Daily PM2.5 samples were collected at an urban site in Beijing during four one-month periods in 2009–2010, with each period in a different season. Samples were subject to chemical analysis for various chemical components including major water-soluble ions, organic carbon (OC) and water-soluble organic carbon (WSOC), element carbon (EC), trace elements, anhydrosugar levoglucosan (LG), and mannosan (MN). Three sets of source profiles of PM2.5 were first identified through positive matrix factorization (PMF) analysis using single or combined biomass tracers — non-sea salt potassium (nss-K+), LG, and a combination of nss-K+ and LG. The six major source factors of PM2.5 included secondary inorganic aerosol, industrial pollution, soil dust, biomass burning, traffic emission, and coal burning, which were estimated to contribute 31±37%, 39±28%, 14±14%, 7±7%, 5±6%, and 4±8%, respectively, to PM2.5 mass if using the nss-K+ source profiles, 22±19%, 29±17%, 20±20%, 13±13%, 12±10%, and 4±6%, respectively, if using the LG source profiles, and 21±17%, 31±18%, 19±19%, 11±12%, 14±11%, and 4±6%, respectively, if using the combined nss-K+ and LG source profiles. The uncertainties in the estimation of biomass burning contributions to WSOC due to the different choices of biomass burning tracers were around 3% annually and up to 24% seasonally in terms of absolute percentage contributions, or on a factor of 1.7 annually and up to a factor of 3.3 seasonally in terms of the actual concentrations. The uncertainty from the major source (e.g. industrial pollution) was on a factor of 1.9 annually and up to a factor of 2.5 seasonally in the estimated WSOC concentrations. Display omitted •Various biomass burning tracers were compared.•PM2.5 source profiles were compared using different biomass burning tracers.•Uncertainties in source attribution of PM2.5 and WSOC were quantified.