Conditional Statements

Hey everyone,

n00b question here.

I have everything working and the only thing I need working is my conditional statements so that I can work with IE8 and the css3 Media queries for bootstrap support.

Can anyone point me in the right direction on how to reference these? Do I have to do it from my functions.php and enque it?

Thanks in advance.

<!--[if lt IE 9]><script src="js/jquery-1.10.2.min.js"></script><![endif]-->
  <!--[if gte IE 9]><!--><script src="js/jquery-2.0.3.min.js"></script><!--<![endif]-->
  <!--[if lt IE 9]>
    <link rel="stylesheet" href="css/ie8.css">
    <script src="js/html5shiv.js"></script>
    <script src="js/respond.min.js"></script>
  <![endif]-->
  <!--[if IE 9]>
  <link rel="stylesheet" href="css/ie9.css">
 <![endif]-->