RNA Seq reads from three Aspergillus flavus (AF70) strains: 1) a knockout mutant containing a deletion in the hbx1 (homeobox 1) gene, 2) an isogenic positive control strain, and 3) a strain that genetically complements the hbx knockout strain by reintroduction of the wildtype hbx gene. Disruption of hbx1 in Aspergillus flavus results in aconidial colonies and lack of sclerotial production. In addition, the hbx1 mutant is unable to produce aflatoxins B1 and B2, cyclopiazonic acid and aflatrem.