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689 lines
29 KiB
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BIOL-4540: Sequence Analysis
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<meta property="og:title" content="BIOL-4540: Sequence Analysis">
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<meta property="og:description" content="This course covers the theory and practice of biological sequence analysis, including algorithms for pairwise sequence alignment, multiple sequence alignment, phylogenetic analysis, and database searching. Concepts covered include homology, sequence similarity, parsimony, mechanisms and metrics of molecular evolution, biological data bases, database search algorithms (BLAST), and statistical significance. Selected topics include hidden Markov models, bootstrap analysis and gene finding. Modern sequence analysis software will be provided. Laptop computers and programming knowledge are required. Meets jointly with BIOL 6410 .">
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<div id="course-info-container">
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<h1 id="name">
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Sequence Analysis
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</h1>
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<h2 id="code">
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BIOL-4540
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</h2>
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<p>
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This course covers the theory and practice of biological sequence analysis, including algorithms for pairwise sequence alignment, multiple sequence alignment, phylogenetic analysis, and database searching. Concepts covered include homology, sequence similarity, parsimony, mechanisms and metrics of molecular evolution, biological data bases, database search algorithms (BLAST), and statistical significance. Selected topics include hidden Markov models, bootstrap analysis and gene finding. Modern sequence analysis software will be provided. Laptop computers and programming knowledge are required. Meets jointly with BIOL 6410 .
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</p>
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<div id="cattrs-container">
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<span id="credits-pill" class="attr-pill">
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4 credits
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</span>
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</div>
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<div id="prereq-container" class="rel-info-container">
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<div id="prereq-title" class="rel-info-title">
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Prereqs:
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</div>
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<div id="prereq-classes" class="rel-info-courses">
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<a class="course-pill" href="MATH-1020">MATH-1020 Calculus II</a>
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<div class="pr-and">and</div>
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<div class="pr-or-con">
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<div class="pr-or-title">
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one of:
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</div>
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<div class="pr-or">
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<a class="course-pill" href="BIOL-4620">BIOL-4620 Molecular Biology</a>
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<a class="course-pill" href="CSCI-1200">CSCI-1200 Data Structures</a>
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</div>
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Past Term Data
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Offered
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Offered as Cross-Listing Only
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Simple View
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Detailed View
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<table id="years-table">
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<thead>
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<tr>
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<th></th>
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<th class="spring season-label">Spring</th>
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<th class="summer season-label" colspan="2">Summer</th>
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<th class="fall season-label">Fall</th>
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</tr>
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<tr>
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<th colspan="2"></th>
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<th class="summer2 midsum-label">(Session 1)</th>
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<th class="summer3 midsum-label">(Session 2)</th>
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<th></th>
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</tr>
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</thead>
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<tbody>
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<tr>
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<th class="year">2023</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=202309&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Keith Fraser</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 10/20
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2022</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=202209&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Keith Fraser</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 15/20
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2021</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=202109&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Keith Fraser</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 18/20
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2020</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=202009&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Keith Fraser</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 20/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2019</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201909&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Keith Fraser</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 11/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2018</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201809&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 4/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2017</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201709&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 4/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2016</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201609&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 11/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2015</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201509&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 9/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2014</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201409&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Randall Vincent Collura</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 14/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2013</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201309&subj_in=BIOL&crse_in=4540&schd_in=">Sequence Analysis (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Randall Vincent Collura</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 5/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2012</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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|
<span class="term-course-info">
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|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201209&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Christopher Bystroff</li>
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</ul>
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|
<span class="course-capacity">
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Seats Taken: 10/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2011</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201109&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 10/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2010</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=201009&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Chunyu Wang</li>
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 9/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2009</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall offered">
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<div class="view-container detail-view-container">
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<span class="term-course-info">
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<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200909&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
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</span>
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<ul class="prof-list">
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<li>Chunyu Wang</li>
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<li>Christopher Bystroff</li>
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</ul>
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<span class="course-capacity">
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Seats Taken: 9/15
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</span>
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</div>
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</td>
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</tr>
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<tr>
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<th class="year">2008</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
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</td>
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<td class="term fall not-offered">
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</td>
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</tr>
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<tr>
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<th class="year">2007</th>
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<td class="term spring not-offered">
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</td>
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<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200709&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Michael Zuker</li>
|
|
<li>Christopher Bystroff</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 10/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2006</th>
|
|
<td class="term spring not-offered">
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200609&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Christopher Bystroff</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 15/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2005</th>
|
|
<td class="term spring not-offered">
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200509&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>John C. Salerno</li>
|
|
<li>Christopher Bystroff</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 11/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2004</th>
|
|
<td class="term spring not-offered">
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200409&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>John C. Salerno</li>
|
|
<li>Christopher Bystroff</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 16/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2003</th>
|
|
<td class="term spring not-offered">
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200309&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Christopher Bystroff</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 15/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2002</th>
|
|
<td class="term spring not-offered">
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200209&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Christopher Bystroff</li>
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 14/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2001</th>
|
|
<td class="term spring offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200101&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics II (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Susan M Smith</li>
|
|
<li>Christopher Bystroff</li>
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 0/20
|
|
</span>
|
|
</div>
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200109&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Christopher Bystroff</li>
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 8/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">2000</th>
|
|
<td class="term spring offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200001&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics II (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Susan M Smith</li>
|
|
<li>Christopher Bystroff</li>
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 1/20
|
|
</span>
|
|
</div>
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=200009&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>Christopher Bystroff</li>
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 8/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">1999</th>
|
|
<td class="term spring offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=199901&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics II (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 7/20
|
|
</span>
|
|
</div>
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=199909&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 6/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
<tr>
|
|
<th class="year">1998</th>
|
|
<td class="term spring unscheduled">
|
|
</td>
|
|
<td colspan="2" class="term summer not-offered">
|
|
</td>
|
|
<td class="term fall offered">
|
|
<div class="view-container detail-view-container">
|
|
<span class="term-course-info">
|
|
<a href="https://sis.rpi.edu/rss/bwckctlg.p_disp_listcrse?term_in=199809&subj_in=BIOL&crse_in=4540&schd_in=">Bioinformatics I (4c)</a>
|
|
</span>
|
|
<ul class="prof-list">
|
|
<li>John C. Salerno</li>
|
|
</ul>
|
|
<span class="course-capacity">
|
|
Seats Taken: 11/37
|
|
</span>
|
|
</div>
|
|
</td>
|
|
</tr>
|
|
</tbody>
|
|
</table>
|
|
</div>
|
|
</div>
|
|
</body>
|
|
</html>
|