IEEE 802.11be (Wi-Fi 7) introduces a new concept called multi-link operation (MLO), which allows multiple Wi-Fi interfaces in different bands (2.4, 5, and 6 GHz) to work together to increase network throughput, reduce latency, and improve spectrum reuse efficiency in dense overlapping networks. To make the most of MLO, this paper proposes a new data-driven resource allocation algorithm for the 11be network with the aid of an access point (AP) controller. To maximize network throughput, a network topology optimization problem is formulated for 11be network, which is solved by exploiting the totally unimodular property of the bipartite graph formed by the connection between AP and station (STA) in Wi-Fi networks. Subsequently, a proportional fairness algorithm is applied for radio link allocation, network throughput optimization considering the channel condition, and the fairness of the multi-link device (MLD) data rate. The performance of the proposed algorithm on two main MLO implementations - multi-link multi-radio (MLMR) with simultaneous transmission and reception (STR), and the interplay between multiple nodes employing them are evaluated through cross-layer (PHY-MAC) data rate simulation with PHY abstraction.