| # | Schools | Citations | Articles | R-Rank |
|---|
| 1 | School of Medicine | 6,026 | 133 | 1 |
| 2 | Institute of Rheumatology | 3,824 | 231 | 1 |
| 3 | Graduate School of Medicine | 3,816 | 87 | 27 |
| 4 | Division of Gastroenterology and Hepatology | 3,780 | 8 | 1 |
| 5 | Department of Rheumatology and Clinical Immunology | 3,144 | 60 | 1 |
| 6 | Department of Hematology and Immunology | 2,755 | 10 | 1 |
| 7 | Graduate School of Medical Sciences | 2,615 | 35 | 22 |
| 8 | The First Department of Internal Medicine | 2,511 | 134 | 2 |
| 9 | Department of Gastroenterology and Hepatology | 2,445 | 5 | 1 |
| 10 | Department of Internal Medicine | 2,316 | 5 | 1 |
| 11 | Department of Anatomic Pathology | 2,273 | 3 | 1 |
| 12 | Department of Medicine and Rheumatology | 1,930 | 76 | 1 |
| 14 | Department of Internal Medicine | 1,188 | 6 | 1 |
| 15 | Department of Pathology and Laboratory Medicine | 1,177 | 3 | 1 |
| 16 | Department of Internal Medicine | 1,124 | 75 | 2 |
| 17 | Division of Molecular Oncology and Virology | 1,115 | 2 | 1 |
| 17 | Graduate School of Medicine | 1,115 | 2 | 5 |
| 19 | Department of Internal Medicine | 1,084 | 55 | 9 |
| 20 | Department of Allergy and Rheumatology | 1,047 | 54 | 3 |
| 21 | School of Medicine | 979 | 47 | 70 |
| 22 | Faculty of Medicine | 974 | 61 | 8 |
| 23 | Saitama Medical Center | 973 | 23 | 3 |
| 24 | Faculty of Medicine | 937 | 73 | 99 |
| 25 | Graduate School of Medical and Dental Sciences | 886 | 62 | 14 |
| 26 | Department of Internal Medicine | 790 | 44 | 3 |
| 27 | School of Medicine | 775 | 16 | 4 |
| 28 | Graduate School of Medical Science | 729 | 21 | 22 |
| 29 | Department of Immunology and Rheumatology | 713 | 47 | 1 |
| 30 | Department of Internal Medicine | 682 | 17 | 1 |
| 31 | Graduate School of Medicine | 592 | 18 | 16 |
| 32 | Department of Internal Medicine | 505 | 31 | 20 |
| 33 | Department of Rheumatology and Clinical Immunology | 499 | 14 | 1 |
| 34 | Graduate School of Medicine | 484 | 38 | 86 |
| 35 | Department of Rheumatology and Applied Immunology | 473 | 20 | 1 |
| 36 | Faculty of Medicine | 450 | 24 | 43 |
| 37 | Institute of Medical Science | 429 | 22 | 3 |
| 38 | Department of Internal Medicine and Rheumatology | 395 | 43 | 1 |
| 39 | School of Public Health | 373 | 32 | 22 |
| 40 | Division of Rheumatology and Clinical Immunology | 370 | 27 | 1 |
| 41 | Graduate School of Medical Science | 352 | 47 | 64 |
| 42 | School of Medicine | 345 | 43 | 57 |
| 43 | School of Dentistry | 342 | 2 | 7 |
| 44 | Faculty of Medicine | 322 | 14 | 48 |
| 45 | Faculty of Medicine | 300 | 23 | 39 |
| 46 | Faculty of Medicine | 285 | 18 | 46 |
| 48 | Division of Nephrology and Rheumatology | 276 | 10 | 3 |
| 48 | Department of Internal Medicine | 276 | 10 | 9 |
| 48 | Faculty of Medicine | 276 | 16 | 38 |
| 52 | Department of Internal Medicine | 265 | 5 | 4 |
| 53 | Department of Cardiology | 250 | 2 | 2 |
| 54 | Faculty of Medicine | 241 | 12 | 48 |
| 55 | Department of Internal Medicine | 237 | 14 | 2 |
| 56 | Department of Sports Medicine | 233 | 8 | 1 |
| 57 | Department of Dermatology | 230 | 21 | 5 |
| 58 | Department of Nephrology | 229 | 7 | 7 |
| 59 | Department of Pediatrics | 225 | 16 | 9 |
| 60 | Department of Orthopedic Surgery | 222 | 26 | 1 |
| 61 | Department of Ophthalmology | 219 | 1 | 9 |
| 62 | School of Medicine | 216 | 3 | 5 |
| 63 | Department of Internal Medicine | 210 | 12 | 6 |
| 64 | Department of Rheumatology | 202 | 13 | 1 |
| 64 | Faculty of Medicine | 202 | 7 | 31 |
| 66 | Division of Rheumatology and Clinical Immunology | 201 | 3 | 10 |
| 66 | Graduate School of Medicine | 201 | 7 | 31 |
| 68 | Department of Pediatrics | 193 | 19 | 11 |
| 69 | Department of Orthopedics | 188 | 16 | 1 |
| 70 | Department of Pediatrics | 186 | 21 | 4 |
| 73 | Faculty of Medicine | 184 | 10 | 14 |
| 74 | School of Medicine | 181 | 13 | 31 |
| 74 | Graduate School of Medicine and Pharmaceutical Sciences | 181 | 3 | 53 |
| 76 | Department of Orthopedic Surgery | 177 | 2 | 3 |
| 78 | Faculty of Medicine | 168 | 12 | 33 |
| 79 | Department of Pediatrics | 166 | 10 | 3 |
| 80 | Medical Institute of Bioregulation | 165 | 6 | 58 |
| 81 | Department of Ophthalmology | 161 | 2 | 7 |
| 82 | School of Medicine | 153 | 8 | 27 |
| 83 | Department of Internal Medicine | 151 | 4 | 14 |
| 84 | Department of Internal Medicine | 149 | 4 | 14 |
| 85 | Department of Immunology | 145 | 4 | 10 |
| 85 | Department of Internal Medicine | 145 | 6 | 38 |
| 87 | Department of Internal Medicine | 143 | 15 | 55 |
| 89 | Department of Orthopedic Surgery | 136 | 12 | 1 |
| 90 | Department of Pediatrics | 135 | 15 | 16 |
| 91 | Graduate School of Information Science and Technology | 134 | 1 | 52 |
| 91 | Faculty of Medical Sciences | 134 | 10 | 71 |
| 93 | Department of Rheumatology | 133 | 5 | 64 |
| 96 | Department of Radiology | 132 | 4 | 14 |
| 96 | Division of Rheumatology | 132 | 5 | 30 |
| 98 | Department of Otolaryngology-Head and Neck Surgery | 126 | 3 | 2 |
| 99 | Department of Physical Medicine and Rehabilitation | 125 | 8 | 4 |
