This is in response to a question asked by MatthewK on a great article written by WebSite Magazine. I will be talking more about this subject in my next few blog posts.
If you structure your site using the Siloh method, your home page would only have links to the top tier pages of each category page. So your home page should only link to the Category 1, 2, 3, 4, etc. pages. If you use a left Nav on the home page it can be very confusing for the user and it will also pass the link juice to every page, making them all equal.
Our site uses a top Nav and left Nav as you dive deeper into the site and we make sure the top nav only links to the top tier pages. The left nav is used to get to lower level pages so it’s easy for the user to find what they are looking for and you are also passing the link juice to the right pages.
I hope this makes sense. If you have any questions please feel free to ask.
I don’t work for Website magazine I just came across the article and wanted to respond to your question.