| Departments | Research Centers |
| Bible | The Ben Zion Dinur Research Institute for Jewish History |
| Hebrew Language | The Center for Research on Dutch Jewry (Dinur Center)) |
| Hebrew Literature | The Center for Research on Romanian Jewry (Dinur Center |
| History of the Jewish People | The Center for Research on the History, Culture and Literature of Italian Jewry |
| Jewish and Comparative Folklore | The Center for Research on the History and Culture of Polish Jewry |
| Jewish Thought | The Center for the Study of Jewish Languages and Literatures |
| Talmud | The Chais Center for Jewish Studies in Russian |
| | The Dov Sadan Institute for Yiddish Studies |
| Yiddish | The Eliezer Ben Yehudah Research Center for the Hebrew Language |
| The Folklore Research Center |
| Orion Center for the Study of the Dead Sea Scrolls |
| Germania Judaica (Dinur Center) |
| | The Hebrew University Bible Project |
| Hispania Judaica (Dinur Center) |
| International Center for University Teaching of Jewish Civilization |
| The Jewish Oral Traditions Research Center |
| The Leonid Nevzlin Research Center for Russian and East European Jewry |
| Misgav Yerushalayim - The Center for Research and Study of Sephardi and Oriental Jewish Heritage |
| The Rosenfeld Research Project on the History of the Jews in Hungary and the Habsburg Empire |
| Scholion - Interdisciplinary Research Center in Jewish Studies Center for the Study of Jewish Languages and Literatures |
| | The Liwerant Center for the Study of Latin America, Spain, Portugal and Their Jewish Communities |
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