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<a class="navbar-brand" href="index.html">Jessica Lavery</a>
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portfolio
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<li>
<a href="portfolio_onc.html">Current: Oncology</a>
</li>
<li>
<a href="portfolio_obgyn.html">Past Experience: Obstetrics & Gynecology</a>
</li>
<li>
<a href="portfolio_service.html">Service</a>
</li>
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<li>
<a href="files/lavery_pagedown_resume.html">CV</a>
</li>
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blog
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<li>
<a href="blog_grad_school.html">Deciding on a Doctorate in Biostatistics</a>
</li>
<li>
<a href="blog_timetrackr.html">{timetrackR}</a>
</li>
<li>
<a href="blog_cws_social_media_webinar.html">CWS Social Media Webinar</a>
</li>
</ul>
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<li>
<a href="hobbies.html">hobbies</a>
</li>
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<a href="https://www.mskcc.org/profile/jessica-lavery">
<span class="fa fa-envelope fa-lg"></span>
</a>
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<h1 class="title toc-ignore">Oncology Portfolio</h1>
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<p><em>Since 2017, I have worked as a Research Biostatistician in the
Department of Epidemiology and Biostatistics at Memorial Sloan Kettering
Cancer Center. Below are a few highlights from research programs that I
have been a part of, as well as related publications and
presentations.</em></p>
<div id="aacr-project-genie-bpc" class="section level3">
<h3>AACR Project GENIE BPC</h3>
<p>American Association for Cancer Research (AACR) project <a
href="https://www.mskcc.org/departments/epidemiology-biostatistics/biostatistics/project-genie-bpc-genomics-evidence-neoplasia-information-exchange-biopharma-collaborative">GENIE
BPC</a> (Genomics Evidence Neoplasia Information Exchange Biopharma
Collaborative) is a cross-institution collaboration between MSKCC, Dana
Farber Cancer Institute and Vanderbilt-Ingram Cancer Center with
biopharmaceutical partners working towards linking cancer genomic
sequencing data with clinical treatment and outcomes data (<a
href="https://www.aacr.org/Newsroom/Pages/News-Release-Detail.aspx?ItemID=1354">press
release</a>). As a part of the Statistical Coordinating Center, I am
involved in writing standard operating procedures for quality assurance,
maintaining a quality assurance dashboard, deriving variables that will
be publicly released with the data and performing statistical
analyses.</p>
<p><font size="4"><i> Related Publications </font></i></p>
<ul>
<li>Lavery JA, Brown S, Curry MA, et al. <a
href="https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btac796/6909009">A
Data Processing Pipeline for the AACR Project GENIE Biopharma
Collaborative Data with the {genieBPC} R Package</a>. Bioinformatics
(2023)
<ul>
<li>{genieBPC} is available on <a
href="https://cran.r-project.org/web/packages/genieBPC/index.html">CRAN</a>
and <a href="https://genie-bpc.github.io/genieBPC/">GitHub</a>, and was
included on the RStudio blog August 2022 list of <a
href="https://rviews.rstudio.com/2022/09/26/august-2022-top-40-new-cran-packages">Top
40 New CRAN Packages</a>, out of approximately 200 packages released to
CRAN that month.</li>
</ul></li>
<li>Choudhury NJ, Lavery JA, Brown S, et al. <a
href="https://aacrjournals.org/clincancerres/article/29/17/3418/728542">The
GENIE BPC NSCLC Cohort: A Real-World Repository Integrating Standardized
Clinical and Genomic Data for 1,846 Patients with Non-Small Cell Lung
Cancer</a>. Clinical Cancer Research (2023)</li>
<li>Lavery JA, Lepisto E, Brown S, et al. <a
href="https://ascopubs.org/doi/full/10.1200/CCI.21.00105">A Scalable
Quality Assurance Process for Curating Oncology Electronic Health
Records: The Project GENIE Biopharma Collaborative Approach</a>. JCO
Clinical Cancer Informatics (2022)<br />
</li>
<li>Brown S, Lavery JA, Shen R, et al. <a
href="https://jamanetwork.com/journals/jamaoncology/article-abstract/2785693">Implications
of Selection Bias Due to Delayed Study Entry in Clinical Genomic
Studies</a>. JAMA Oncology (2021)<br />
</li>
<li>Kehl KL, Riely GJ, Lepisto EM, et al. <a
href="https://jamanetwork.com/journals/jamanetworkopen/article-abstract/2782339">Correlation
Between Surrogate End Points and Overall Survival in a
Multi-institutional Clinicogenomic Cohort of Patients With Non–Small
Cell Lung or Colorectal Cancer</a>. JAMA Network Open (2021)</li>
</ul>
<p><font size="4"><i> Related Presentations </font></i></p>
<ul>
<li>Workshop on Genomic Data Curation and Access: Analyzing Clinical and
Genomic Oncological Data with the {genieBPC} R Package at the Moffitt
Cancer Center Statistical Practice in Cancer Conference (February
2024)</li>
<li>Defining Real-World Recurrence in the AACR Project GENIE BPC Data.
Presented at the American Association for Cancer Research Annual Meeting
(April 2021; <a
href="https://www.aacrmeetingnews.org/news/minisymposium-explores-real-world-examples-of-project-genie-applications/">AACR
Meeting News article</a>), the Memorial Sloan Kettering Lung Cancer
Oncology Group Seminar Series (May 2021), and the Memorial Sloan
Kettering Hospital Research Forum (November 2021)<br />
</li>
<li><a
href="https://ww2.amstat.org/meetings/wsds/2020/onlineprogram/AbstractDetails.cfm?AbstractID=309549">A
Statistician’s Role in a Quality Assurance of a Multi-Institution
Electronic Health Record Curation Project.</a> Contributed oral
presentation, Women in Statistics and Data Science (2020)</li>
<li><a
href="https://ascopubs.org/doi/abs/10.1200/JCO.2020.38.15_suppl.9622">Progression-free
survival estimates in non-small cell lung cancer when RECIST is
unavailable: Project GENIE’s integration of genomic, therapeutic and
phenomic data.</a> Contributed poster presentation, American Society of
Clinical Oncology (ASCO) Annual Meeting (2020)</li>
</ul>
</div>
<div id="exercise-oncology" class="section level3">
<h3>Exercise Oncology</h3>
<p>In collaboration with the <a
href="https://www.mskcc.org/research-areas/topics/exercise-oncology">Exercise
Oncology</a> service at MSK, I have been a part of a number of protocols
and research projects investigating the role of exercise in preventing
cancer and improving survival among people with cancer. Select
publications are highlighted below:</p>
<ul>
<li>Lavery JA, Boutros PC, Knight D, Tammela T, Moskowitz CS, Jones LW.
<a href="https://pubmed.ncbi.nlm.nih.gov/38181796/">Association of
exercise with pan-cancer incidence and overall survival</a>. Cancer Cell
(2024)</li>
<li>Lavery JA, Boutros PC, Scott JM, Tammela T, Moskowitz CS, Jones LW.
<a href="https://ascopubs.org/doi/abs/10.1200/JCO.23.00058">Pan-Cancer
Analysis of Postdiagnosis Exercise and Mortality</a>. Journal of
Clinical Oncology (2023)</li>
<li>Michalski M, Rowed K, Lavery JA, et al <a
href="https://www.sciencedirect.com/science/article/pii/S2666087322002289?via%3Dihub">Validity
of Estimated Cardiorespiratory Fitness in Patients With Primary Breast
Cancer</a> Journal of the American College of Cardiology: CardioOncology
(2022)</li>
<li>Bliss, JW, Lavery, JA, Underwood, WP, Chun, SS, Fickera, GA, Lee,
CP, Corcoran, S, Maloy, MA, Polubriaginof, FC, Kelly, DW and Scott, JM
<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9135110/">Impact
of Exercise on Susceptibility and Severity of COVID-19 in Patients with
Cancer: A Retrospective Study</a> Cancer Epidemiology, Biomarkers &
Prevention (2022)</li>
</ul>
</div>
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