Yes, disclosing an invention to ITA does not preclude publication. ITA will not stop or delay your publication plans. However, publication or any other type of public disclosure of your invention (including conference presentations, e-mail discussions with colleagues from other institutions, web or social media postings, online meeting abstracts, theses deposit in the library, awarded NIH grants) before filing a patent application may result in a loss of potential patent rights. Your disclosure to ITA, including the submission of a manuscript for publication, is confidential. It is not considered a public disclosure for patenting purposes.
If you need to discuss the invention with someone for collaboration purposes, ITA can facilitate those discussions by putting a confidentiality agreement in place so that such discussions will be considered confidential.