Research stipend plus Room and Board grant - how to account for on student's tax return?

Our son, who we claim as a dependent, received a 1099MISC form from his college for a $6100 stipend for  summer research he did. And on his 1098-T the college added $3500 in Box 5(scholarship or grants) that they provided from a scholarship fund(trust)for room and board for him during the summer.  During the school year he earned about $1300 for tutoring for which he received a W-2.  I am confused how he should declare these amounts on his tax return.