Many networked systems such as electric networks, the brain, and social networks of opinion dynamics are known to obey conservation laws. Examples of this phenomenon include the Kirchoff laws in electric networks and opinion consensus in social networks. Conservation laws in networked systems may be modeled as balance equations of the form $X = B^{*} Y$, where the sparsity pattern of $B^{*}$ captures the connectivity of the network, and $Y, X \in \mathbb{R}^p$ are vectors of "potentials" and "injected flows" at the nodes respectively. The node potentials $Y$ cause flows across edges and the flows $X$ injected at the nodes are extraneous to the network dynamics. In several practical systems, the network structure is often unknown and needs to be estimated from data. Towards this, one has access to samples of the node potentials $Y$, but only the statistics of the node injections $X$. Motivated by this important problem, we study the estimation of the sparsity structure of the matrix $B^{*}$ from $n$ samples of $Y$ under the assumption that the node injections $X$ follow a Gaussian distribution with a known covariance $Σ_X$. We propose a new $\ell_{1}$-regularized maximum likelihood estimator for this problem in the high-dimensional regime where the size of the network $p$ is larger than sample size $n$. We show that this optimization problem is convex in the objective and admits a unique solution. Under a new mutual incoherence condition, we establish sufficient conditions on the triple $(n,p,d)$ for which exact sparsity recovery of $B^{*}$ is possible with high probability; $d$ is the degree of the graph. We also establish guarantees for the recovery of $B^{*}$ in the element-wise maximum, Frobenius, and operator norms. Finally, we complement these theoretical results with experimental validation of the performance of the proposed estimator on synthetic and real-world data.