State estimation in water distribution networks (WDN), the problem of estimating all unknown network heads and flows given select measurements, is challenging due to the nonconvexity of hydraulic models and significant uncertainty from demands, network parameters, and measurements. To this end, probabilistic modeling for state estimation (PSE) in WDNs is proposed. Regardless of uncertainty's statistical distributions, the PSE shows that the covariance matrix of unknown system states (unmeasured heads and flows) can be linearly expressed by the covariance matrix of uncertainty from measurement noise, network parameters, and demand at arbitrary operating pointsafter linearizing the nonlinear hydraulic models. Rather than computing point-based estimates for unknown states, the proposed PSE approach (i) yields variances of individual unknown states, (ii) amounts to solving a highly scalable linear systems of equations, (iii) is also useful for uncertainty quantification, extended period simulations, or confidence limit analysis, and (iv) includes the modeling of various types of valves and measurement scenarios in water networks. Thorough case studies demonstrate the effectiveness and scalability of the proposed approach.