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Feat/bhcdatastaging april release #1446

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Apr 30, 2020
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Feat/bhcdatastaging april release #1446

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66cb0e5
update services
mfshao Apr 27, 2020
720cebf
update workspace
mfshao Apr 27, 2020
a28c3d5
add sower
mfshao Apr 27, 2020
bb85b47
add export buttons
mfshao Apr 27, 2020
1af8bcd
add pub page
mfshao Apr 27, 2020
029da0e
downgrade sheepdog
mfshao Apr 30, 2020
f2350bd
remove pub page for now
mfshao Apr 30, 2020
e7ffc71
Merge branch 'master' into feat/bhcdatastaging-april-release
mfshao Apr 30, 2020
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146 changes: 146 additions & 0 deletions dataprep.braincommons.org/dashboard/Public/publication-page/doi-3432.3424.234/index.css
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<head>
<meta http-equiv='Content-Type' content='text/html; charset=UTF-8'>
<link rel='stylesheet' type='text/css' href='index.css' />
<link rel='icon' href='img/favicon.ico' type='image/x-icon' />
<title>Publications</title>
</head>

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<div class='top-bar__header'>
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<h1>Cross-platform Comparison of Highly Sensitive Immunoassay Technologies for Cytokine Markers:
Platform Performance in Post-traumatic Stress Disorder and Parkinson's Disease</h1>
<h2>
<span style="color: blue;">Publications [link to publication]</span>: Cross-platform Comparison of
Highly Sensitive Immunoassay Technologies for Cytokine Markers: Platform Performance in
Post-traumatic Stress Disorder and Parkinson's Disease
</h2>
<h2>
<span style="color: red; font-style: italic;">Cytokine X. </span><span style="color: red;">Volume X,
Issue X p.XX-XX, date 2020; DOI link (link is external)</span>
</h2>
<p style="text-align: justify; line-height: 1.5;"> <span style="font-weight: bold;">Abstract:</span>
There is mounting evidence of systemic inflammation in post-traumatic stress disorder (PTSD) and
Parkinson&rsquo;s disease (PD), yet inconsistency and a lack of replicability in findings of
putative biological markers have delayed progress in this space. Variability in performance between
platforms may contribute to the lack of consensus in the biomarker literature, as has been seen for
a number of psychiatric disorders, including PTSD. Thus, there is a need for high-performance,
scalable, and validated platforms for the discovery and development of biomarkers of inflammation
for use in drug development and as clinical diagnostics. To identify the best platform for use in
future biomarker discovery efforts, we conducted a comprehensive cross-platform and cross-assay
evaluation across five leading platform technologies. This initial assessment focused on four
cytokines that have been implicated PTSD &ndash; interleukin (IL)-1&beta;, IL-6, tumor necrosis
factor (TNF)-&alpha;, and interferon (IFN)-&gamma;
<span id="dots">...</span><span id="more">. To assess platform performance and understand likely
measurements in individuals with brain disorders, serum and plasma samples were obtained from
individuals with PTSD (n=13) or Parkinson&rsquo;s Disease (PD, n=14) as well as healthy controls
(n=5). We compared platform performance across a number of common analytic parameters, including
assay precision, sensitivity, frequency of endogenous analyte detection, correlation between
platforms, and parallelism in measurement of cytokines using a serial dilution series. The
single molecule array (Simoa&trade;) ultra-sensitive platform (Quanterix), MESO V-Plex
(Mesoscale Discovery), and Luminex xMAP&reg; (Myriad) were conducted by their respective
vendors, while Luminex&reg; and Quantikine&reg; high-sensitivity ELISA assays were evaluated by
R&amp;D System&rsquo;s Biomarker Testing Services. The assay with the highest sensitivity in
detecting endogenous analytes across all analytes and clinical populations (i.e. the highest
frequency of endogenous analytes detection (FEAD)), was the Simoa&trade; platform. In contrast,
more variable performance was observed for MESO V-plex, R&amp;D Luminex&reg; and
Quantikine&reg;, while Myriad&rsquo;s Luminex xMAP&reg; exhibited low FEAD across all analytes
and samples.
Simoa&trade; also demonstrated high precision in detecting endogenous cytokines, as reflected in
&lt;20 percent coefficient of variance (%CV) across replicate runs for samples from the healthy
controls, PTSD patients, and PD patients. In contrast, MESO V-Plex, R&amp;D Luminex&reg; and
Quantikine&reg; had variable performance in terms of precision across cytokines. Note that
Myriad Luminex xMAP&reg; could not be included in precision estimates because the vendor did not
run samples in duplicate. For cross-platform performance comparisons, the highest cross-platform
correlations were observed for IL-6 such that all platforms &ndash; except for Myriad&rsquo;s
Luminex xMAP&reg; &ndash; had strong correlations with one another in measurements of IL-6 (r
range = 0.59 &ndash; 0.86). For the other cytokines, there was low to no correlation across
platforms, such that reported measurements of IL-1&beta;, TNF-&alpha;, and IFN-&gamma; varied
across assays. Taken together, these findings provide novel evidence that the choice of
immunoassay could greatly impact reported cytokine findings. The current study provides crucial
information on the variability in performance between platforms and across immunoassays that may
help inform the selection of assay in future research studies.
Further, the results emphasize the need for performing comparative evaluations of immunoassays
as new technologies emerge over time, particularly given the lack of reference standards for the
quantitative assessments of cytokines.</span>
<button onclick="readMore()" id="read-more-btn">Read more</button>
</p>
</div>
<div class='other-info'>
<h2 class="section-title">Data in the BRAIN Commons</h2>
<p>The dataset for this project is hosted in the BRAIN Commons, the cloud based platform for
computational discovery designed for the brain health community.</p>
<p>For more information about the BRAIN Commons, visit <a
href="https://www.braincommons.org">https://www.braincommons.org</a></p>
<h2 class="section-title">Instructions for Data Download</h2>
<div id="list-wrapper">
<ol>
<li>
<p>Go to <a
href="https://gen3testing.braincommons.org/files/bhcqa00144cb3b57-1fa7-4144-9f28-7db9f6759b08">this
link</a> to obtain the data file from BRAIN Commons.</p>
</li>
<li>
<p>If prompted, login with your credentials.</p>
</li>
<li>
<p>Click on the <span style="color:chocolate;">"Download"</span> button from the data file
page. Your download should start momentarily.</p>
</li>
</ol>
</div>
<h2 class="section-title">Acknowledgements and Funding</h2>
<p style="text-align: justify; line-height: 1.5;">Funding for the cross-platform comparison study came
from Cohen Veterans Bioscience and was conducted
under the umbrella of the RAPID-Dx (<a
href="https://www.cohenveteransbioscience.org/programs/our-programs/rapid-dx/">Research Alliance
for PTSD/TBI Innovation and Discovery
Diagnostics</a>) Program. The work was also supported, in part, by the Michael J. Fox Foundation
(MJFF).
Parkinson&rsquo;s disease biospecimens used in the analyses were obtained from the MJFF-sponsored
LRRK2 Cohort Consortium (LCC; <a href="http://www.michaeljfox.org/lcc">www.michaeljfox.org/lcc</a>),
which is coordinated and funded by the
Michael J. Fox Foundation for Parkinson&rsquo;s Research. </p>
<h2 class="section-title">About Cohen Veteran’s Bioscience</h2>
<p style="text-align: justify; line-height: 1.5;">Cohen Veterans Bioscience is a nonprofit 501(c)(3)
research organization dedicated to fast-tracking
the development of diagnostic tests and personalized therapeutics for the millions of veterans and
civilians who suffer the devastating effects of trauma-related and other brain disorders. <a
href="https://www.cohenveteransbioscience.org/">Learn More
at CohenVeteransBioscience.org</a></p>
</div>
</div>
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<div class="footer__logo-area">
<img class='footer__img' src='img/gen3.png' />
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