The medical college has 7 faculties: department of clinical medicine I, department of clinical medicine II, department of obstetrics gynecology and reproductive medicine, department of clinical discipline of Chinese and western integrative medicine, nursing school, department of pharmacy, and department of basic medicine.

Department of basic medicine

At present, the department has staff of 47, including 33 teachers and 14 technicians. Among them, there are 5 professors and 18 associate professors. Seventeen teachers have doctoral degrees and fourteen are supervisors of master students. The department has 4 discipline groups: cell biology and biochemistry, physiology and functional experiment, etiology and immunology, pathology and pathophysiology. The department owns first-class discipline of basic medical sciences, which comprises of 4 key master's programs at university level in second-class discipline: human anatomy and histoembryology, physiology, immunology, pathology and pathophysiology. Till now the department of basic medicine has undertaken 65 scientific research projects, including 10 at the national level. The department Past five years published more than 120 articles, of which included 22 SCI papers, during the past five years.

Department of clinical medicine I

This department comprises of following discipline groups: internal medicine, diagnostics, pediatrics, dermatology and sexually transmitted diseases prevention, and medical imaging and nuclear medicine. At present, the department has 137 teachers including 8 professors or chief physicians, 39 associate professors or associate chief physicians and 38 supervisors of master students. The experimental center for clinic medicine of the department is divided into physical diagnosis laboratory, dermatology and sexually transmitted diseases laboratory and clinical skills training center. Diagnosis and internal medicine are key courses of Yangzhou University. Twelve second-class master's programs were set up in this department, including internal medicine, dermatology and sexually transmitted diseases prevention, medical imaging and nuclear medicine, psychiatry and mental hygiene, emergency medicine, lemology, neurology, clinical laboratory diagnostics, oncology, oncology and recovery medicine and physiatrics. Digestive internal medicine, cardiology, haematology, neurology, medical imaging and nuclear medicine are key clinical specialty of Jiangsu Province. Till now, the department has undertaken more than 20 scientific research projects at national or province level, and gotten more than 30 Technology Achievement Award.

Department of clinical medicine II

The department comprises of discipline groups of surgery and human anatomy & histoembryology. At present, the department has 101 teachers, 4 technicians, including 8 professor, 20 associate professors, 3 supervisors of doctoral student and 36 supervisors master’s student. The department posseses anatomy laboratory and general surgery laboratory. Seven second-class master's programs were set up in this department, including surgery, anesthesiology, sport medicine, otorhinolaryngology, ophthalmology, field surgery, and human anatomy and histoembryology. General surgery and orthopaedics and tranmatology are excellent courses of adult education in Yangzhou University. The department is undertaking 20 scientific research projects at national or province level, and has gotten more than 30 Technology Achievement Award.

Department of obstetrics gynecology and reproductive medicine

The department comprises of obstetrics and gynecology and histology and embryology and has 31 teachers, including 8 professor or chief physician, 10 associate professors or associate chief physicians, 12 supervisors of master’s student. The department has 3 master’s programs: obstetrics and gynecology, human anatomy and histoembryology, and reproductive medicine. The obstetrics and gynecology of this department is the key specialty of Jiangsu Province. Recently, the department has undertaken numerous scientific research projects at national or province level, and has gotten more than 10 technology achievement award.

Department of clinical discipline of Chinese and western integrative medicine

The department of Chinese medicine was founded in 1958 and renamed as department of clinical discipline of Chinese and western integrative medicine in February 2011. At present, the department has 18 teachers including 4 professors or chief physicians, 11 associate professors or associate chief physicians, 3 doctoral supervisors and 6 supervisors of master students. Among them, 9 persons have MD and 3 persons have master degree. The department has 2 discipline groups: basic science of discipline of Chinese and western integrative medicine and clinic science of discipline of Chinese and western integrative medicine. It sets up integrative Chinese and western medicine lab, traditional Chinese medicine specimens room and traditional Chinese medicine clinical demonstration classroom. In 1984, 5-year bachelor’s degree students professional in integrative Chinese and western medicine were enrolled. At present, 2 bachelor’s programs: traditional Chinese medicine and clinical discipline of Chinese and western integrative medicine are set up in this department. And the department owns 1 first-class discipline doctorate program (integrative Chinese and western medicine) and 1 first-class discipline master's program: integration of traditional and western medicine. In 2006, clinical discipline of Chinese and western integrative medicine was awarded the key discipline at provincial level. Recently, the department has undertaken numerous scientific research projects at national or province level, and has gotten more than 10 technology achievement award.

Nursing school

Nursing school was founded in 1998 which is the first batch of 4-year nursing bachelor’s program in Jiangsu. As a feature specialty of Yangzhou University, nursing school was restructured in 2008 according to the idea of “emergence and mutual promotion between different disciplines”. The new nursing school has an emergence and mutual promotion development system. The school has 4 discipline groups: basic nursing, clinic nursing, preventive medicine and medical humanities. It sets up 1 nursing teaching lab, 6 nursing training teaching bases. At present, nursing school has 16 teachers including 1 professor, 7 associate professors. Among them, 3 persons have MD and 4 persons have master degree. The department has a first-level master’s program of prevention medicine and a second-level master’s program of nursing.

Department of pharmacy

In 2001, 4-year bachelor’s degree students professional in pharmacy were enrolled and the department of pharmacy was founded in 2002. It sets up 2 disciplines: clinical pharmacy and pharmacology and also found pharmacy teaching lab, research Institute of Yangzhou University on pharmaceutics, research lab of natural medicine and research lab of anti-inflammatory-immunity pharmacology. At present, the department has 2 technicians and 13 teachers, including 6 professors, 2 associate professors, 1 doctoral supervisor and 8 master’s supervisors. Now, it owns 1 bachelor’s program: pharmacy (clinical pharmacy) and 2 master's program: science of Chinese traditional medicine and pharmacology. The research fund is more than ¥1.1 million. The department is undertaking numerous scientific research projects at national or province level, and has gotten lots of technology achievement award.