Rowling, who had the first of her seven Harry Potter novels published in 1997, dominated the chart for the "most borrowed children's books," taking up the top five places in 2000-01 and 2001-02.
But the series dropped out of the top 10 entirely last year, according to a study conducted by Public Lending Right (PLR), which is part of the British Library and monitors data from libraries as well as collecting payments for authors.
Still high in the top 10 are Jacqueline Wilson with her Tracy Beaker books, Stephanie Meyer for the Twilight series and Francesca Simon for Horrid Henry.
Some old classics books have returned to the list thanks to movie adaptations. Maurice Sendak's Where the Wild Things Are, published in 1963, returned to the children's top 10 in 2010-11 and remained in the list last year.
We're Going On A Bear Hunt, by Michael Rosen, published in 1989, was also in the top.
Jim Parker, head of PLR, said: "It is nice that some old names are still knocking around, but things change and fashions change.
"Parents have a lot to do with this and there is a different generation of parents now."