Methanol (CH3OH) is the second most abundant organic compound in the Earth's atmosphere after methane. In this study, we present the first long-term time series of methanol total, lower tropospheric and upper tropospheric–lower stratospheric partial columns derived from the analysis of high resolution Fourier transform infrared solar spectra recorded at the Jungfraujoch station (46.5° N, 3580 m a.s.l.). The retrieval of methanol is very challenging due to strong absorptions of ozone in the region of the selected υ8 band of CH3OH. Two wide spectral intervals have been defined and adjusted in order to maximise the information content. Methanol does not exhibit a significant trend over the 1995–2012 time period, but a strong seasonal modulation characterised by maximum values and variability in June–July, minimum columns in winter and a peak-to-peak amplitude of 130%. Analysis and comparisons with in situ measurements carried out at the Jungfraujoch and ACE-FTS (Atmospheric Chemistry Experiment-Fourier transform spectrometer) occultations have been performed. The total and lower tropospheric columns are also compared with IMAGESv2 model simulations. There is no systematic bias between the observations and IMAGESv2 but the model underestimates the peak-to-peak amplitude of the seasonal modulations.