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<div class="header">
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<h1 style="text-align: center">NLM DIR Seminar Schedule</h1>
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<h4>UPCOMING SEMINARS</h4>
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<ul class="font-sans-3xs sem-list">
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<li>
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<a href="/seminar/5213/detail/">March 11, 2025 <b>Sofya Garushyants</b></a><br>Tmn – bacterial anti-phage defense system
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</li>
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<li>
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<a href="/seminar/5214/detail/">March 18, 2025 <b>MG Hirsch</b></a><br>TBD
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</li>
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<li>
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<a href="/seminar/5215/detail/">March 25, 2025 <b>Yifan Yang</b></a><br>TBD
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</li>
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<li>
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<a href="/seminar/5216/detail/">April 1, 2025 <b>Roman Kogay</b></a><br>TBD
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</li>
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<li>
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<a href="/seminar/5217/detail/">April 8, 2025 <b>Jaya Srivastava</b></a><br>TBD
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</li>
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</ul>
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<h4>RECENT SEMINARS</h4>
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<!-- change object_list to recent_sem -->
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<li>
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<a href="/seminar/5212/detail/">March 4, 2025 <b>Sanasar Babajanyan</b></a><br>Evolution of antivirus defense in prokaryotes depending on the environmental virus load
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</li>
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<!-- change object_list to recent_sem -->
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<li>
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<a href="/seminar/5211/detail/">Feb. 25, 2025 <b>Zhizheng Wang</b></a><br>GeneAgent: Self-verification Language Agent for Gene Set Analysis using Domain Databases
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</li>
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<!-- change object_list to recent_sem -->
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<li>
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<a href="/seminar/5210/detail/">Feb. 18, 2025 <b>Samuel Lee</b></a><br>Efficient predictions of alternative protein conformations by AlphaFold2-based sequence association
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</li>
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<!-- change object_list to recent_sem -->
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<li>
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<a href="/seminar/5209/detail/">Feb. 11, 2025 <b>Po-Ting Lai</b></a><br>Enhancing Biomedical Relation Extraction with Directionality
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</li>
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<!-- change object_list to recent_sem -->
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<li>
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||
<a href="/seminar/5208/detail/">Feb. 4, 2025 <b>Victor Tobiasson</b></a><br>On the dominance of Asgard contributions to Eukaryogenesis
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</li>
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</ul>
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</div>
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<h2>Scheduled Seminars on May 30, 2023</h2>
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onclick="location.href='/404/'">Reschedule
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<div class="tablet:grid-col-4"> Speaker</div>
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<div class="tablet:grid-col-8"><strong>Bayarbaatar Amgalan</strong></div>
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<div class="tablet:grid-col-4"> PI/Lab</div>
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<div class="tablet:grid-col-8"><strong></strong></div>
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</div>
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<div class="grid-row padding-2 border-gray-10 border-bottom-1px">
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<div class="tablet:grid-col-4"> Time</div>
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<div class="tablet:grid-col-8"><strong>11 a.m.</strong></div>
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</div>
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<div class="grid-row padding-2 border-gray-10 border-bottom-1px">
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<div class="tablet:grid-col-4"> Presentation Title</div>
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<div class="tablet:grid-col-8"><strong> Exploring tumor-normal cross-talk with TranNet </strong></div>
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</div>
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<div class="grid-row padding-2 border-gray-10 border-bottom-1px">
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<div class="tablet:grid-col-4"> Location</div>
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<div class="tablet:grid-col-8"><a href=" https://teams.microsoft.com/l/meetup-join/19%3ameeting_NjFlN2E0MzQtZjJlNS00ZDNjLTgyZWQtOTk5ZDY3OTQ5MjYx%40thread.v2/0?context=%7b%22Tid%22%3a%2214b77578-9773-42d5-8507-251ca2dc2b06%22%2c%22Oid%22%3a%22ae960916-9330-4a80-a2e7-7a94d95d1da9%22%7d">Virtual</a> </div>
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</div>
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<div class="grid-row">
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<p class="padding-left-2">Contact <a href="mailto:NLMDIRSeminarScheduling@mail.nih.gov">NLMDIRSeminarScheduling@mail.nih.gov</a>
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with questions about this seminar.</p>
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<div class="grid-col padding-x-2 padding-bottom-2" id="textalign">
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||
<h4> Abstract: </h4>
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<p><p>There is a growing awareness that tumor-adjacent normal tissues used as control samples in cancer studies do not represent fully healthy tissues. Instead, they are intermediates between healthy tissues and tumors. The factors that contribute to the deviation of such control samples from healthy state include exposure to the tumor-promoting factors, tumor-related immune response, and other aspects of tumor microenvironment. Characterizing the relation between gene expression of tumor-adjacent control samples and tumors is fundamental for understanding roles of microenvironment in tumor initiation and progression, as well as for identification of diagnostic and prognostic biomarkers for cancers. </p>
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<p>To address the demand, we developed and validated TranNet, a computational approach that utilizes gene expression in matched control and tumor samples to study the relation between their gene expression profiles. TranNet infers a sparse weighted bipartite graph from gene expression profiles of matched control samples to tumors.<br>The results allow us to identify markers (potential regulators) of this transition. To our knowledge, TranNet is the first computational method to infer such regulation.</p>
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<p>We applied TranNet to the data of several cancer types and their matched control samples from The Cancer Genome Atlas (TCGA). <br>Many markers identified by TranNet are genes associated with regulation by the tumor microenvironment as they are enriched in G-protein coupled receptor signaling, cell-to-cell communication, immune processes, and cell adhesion. Correspondingly, targets of inferred markers are enriched in pathways related to tissue remodelling (including the epithelial-mesenchymal Transition (EMT)), immune response, and cell proliferation. <br>This implies that the markers are markers and potential stromal facilitators of tumor progression. Our results provide new insights for the relationships between tumor adjacent control sample, tumor and the tumor environment. Moreover, the set of markers identified by TranNet will provide a valuable resource for future investigations.</p></p>
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</div>
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</div>
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</div>
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<h4>ARCHIVES</h4>
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</div>
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</div>
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<div class="grid-col padding-right-3">
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<ul class="font-sans-3xs sem-list">
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<li><a href="/archive_seminars/2024/"><b>2024</b> Seminars</a></li>
|
||
<li><a href="/archive_seminars/2023/"><b>2023</b> Seminars</a></li>
|
||
<li><a href="/archive_seminars/2022/"><b>2022</b> Seminars</a></li>
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||
<li><a href="/archive_seminars/2021/"><b>2021</b> Seminars</a></li>
|
||
<li><a href="/archive_seminars/2020/"><b>2020</b> Seminars</a></li>
|
||
<li><a href="/archive_seminars/2019/"><b>2019</b> Seminars</a></li>
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||
<li><a href="/archive_seminars/2018/"><b>2018</b> Seminars</a></li>
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<li><a href="/archive_seminars/2017/"><b>2017</b> Seminars</a></li>
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<li><a href="/archive_seminars/2016/"><b>2016</b> Seminars</a></li>
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<li><a href="/archive_seminars/2015/"><b>2015</b> Seminars</a></li>
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<li><a href="/archive_seminars/2014/"><b>2014</b> Seminars</a></li>
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<li><a href="/archive_seminars/2013/"><b>2013</b> Seminars</a></li>
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<li><a href="/archive_seminars/2012/"><b>2012</b> Seminars</a></li>
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<li><a href="/archive_seminars/2011/"><b>2011</b> Seminars</a></li>
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<li><a href="/archive_seminars/2010/"><b>2010</b> Seminars</a></li>
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<li><a href="/archive_seminars/2009/"><b>2009</b> Seminars</a></li>
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