| # | Institutions | Citations | Articles | R-Rank |
|---|
| 1 | University of Occupational and Environmental Health Japan | 7,868 | 209 | 3 |
| 2 | University of Tsukuba | 4,763 | 154 | 37 |
| 3 | Sapporo Medical University | 4,596 | 28 | 1 |
| 4 | Tokyo Women's Medical University | 4,468 | 278 | 6 |
| 5 | Kyoto University | 4,367 | 116 | 225 |
| 6 | University of Toyama | 4,339 | 54 | 7 |
| 7 | Tokyo Medical and Dental University | 4,226 | 170 | 39 |
| 8 | Kanazawa Medical University | 4,182 | 32 | 2 |
| 9 | University of Tokyo | 4,075 | 206 | 367 |
| 10 | Kansai Medical University | 3,876 | 26 | 5 |
| 11 | Shinshu University | 3,416 | 10 | 8 |
| 13 | Saitama Medical University | 3,059 | 118 | 4 |
| 14 | Fujita Health University | 2,461 | 16 | 7 |
| 15 | Kurashiki Central Hospital | 2,347 | 11 | 3 |
| 17 | Keio University | 2,211 | 98 | 68 |
| 18 | Kanazawa University | 2,193 | 71 | 54 |
| 19 | Wakayama Medical University | 1,857 | 63 | 12 |
| 21 | Nagasaki University | 1,610 | 99 | 28 |
| 22 | St. Marianna University School of Medicine | 1,592 | 88 | 7 |
| 23 | Okayama University | 1,575 | 9 | 82 |
| 26 | Juntendo University | 1,081 | 88 | 35 |
| 27 | Jichi Medical University | 1,020 | 55 | 43 |
| 28 | Nagoya City University | 1,006 | 18 | 32 |
| 29 | Tokyo Medical University | 929 | 42 | 56 |
| 30 | Hyogo College of Medicine | 853 | 48 | 61 |
| 31 | Osaka Medical College | 827 | 51 | 23 |
| 33 | Toho University | 703 | 39 | 49 |
| 35 | Matsubara Mayflower Hospital | 633 | 34 | 2 |
| 39 | Yokohama City University Medical Center | 474 | 52 | 29 |
| 40 | Japanese Red Cross Medical Center | 452 | 15 | 11 |
| 45 | Shariati Hospital | 352 | 11 | 21 |
| 46 | Matsumoto Dental University | 348 | 4 | 13 |
| 59 | Tenri University | 233 | 8 | 1 |
| 61 | Nagano Red Cross Hospital | 213 | 14 | 9 |
| 64 | Kansai University of Welfare Sciences | 207 | 7 | 4 |
| 68 | Tenri Hospital | 189 | 8 | 47 |
| 69 | Osaka Rosai Hospital | 185 | 19 | 34 |
| 70 | Tokyo Medical University Hachioji Medical Center | 180 | 8 | 6 |
| 71 | Anjo Kosei Hospital | 178 | 15 | 16 |
| 73 | Showa Pharmaceutical University | 165 | 4 | 56 |
| 82 | National Hospital Organization Nagasaki Medical Center | 144 | 17 | 16 |
| 90 | St. Luke's International Hospital | 129 | 12 | 66 |
| 94 | UCB Pharma | 119 | 5 | 82 |
| 95 | Kyushu Dental University | 118 | 2 | 81 |
| 97 | Kyoto City Hospital | 115 | 2 | 24 |
