The completion of the sequencing of chromosome 3 of the malarial parasite Plasmodium falciparum1 is a major step forward in our understanding of the Plasmodium genome. We have analysed this chromosome using GlimmerM, a freely available gene-finder developed specifically for the P. falciparum species2. GlimmerM was highly effective in finding nearly all the genes that were reported on P. falciparum chromosome 2 (ref. 2), and a newly re-trained version was even more effective on chromosome 3, confirming virtually all reported genes and finding several additional ones.