Difference between revisions of "Description of Genomics course"

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<p><font size="+0"><u><span style="font-size: 16pt; line-height: 107%">Course Description</span></u><span style="font-size: 16pt; line-height: 107%"> for BME324, Genomics</span></font></p>
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<p><u><span style="font-size:16pt">Course Description</span></u><span style="font-size:16pt"> for BME324, Genomics</span></p>
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<p style="margin: 0cm 0cm 8pt"><span style="font-size: 11pt; line-height: 107%"><font size="+0">by [[Jong Bhak]] (jongbhak@gmail.com)</font></span><span><br />
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<font size="+0"><font size="2"><br />
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<p><span style="font-size:11pt">by [[Jong Bhak]] (jongbhak@gmail.com)</span><br />
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</font></font></span><span style="font-size: 11pt; line-height: 107%"><font size="+0">Genomics is the new name for genetics that encompasses not only traditional<br />
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<br />
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genetics research and technology topics but also includes information technology, systems biology, high throughput biodata generation, processing, and analyses. </font></span></p>
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<span style="font-size:11pt">Genomics is the new name for genetics that encompasses not only traditional<br />
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<p style="margin: 0cm 0cm 8pt"><span style="font-size: 11pt; line-height: 107%"><font size="+0">It covers areas such as sequencing, DNA synthesis, and genome writing and editing.<br />
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genetics research and technology topics but also includes information technology, systems biology, high throughput biodata generation, processing, and analyses. </span></p>
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Genomics course requires the students to have been exposed to general<br  />
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biology, data processing, statistics, mathematics, and computer science.<br  />
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<p><span style="font-size:11pt">It covers areas such as sequencing, DNA synthesis, and genome writing and editing.<br />
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The genomic research can be largely divided into experimental and informatic<br  />
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Genomics course requires the students to have been exposed to general<br />
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parts. The course will not cover hands-on experiments due to space limitation.<br />
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biology, data processing, statistics, mathematics, and computer science.<br />
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Students who took this subject will be able to understand life in terms of information processing </font></span><span style="font-size: 11pt; line-height: 107%"><font size="+0">with much knowledge on how to use technologies to solve problems such as curing cancer and aging.<br />
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The genomic research can be largely divided into experimental and informatic<br />
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</font></span></p>
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parts. The course will not cover hands-on experiments due to space limitation.<br />
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<p style="margin: 0cm 0cm 8pt"><span style="font-size: 11pt; line-height: 107%"><font size="+0">The topics of genomics include:<br  />
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Students who took this subject will be able to understand life in terms of information processing </span><span style="font-size:11pt">with much knowledge on how to use technologies to solve problems such as curing cancer and aging.</span></p>
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<br  />
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1. What is life, information, and the universe?&nbsp; (as information processing objects)<br  />
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<p><span style="font-size:11pt">The topics of genomics include:<br />
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2. What is Omics? (as an approach of understanding life)<br  />
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<br />
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3. What is 'Big data' in biology?<br  />
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1. What is life, information, and the universe?&nbsp; (as information processing objects)<br />
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4. How molecules and cells propagate in the universe?<br  />
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2. What is Omics? (as an approach of understanding life)<br />
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5. Genome reading and writing</font></span></p>
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3. What is &#39;Big data&#39; in biology?<br />
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<p style="margin: 0cm 0cm 8pt"><span style="font-size: 11pt; line-height: 107%"><font size="+0">6. Curing Cancer using genomics (Oncomics)</font></span></p>
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4. How molecules and cells propagate in the universe?<br />
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<p style="margin: 0cm 0cm 8pt"><span style="font-size: 11pt; line-height: 107%"><font size="+0">7. Curing Aging using genomics (Geromics)</font></span></p>
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5. Genome reading and writing</span></p>
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<div style="margin: 0cm 0cm 8pt"><span style="font-size: 11pt; line-height: 107%">&nbsp;</span></div>
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<p>
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<p><span style="font-size:11pt">6. Curing Cancer using genomics (Oncomics)</span></p>
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<p><span style="font-size:11pt">7. Curing Aging using genomics (Geromics)</span></p>
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<div style="margin: 0cm 0cm 8pt"><span style="font-size:11pt">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<p>&nbsp;</p>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">Text</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">Category</font></span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: red"><font size="2">Book</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">Text</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">Category</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">Title</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:red">Book</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: red"><font size="2">[[Introduction to Genomics]]</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">Title</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">Author</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:red">[[Introduction to Genomics]]</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: red"><font size="2">Arthur M. Lesk,</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">Author</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">ISBN</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:red">Arthur M. Lesk,</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">ISBN</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">Remarks</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">&nbsp;</font></span><span style="color: red"><font size="2">Oxford University Press</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <td style="border-top: rgb(0,0,0) 0px; height: 15.75pt; border-right: black 1pt solid; width: 109.95pt; border-bottom: rgb(0,0,0) 0px; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: rgb(0,0,0) 0px; padding-right: 1.4pt; background-color: transparent; border-image: none" colspan="2" width="183">
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</td>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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<tr>
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<td style="height: 15.75pt; width: 106.05pt; background-color: transparent">
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        <tr style="height: 7.8pt">
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">Remarks</span></div>
−
            <td style="border-top: rgb(0,0,0) 0px; height: 7.8pt; border-right: rgb(0,0,0) 0px; width: 106.05pt; border-bottom: black 1pt solid; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: black 1pt solid; padding-right: 1.4pt; background-color: transparent" width="177">
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</td>
−
            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">Course Reserves Designation</font></span></div>
+
<td colspan="5" style="height: 15.75pt; width: 235.3pt; background-color: transparent">
−
            </td>
+
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">&nbsp;</span><span style="color:red">Oxford University Press</span></div>
−
            <td style="border-top: rgb(0,0,0) 0px; height: 7.8pt; border-right: rgb(0,0,0) 0px; width: 235.3pt; border-bottom: black 1pt solid; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: rgb(0,0,0) 0px; padding-right: 1.4pt; background-color: transparent; border-image: none" colspan="5" width="392">
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            <div style="margin: 0cm 0cm 8pt; line-height: normal; -ms-word-break: keep-all"><span style="color: black"><font size="2">&nbsp;</font></span></div>
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
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        <tr style="height: 15.75pt">
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">Course Reserves Designation</span></div>
−
            <td style="border-top: rgb(0,0,0) 0px; height: 15.75pt; border-right: rgb(0,0,0) 0px; width: 110.95pt; border-bottom: black 1pt solid; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: rgb(0,0,0) 0px; padding-right: 1.4pt; background-color: transparent; border-image: none" colspan="2" width="185">
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</td>
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            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">References</font></span></div>
+
<td colspan="5" style="height: 7.8pt; width: 235.3pt; background-color: transparent">
−
            </td>
+
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: normal"><span style="color:black">&nbsp;</span></div>
−
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</td>
−
    </tbody>
+
<td colspan="2" style="height: 7.8pt; width: 109.95pt; background-color: transparent">
 +
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
 +
</td>
 +
</tr>
 +
<tr>
 +
<td colspan="2" style="height: 15.75pt; width: 110.95pt; background-color: transparent">
 +
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">References</span></div>
 +
</td>
 +
</tr>
 +
</tbody>
 
</table>
 
</table>
−
</p>
+
 
−
<p style="margin: 0cm 0cm 8pt"><b><span style="font-size: 11pt; line-height: 107%; serif: ">The Atom of Evolution</span></b><span style="font-size: 11pt; line-height: 107%; serif: ">. <strong>&nbsp;</strong>Genomics &amp; Informatics, December <span style="color: red">2004</span>, 2(4):167-173.</span></p>
+
<p><strong><span style="font-size:11pt">The Atom of Evolution</span></strong><span style="font-size:11pt">. <strong>&nbsp;</strong>Genomics &amp; Informatics, December <span style="color:red">2004</span>, 2(4):167-173.</span></p>
−
<div style="margin: 0cm 0cm 8pt"><strong><span style="color: black"><font size="2">&nbsp;</font></span></strong></div>
+
 
−
<p style="margin: 0cm 0cm 8pt"><strong><span style="color: black"><font size="2">Genomic profile analysis of diffuse-type gastric cancers </font></span></strong></p>
+
<div style="margin: 0cm 0cm 8pt"><strong><span style="color:black">&nbsp;</span></strong></div>
−
<div style="margin: 0cm 0cm 8pt"><strong><i><span style="color: black"><font size="2">Genome Biology</font></span></i></strong><strong><span style="color: black"><font size="2">, </font></span></strong><strong><span style="color: red"><font size="2">2014</font></span></strong></div>
+
 
−
<div style="margin: 0cm 0cm 8pt"><strong><span style="font-weight: normal; color: black"><font size="2">&nbsp;</font></span></strong></div>
+
<p><strong><span style="color:black">Genomic profile analysis of diffuse-type gastric cancers </span></strong></p>
−
<p style="margin: 0cm 0cm 8pt"><strong><span style="color: black"><font size="2">Minke whale genome and aquatic adaptation in cetaceans. </font></span></strong></p>
+
 
−
<div style="margin: 0cm 0cm 12pt"><i><span style="serif: "><font size="2">Nature Genetics</font></span></i><span style="serif: "><font size="2">, </font><font size="2">&nbsp;</font><span style="color: red"><font size="2">2013</font></span><font size="2">. (24</font><sup><font size="2">th</font></sup><font size="2"> Nov 2013)</font></span></div>
+
<div style="margin: 0cm 0cm 8pt"><strong><em><span style="color:black">Genome Biology</span></em></strong><strong><span style="color:black">, </span></strong><strong><span style="color:red">2014</span></strong></div>
−
<div style="margin: 0cm 0cm 8pt"><strong><span style="font-weight: normal; color: black"><font size="2">&nbsp;</font></span></strong></div>
+
 
−
<p style="margin: 0cm 0cm 8pt"><strong><span style="color: black"><font size="2">Tiger genome and comparative analysis with lion and snow leopard genomes.</font></span></strong></p>
+
<div style="margin: 0cm 0cm 8pt"><strong><span style="color:black">&nbsp;</span></strong></div>
−
<div style="margin: 0cm 0cm 12pt"><i><span style="serif: "><font size="2">Nature Communications</font></span></i><span style="serif: "><font size="2">, </font><font size="2">&nbsp;</font><span style="color: red"><font size="2">2013</font></span><font size="2">. Sep. 17</font><sup><font size="2">th</font></sup><font size="2">. </font></span></div>
+
 
−
<div style="margin: 0cm 0cm 12pt"><span style="serif: "><font size="2">&nbsp;</font></span></div>
+
<p><strong><span style="color:black">Minke whale genome and aquatic adaptation in cetaceans. </span></strong></p>
−
<div style="vertical-align: baseline; background: white; margin: 4.5pt 0cm; line-height: 13.5pt"><b><font size="6"><span style="font-size: 11pt; color: black; serif: ">Whole transcriptome analyses of six thoroughbred horses before and after exercise using RNA-Seq</span></font></b></div>
+
 
−
<div style="vertical-align: baseline; background: white; margin: 4.5pt 0cm; line-height: 13.5pt"><b><font size="6"><i><span style="font-size: 11pt; background: white; color: black; serif: ">BMC Genomics</span></i><span style="font-size: 11pt; background: white; color: black; serif: ">. &nbsp;</span><span style="font-size: 11pt; background: white; color: red; serif: ">2012 Sep </span><span style="font-size: 11pt; background: white; color: black; serif: ">12;13:473. doi: 10.1186/1471-2164-13-473.</span></font></b></div>
+
<div style="margin: 0cm 0cm 12pt"><em>Nature Genetics</em>, &nbsp;<span style="color:red">2013</span>. (24<sup>th</sup> Nov 2013)</div>
−
<div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all">&nbsp;</div>
+
 
−
<div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all">[[Jong Bhak's Genomics Syllabus]]</div>
+
<div style="margin: 0cm 0cm 8pt"><strong><span style="color:black">&nbsp;</span></strong></div>
−
<div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all">&nbsp;</div>
+
 
−
<p>
+
<p><strong><span style="color:black">Tiger genome and comparative analysis with lion and snow leopard genomes.</span></strong></p>
−
<table border="0" style="border-collapse: collapse" cellspacing="0" cellpadding="0">
+
 
−
    <tbody>
+
<div style="margin: 0cm 0cm 12pt"><em>Nature Communications</em>, &nbsp;<span style="color:red">2013</span>. Sep. 17<sup>th</sup>.</div>
−
        <tr style="height: 12.75pt">
+
 
−
            <td style="border-top: rgb(0,0,0) 0px; height: 12.75pt; border-right: rgb(0,0,0) 0px; width: 120.75pt; border-bottom: black 1pt solid; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: rgb(0,0,0) 0px; padding-right: 1.4pt; background-color: transparent; border-image: none" width="201">
+
<div style="margin: 0cm 0cm 12pt">&nbsp;</div>
−
            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">Grading</font></span></div>
+
 
−
            </td>
+
<div style="vertical-align: baseline; background: white; margin: 4.5pt 0cm; line-height: 13.5pt"><strong><span style="color:black; font-size:11pt">Whole transcriptome analyses of six thoroughbred horses before and after exercise using RNA-Seq</span></strong></div>
−
            <td style="border-top: rgb(0,0,0) 0px; border-right: rgb(0,0,0) 0px; border-bottom: black 1pt solid; border-left: rgb(0,0,0) 0px; background-color: transparent; border-image: none" width="573">
+
 
−
            <div style="margin: 0cm 0cm 8pt"><font size="2">&nbsp;</font></div>
+
<div style="vertical-align: baseline; background: white; margin: 4.5pt 0cm; line-height: 13.5pt"><strong><em><span style="color:black; font-size:11pt">BMC Genomics</span></em><span style="color:black; font-size:11pt">. &nbsp;</span><span style="color:red; font-size:11pt">2012 Sep </span><span style="color:black; font-size:11pt">12;13:473. doi: 10.1186/1471-2164-13-473.</span></strong></div>
−
            </td>
+
 
−
        </tr>
+
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%">&nbsp;</div>
−
        <tr style="height: 55.85pt">
+
 
−
            <td style="border-top: rgb(0,0,0) 0px; height: 55.85pt; border-right: black 1pt solid; width: 505.5pt; border-bottom: black 1pt solid; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: black 1pt solid; padding-right: 1.4pt; background-color: transparent; border-image: none" colspan="2" width="843">
+
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="font-size:16px">[[Jong Bhak&#39;s Genomics Syllabus]]</span></div>
−
            <div style="margin: 0cm 0cm 8pt; line-height: 160%; text-indent: 5pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><font size="2">Research report writing and presentation (100%)</font></span></div>
+
 
−
            <p style="margin: 0cm 0cm 8pt; line-height: 160%; text-indent: 5pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><font size="2">Each week, before, class, students are asked to submit research reports on genomics topics.</font></span></p>
+
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%">&nbsp;</div>
−
            <p style="margin: 0cm 0cm 8pt; line-height: 160%; text-indent: 5pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><font size="2">The final grade will be given by the quality of research reports and presentations (in English)</font></span></p>
+
 
−
            <div style="margin: 0cm 0cm 8pt; line-height: 160%; text-indent: 5pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><font size="2">The important points of grading are:</font></span></div>
+
<p>&nbsp;</p>
−
            <p style="margin: 0cm 0cm 8pt 41pt; line-height: 160%; text-indent: -18pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><span><font size="2">1.</font><span style="font: 7pt &quot;Times New Roman&quot;; font-size-adjust: none; font-stretch: normal">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </span></span></span><span style="color: black; line-height: 160%; serif: "><font size="2">Being scientific in reasoning and presenting</font></span></p>
+
 
−
            <p style="margin: 0cm 0cm 8pt 41pt; line-height: 160%; text-indent: -18pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><span><font size="2">2.</font><span style="font: 7pt &quot;Times New Roman&quot;; font-size-adjust: none; font-stretch: normal">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </span></span></span><span style="color: black; line-height: 160%; serif: "><font size="2">Critical thinking level</font></span></p>
+
<table border="0" cellpadding="0" cellspacing="0" style="border-collapse:collapse">
−
            <p style="margin: 0cm 0cm 8pt 41pt; line-height: 160%; text-indent: -18pt; -ms-word-break: keep-all"><span style="color: red; line-height: 160%"><span><font size="2">3.</font><span style="font: 7pt &quot;Times New Roman&quot;; font-size-adjust: none; font-stretch: normal">&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </span></span></span><span style="color: black; line-height: 160%; serif: "><font size="2">Being independent in thinking</font></span></p>
+
<tbody>
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            </td>
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−
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<td style="height: 12.75pt; width: 120.75pt; background-color: transparent">
−
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<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">Grading</span></div>
−
            <td style="border-top: rgb(0,0,0) 0px; height: 12.75pt; border-right: rgb(0,0,0) 0px; width: 120.75pt; border-bottom: rgb(0,0,0) 0px; padding-bottom: 1.4pt; padding-top: 1.4pt; padding-left: 1.4pt; border-left: rgb(0,0,0) 0px; padding-right: 1.4pt; background-color: transparent; border-image: none" width="201">
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</td>
−
            <div style="margin: 0cm 0cm 8pt; line-height: 160%; -ms-word-break: keep-all"><span style="color: black; line-height: 160%"><font size="2">&nbsp;</font></span></div>
+
<td style="background-color: transparent">
−
            </td>
+
<div style="margin: 0cm 0cm 8pt">&nbsp;</div>
−
            <td style="border-top: rgb(0,0,0) 0px; border-right: rgb(0,0,0) 0px; border-bottom: rgb(0,0,0) 0px; padding-bottom: 0cm; padding-top: 0cm; padding-left: 0cm; border-left: rgb(0,0,0) 0px; padding-right: 0cm; background-color: transparent; border-image: none" width="573">
+
</td>
−
            <div style="margin: 0cm 0cm 8pt"><font size="2">&nbsp;</font></div>
+
</tr>
−
            </td>
+
<tr>
−
        </tr>
+
<td colspan="2" style="height: 55.85pt; width: 505.5pt; background-color: transparent">
−
    </tbody>
+
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%; text-indent: 5pt"><span style="color:red">Research report writing and presentation (100%)</span></div>
 +
 
 +
<p><span style="color:red">Each week, before, class, students are asked to submit research reports on genomics topics.</span></p>
 +
 
 +
<p><span style="color:red">The final grade will be given by the quality of research reports and presentations (in English)</span></p>
 +
 
 +
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%; text-indent: 5pt"><span style="color:red">The important points of grading are:</span></div>
 +
 
 +
<p><span style="color:red">1.&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </span><span style="color:black">Being scientific in reasoning and presenting</span></p>
 +
 
 +
<p><span style="color:red">2.&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </span><span style="color:black">Critical thinking level</span></p>
 +
 
 +
<p><span style="color:red">3.&nbsp;&nbsp;&nbsp;&nbsp;&nbsp; </span><span style="color:black">Being independent in thinking</span></p>
 +
</td>
 +
</tr>
 +
<tr>
 +
<td style="height: 12.75pt; width: 120.75pt; background-color: transparent">
 +
<div style="word-break: keep-all; margin: 0cm 0cm 8pt; line-height: 160%"><span style="color:black">&nbsp;</span></div>
 +
</td>
 +
<td style="background-color: transparent">
 +
<div style="margin: 0cm 0cm 8pt">&nbsp;</div>
 +
</td>
 +
</tr>
 +
</tbody>
 
</table>
 
</table>
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<div style="margin: 0cm 0cm 8pt"><font size="2">&nbsp;</font></div>
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<div style="margin: 0cm 0cm 8pt">&nbsp;</div>

Revision as of 16:20, 1 December 2015

Course Description for BME324, Genomics

by Jong Bhak (jongbhak@gmail.com)

Genomics is the new name for genetics that encompasses not only traditional
genetics research and technology topics but also includes information technology, systems biology, high throughput biodata generation, processing, and analyses.

It covers areas such as sequencing, DNA synthesis, and genome writing and editing.
Genomics course requires the students to have been exposed to general
biology, data processing, statistics, mathematics, and computer science.
The genomic research can be largely divided into experimental and informatic
parts. The course will not cover hands-on experiments due to space limitation.
Students who took this subject will be able to understand life in terms of information processing with much knowledge on how to use technologies to solve problems such as curing cancer and aging.

The topics of genomics include:

1. What is life, information, and the universe?  (as information processing objects)
2. What is Omics? (as an approach of understanding life)
3. What is 'Big data' in biology?
4. How molecules and cells propagate in the universe?
5. Genome reading and writing

6. Curing Cancer using genomics (Oncomics)

7. Curing Aging using genomics (Geromics)

 

 

 
 
 
 
 
 
 
 
Text
Category
Book
 
Title
 
Author
Arthur M. Lesk,
 
ISBN
 
 
Remarks
 Oxford University Press
 
Course Reserves Designation
 
 
References

The Atom of Evolution.  Genomics & Informatics, December 2004, 2(4):167-173.

 

Genomic profile analysis of diffuse-type gastric cancers

Genome Biology, 2014
 

Minke whale genome and aquatic adaptation in cetaceans.

Nature Genetics,  2013. (24th Nov 2013)
 

Tiger genome and comparative analysis with lion and snow leopard genomes.

Nature Communications,  2013. Sep. 17th.
 
Whole transcriptome analyses of six thoroughbred horses before and after exercise using RNA-Seq
BMC Genomics.  2012 Sep 12;13:473. doi: 10.1186/1471-2164-13-473.
 
 

 

Grading
 
Research report writing and presentation (100%)

Each week, before, class, students are asked to submit research reports on genomics topics.

The final grade will be given by the quality of research reports and presentations (in English)

The important points of grading are:

1.      Being scientific in reasoning and presenting

2.      Critical thinking level

3.      Being independent in thinking
 
 
 
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