Disclosed herein are methods for preparing modified starches, and uses thereof, and relates to the technical field of starch preparation; modifying a gelatinized starch suspension with β-amylase; after inactivating the β-amylase, further modifying with a branching enzyme, after inactivating the branching enzyme, further modifying with pullulanase, after inactivating the pullulanase, precipitating a resulting enzymatic hydrolysate with an alcohol to obtain precipitates; and drying the precipitates to obtain the modified starch. The methods disclosed a starch is modified remarkably, herein substantially increase the number of linear chains with a degree of polymerization DP6-11 in the starch chains and, thus, significantly increase the content of resistant starch in the modified starch—thereby facilitating the use in foods and medicaments.