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Ionospheric delays compensation is a mandatory step for precise absolute and relative positioning of Low Earth Orbit Satellites (LEO) by GPS measurements. The most frequently used ionosphere model for real-time GPS-based navigation in LEO is an isotropic model proposed by Lear, which uses the Vertical Total Electron Content (VTEC) above the receiver and a mapping function for TEC evaluation along a given ray path. Based on significant assessed results available for ground-based GPS receivers, we propose the use of a different model relying on the thin shell assumption and a bilinear horizontal variation of the VTEC as a function of latitude and longitude in the shell. It is expected that this model is capable of better describing horizontal gradients in the ionosphere, thus improving ionospheric delay estimation, especially in intense ionospheric conditions. This model is referred to as Linear Thin Shell (LTS). LTS performance in estimating undifferenced and double-differenced ionospheric delays is checked by comparing measured and predicted delays computed using flight data from the GRACE mission. Results show that the LTS always outperforms the isotropic model, especially in case of high solar activity. Moreover, the LTS model provides a higher performance uniformity over a wide range of ionospheric delays, thus ensuring good performance in different conditions. The results obtained demonstrate that the LTS model improves the ionosphere delays estimation accuracy by 20 and 40% for undifferenced and double-differenced delays, respectively. This suggests the LTS model can effectively contribute to improving precision in LEO positioning applications. © 2018, Springer-Verlag GmbH Germany, part of Springer Nature