Clear Food analyzed 345 hot dogs and sausages from 75 different brands sold at 10 retailers and found that 14% had hygienic or substitution issues, according to the report.
(Substitution means when ingredients are added to the product that are not displayed on the label and hygienic issues happen when a "non-harmful contaminant is introduced to the hot dog.")
The online food guide, which uses "genomic technology" to examine foods by ingredients, found human DNA in 2% of the samples. Two-thirds of the human DNA samples were vegetarian, according to Clear Food.
However, Janet Riley, president of the National Hot Dog and Sausage Council, said Clear Food "has said very little about its sample collection procedure."
"It's entirely possible that the human DNA found could be linked back to the company's own staff," Riley said in a statement on Tuesday. "Likewise, when they suggest that some products showed the presence of another species, like chicken in a beef product, this could also be from a single cell and even result from very practice of pulling samples from multiple packages in the same room as the company may have done."
The National Hot Dog and Sausage Council has attempted to reach Clear Food multiple times for further explanation on the report, according to Riley.
Initial attempts by USA TODAY Network to reach out to the company independently have proved unsuccessful.