<center> <h1> <font><font><font color="#af0000"><b><font color="#990000">PCR and multiplex PCR guide</font> </b> </font> </font> </font></h1> </center> <center> <hr /> <font><font><font color="#0000af">Table below lists the parameters influencing the PCR reaction and indicates some PCR and multiplex PCR applications. Clicking on an item in the table, will take you to a detailed page, describing that particular issue.</font> </font> </font> <p>  </p> <table> <tbody> <tr> <td> <p> <font color="#02594b"><b><font>Topics for PCR optimization</font> </b> </font></p> </td> </tr> <tr> <td> <p> <b><font>0. </font> </b> <b><font>Standards</font> </b> <font>: examples of multiplex reactions used in all experiments</font></p> </td> </tr> <tr> <td> <p> <font><b>1</b> </font></p> </td> <td> <p> <b><font>Generalities</font> </b> <br /> <font>Components, PCR cycle, vials</font></p> </td> <td> <p> <font><b>9</b> </font></p> </td> <td> <p> <b><font>Annealing time and temperature</font> </b> <br /> <b> </b></p> </td> </tr> <tr> <td> <p> <font><b>2</b> </font></p> </td> <td> <p> <b><font>Choosing PCR primers</font> </b> <br /> <font>How to design the primers</font></p> </td> <td> <p> <font><b>10</b> </font></p> </td> <td> <p> <b><font>Extension time and temperature</font> </b> <br /> <b> </b></p> </td> </tr> <tr> <td> <p> <font><b>3</b> </font></p> </td> <td> <p> <b><font>Reaction volumes</font> </b> <br /> <font>Do they influence the results?</font></p> </td> <td> <p> <font><b>11</b> </font></p> </td> <td> <p> <b><font>DNA template concentration</font> </b> </p> </td> </tr> <tr> <td> <p> <font><b>4</b> </font></p> </td> <td> <p> <b><font>Number of PCR products</font> </b> <br /> <font>Multiplexing. How ?</font></p> </td> <td> <p> <font><b>12</b> </font></p> </td> <td> <p> <b><font>Taq polymerase(s)</font> </b> <br /> <font>Comparisons and concentration</font></p> </td> </tr> <tr> <td> <p> <font><b>5</b> </font></p> </td> <td> <p> <b><font>Primer amount</font> </b> <br /> <font>How much primer?</font></p> </td> <td> <p> <font><b>13</b> </font></p> </td> <td> <p> <b><font>dNTP concentration</font> </b> <br /> <font>Interaction with magnesium</font></p> </td> </tr> <tr> <td> <p> <font><b>6</b> </font></p> </td> <td> <p> <b><font>PCR buffers</font> </b> <br /> <font>Comparisons and concentration</font></p> </td> <td> <p> <font><b>14</b> </font></p> </td> <td> <p> <b><font>MgCl2 concentration</font> </b> <br /> <font>Interaction with dNTP and salt (PCR buffer)</font></p> </td> </tr> <tr> <td> <p> <font><b>7</b> </font></p> </td> <td> <p> <b><font>Salt (KCl) concentration</font> </b> <br /> <font>Essential optimization factor</font></p> </td> <td> <p> <font><b>15</b> </font></p> </td> <td> <p> <b><font>Gel electrophoresis</font> </b> <br /> <font>Agarose and polyacrylamide (PAA)</font></p> </td> </tr> <tr> <td> <p> <font><b>8</b> </font></p> </td> <td> <p> <b><font>Designing PCR programs</font> </b> <font><font><b> </b><br /> Customize them for your purpose</font> </font></p> </td> <td> <p> <font><b>16</b> </font></p> </td> <td> <p> <b><font>Adjuvants in PCR</font> </b> <font><font><b> </b><br /> DMSO, glycerol and BSA</font> </font></p> </td> </tr> <tr> <td> <p> <font color="#065748"><b><font>Some applications of PCR and multiplex PCR</font> </b> </font></p> </td> </tr> <tr> <td> <p> <font><b>A</b> </font></p> </td> <td> <p> <font><b>Microdeletion screening</b> </font></p> </td> <td> <p> <font><b>D</b> </font></p> </td> <td> <p> <font><b>PCR labeling</b> </font></p> </td> </tr> <tr> <td> <p> <font><b>B</b> </font></p> </td> <td> <p> <font><b>LOH</b> </font></p> </td> <td> <p> <font><b>E</b> </font></p> </td> <td> <p> <font><b>InterAlu-PCR</b> </font></p> </td> </tr> <tr> <td> <p> <font><b>C</b> </font></p> </td> <td> <p> <font><b>Quantitative multiplex PCundefined</b> </font></p> </td> <td> <p> <font><b>F</b> </font></p> </td> <td> <p> <font><b>Degenerative priming PCR</b> </font></p> </td> </tr> </tbody> </table> </center>