Not sure how can help much with no info on the other file but reading the above wouldn't be particularly difficult.
Read the two rows of coordinates separately of course as they are one less entry per line than the other data and it'll be convenient to have them as variables besides. Then, the remainder can be read in "one swell foop" as an array and the first column separated off into a year vector leaving the rest as a 2D array.
You'll have to delve into what the netCDF file content is to decipher out how to read it and then look into the issues of where there are commensurate data points or whether will have to interpolate to a set of common coordinates, etc., ...
There's a set of Matlab tools for NetCDF files; look under the heading for Data and File Import functions for the topics.
