
|
|
<a href="/research/bionlp/Data/" title="Data">
|
|
AI Datasets
|
|
</a>
|
|
</li>
|
|
<li>
|
|
<a href="/research/bionlp/Visiting-us" title="Visiting us">
|
|
Visiting us
|
|
</a>
|
|
</li>
|
|
|
|
<li class="icon">
|
|
<a href="#">☰</a>
|
|
</li>
|
|
</ul>
|
|
</div>
|
|
</div>
|
|
|
|
|
|
<!-- asign css class in case app will need to alter styles of this div -->
|
|
<div id="maincontent" class="usa-grid-full ncbi-base-page-container">
|
|
<div class="labs-pagecontent">
|
|
<div class="usa-width-one-whole">
|
|
<main class="usa-grid journals-lists">
|
|
|
|
|
|
|
|
<h3>Selected Publications (<a href="https://scholar.google.com/citations?hl=en&user=lJAkLo8AAAAJ&view_op=list_works"
|
|
target="_blank">click here to see all</a>)</h3>
|
|
<main class="usa-width-one-whole journal-container">
|
|
<div>
|
|
<div class="issue labs-docsums labs-content-box wrapall">
|
|
|
|
<h4>Medical Journals</h4>
|
|
<ul class="dot-list" style="font-size:16px;">
|
|
|
|
|
|
<li>
|
|
Wang et al.,
|
|
|
|
<a href='https://arxiv.org/abs/2405.16205'>GeneAgent: Self-verification language agent for gene set analysis using domain databases</a>
|
|
|
|
<em>Nature Methods</em>,
|
|
to appear.
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Chen et al.,
|
|
|
|
<a href='https://arxiv.org/abs/2305.16326'>Benchmarking LLMs for biomedical NLP applications and recommendations</a>
|
|
|
|
<em>Nature Communications</em>,
|
|
In Press
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Jin et al.,
|
|
|
|
<a href='https://www.nature.com/articles/s41467-024-53081-z'>Matching patients to clinical trials with large language models.</a>
|
|
|
|
<em>Nature Communications</em>,
|
|
2024
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Allot et al.,
|
|
|
|
<a href='https://doi.org/10.1038/s41588-023-01414-x'>Tracking genetic variants in the biomedical literature using LitVar 2.0.</a>
|
|
|
|
<em>Nature Genetics</em>,
|
|
2023
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Lin et al.,
|
|
|
|
<a href='https://www.nature.com/articles/s41467-023-41974-4'>Improving model fairness in image-based computer-aided diagnosis</a>
|
|
|
|
<em>Nature Communications</em>,
|
|
2023
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Tram et al.,
|
|
|
|
<a href='https://www.nature.com/articles/s43587-022-00171-6'>Detecting visually significant cataract using retinal photograph-based deep learning.</a>
|
|
|
|
<em>Nature Aging</em>,
|
|
2022
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Diaz-Pinto et al.,
|
|
|
|
<a href='https://www.nature.com/articles/s42256-021-00427-7'>Predicting myocardial infarction through retinal scans and minimal personal information</a>
|
|
|
|
<em>Nat Mach Intell</em>,
|
|
2022
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Chen et al.,
|
|
|
|
<a href='https://pubmed.ncbi.nlm.nih.gov/32157233/'>LitCovid: Keep up with the latest coronavirus research</a>
|
|
|
|
<em>Nature</em>,
|
|
2020
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Peng et al.,
|
|
|
|
<a href='https://www.nature.com/articles/s41746-020-00317-z'>Predicting risk of late age-related macular degeneration using deep learning</a>
|
|
|
|
<em>npj Digital Medicine</em>,
|
|
2020
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Leaman et al.,
|
|
|
|
<a href='https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3000716'>Ten tips for a text-mining-ready article: How to improve discoverability and interpretability</a>
|
|
|
|
<em>PLoS Biology</em>,
|
|
2020
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Peng et al.,
|
|
|
|
<a href='https://linkinghub.elsevier.com/retrieve/pii/S0161-6420(18)32185-7'>DeepSeeNet: A Deep Learning Model for Automated Classification of Patient-based Age-related Macular Degeneration Severity from Color Fundus Photographs</a>
|
|
|
|
<em>Ophthalmology</em>,
|
|
2019
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Fiorini et al.,
|
|
|
|
<a href='https://www.nature.com/articles/nbt.4267'>How user intelligence is improving PubMed.</a>
|
|
|
|
<em>Nature Biotechnology</em>,
|
|
2018
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Fiorini et al.,
|
|
|
|
<a href='http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.2005343'>Best Match: new relevance search for PubMed.</a>
|
|
|
|
<em>PLoS Biology</em>,
|
|
2018
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Fiorini et al.,
|
|
|
|
<a href='https://pubmed.ncbi.nlm.nih.gov/29083299/'>Towards PubMed 2.0</a>
|
|
|
|
<em>Elife</em>,
|
|
2017
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Wei et al.,
|
|
|
|
<a href='http://nar.oxfordjournals.org/content/41/W1/W518.long'>PubTator: a web-based text mining tool for assisting biocuration.</a>
|
|
|
|
<em>Nucleic Acids Res.</em>,
|
|
2013
|
|
</li>
|
|
|
|
|
|
</ul>
|
|
|
|
<h4>CS Conferences</h4>
|
|
<ul class="dot-list" style="font-size:16px;">
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Khandekar et al.,
|
|
|
|
<a href='https://arxiv.org/abs/2406.12036'>Evaluating Large Language Models for Medical Calculations</a>
|
|
|
|
<em>NeurIPs (Oral)</em>,
|
|
2024
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Xiong et al.,
|
|
|
|
<a href='https://aclanthology.org/2024.findings-acl.372.pdf'>Benchmarking Retrieval-Augmented Generation for Medicine</a>
|
|
|
|
<em>ACL (Findings)</em>,
|
|
2024
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Jin et al.,
|
|
|
|
<a href='https://dl.acm.org/doi/abs/10.1145/3539618.3592005'>LADER: Log-Augmented DEnse Retrieval for Biomedical Literature Search</a>
|
|
|
|
<em>SIGIR</em>,
|
|
2023
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Yan et al.,
|
|
|
|
<a href='https://openaccess.thecvf.com/content_CVPR_2019/html/Yan_Holistic_and_Comprehensive_Annotation_of_Clinically_Significant_Findings_on_Diverse_CVPR_2019_paper.html'>Holistic and comprehensive annotation of clinically significant findings on diverse CT images: learning from radiology reports and label ontology.</a>
|
|
|
|
<em>CVPR</em>,
|
|
2019
|
|
</li>
|
|
|
|
|
|
|
|
<li>
|
|
Mohan et al.,
|
|
|
|
<a href='https://arxiv.org/abs/1802.10078'>A Fast Deep Learning Model for Textual Relevance in Biomedical Information Retrieval</a>
|
|
|
|
<em>WWW</em>,
|
|
2018
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Wang et al.,
|
|
|
|
<a href='https://openaccess.thecvf.com/content_cvpr_2018/html/Wang_TieNet_Text-Image_Embedding_CVPR_2018_paper.html'>Tienet: Text-image embedding network for common thorax disease classification and reporting in chest x-rays</a>
|
|
|
|
<em>CVPR</em>,
|
|
2018
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Shen et al.,
|
|
|
|
<a href='https://www.kdd.org/kdd2018/files/project-showcase/KDD18_paper_1815.pdf'>SetSearch+: Entity-Set-Aware Search and Mining for Scientific Literature.</a>
|
|
|
|
<em>KDD</em>,
|
|
2018
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
<li>
|
|
Wang et al.,
|
|
|
|
<a href='http://www.cs.jhu.edu/%7Elelu/publication/CVPR2017_ChestX-Ray8.pdf'>ChestX-ray8: Hospital-scale Chest X-ray Database and Benchmarks on Weakly Supervised Classification and Localization of Common Thorax Diseases</a>
|
|
|
|
<em>CVPR</em>,
|
|
2017
|
|
</li>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
</ul>
|
|
|
|
</div>
|
|
</div>
|
|
</main>
|
|
|
|
</main>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
<footer class="usa-footer usa-footer-big ncbi-footer" role="contentinfo">
|
|
<div class="usa-grid">
|
|
<div class="usa-row">
|
|
<div class="usa-width-one-half">
|
|
<div>
|
|
<div class="org-section">
|
|
<a href="https://www.hhs.gov/"><img class="usa-footer-logo-img hhs-logo"
|
|
src="/research/bionlp/static/base/images/dhhs-logo-white.svg"
|
|
alt="U.S. Department of Health & Human Services">
|
|
<span class="usa-sr-only">Department of Health and Human Services</span></a>
|
|
<a href="https://www.nih.gov/"><img class="usa-footer-logo-img nih-logo"
|
|
src="/research/bionlp/static/base/images/nih-logo-white.svg"
|
|
alt="National Institutes of Health">
|
|
<span class="usa-sr-only">National Institutes of Health</span></a>
|
|
<a href="https://www.nlm.nih.gov/"><img class="usa-footer-logo-img nlm-logo"
|
|
src="/research/bionlp/static/base/images/nlm-logo-letters-white.svg"
|
|
alt="National Library of Medicine">
|
|
<span class="usa-sr-only">National Library of Medicine</span></a>
|
|
<a href="https://www.usa.gov/"><img class="usa-footer-logo-img usagov-logo"
|
|
src="/research/bionlp/static/base/images/usagov-logo-white.svg"
|
|
alt="USA.gov"/>
|
|
<span class="usa-sr-only">USA.gov</span></a>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
|
|
<div class="usa-width-one-half">
|
|
<div>
|
|
<p class="about-links">
|
|
<a href="https://www.nlm.nih.gov/research/index.html">About DIR</a>
|
|
<a href="https://www.nlm.nih.gov/web_policies.html">Web Policies</a></p>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
</div>
|
|
</footer>
|
|
</div>
|
|
|
|
|
|
|
|
<!-- JavaScript -->
|
|
|
|
<script src="/research/bionlp/static/django_uswds/uswds/js/uswds.js"></script>
|
|
|
|
|
|
|
|
|
|
<script type="text/javascript" src="/research/bionlp/static/base/header.js"></script>
|
|
|
|
</body>
|
|
</html> |