The Spirit of the Laws: The traces of Genocide in the Laws and Regulations on Confiscated Properties [of Armenians] (Kanunların Ruhu, Emval-i Metruke Kanunlarında Soykırımın İzini Sürmek), İletişim, İstanbul 2012

‘Young Turks’ Crime Against Humanity: The Armenian Genocide and Ethnic Cleansing in the Ottoman Empire, Princeton University Press, 2012

Judgment at Istanbul: The Armenian Genocide Trials, with Vahakn Dadrian, Berghahn Books, New York 2011.

“Essays on 1915” (1915 Yazıları), İletişim Publishing House, January 2010 (in Turkish)

“Deportation and Massacres, Protocols of Military Tribunal, Trial of Union and Progress Party (1919-1922)” (Tehcir ve Taktil Divan-ı Harb-i Örfi Zabıtları / İttihad ve Terakki’nin Yargılanması (1919-1922) With Vahakn N. Dadrian, Bilgi University Publication, Istanbul 2009 (in Turkish).

“Armenian Problem is solved” The Policies towards Armenians during the War Years According to Ottoman Documents (“Ermeni Meselesi Hallolmuştur” Osmanlı Belgelerine Göre Savaş Yıllarında Ermenilere Yönelik Politikalar) İletişim Publishing House, January 2008 (in Turkish)

A Shameful Act: Armenian Genocide and the Question of Turkish Responsibility. New York: Metropolitan Books, November 2006.

From Empire to Republic: Turkish Nationalism and the Armenian Genocide. London: Zed Books, 2004.

Is There Any Solution Other Than a Dialogue?
English Translation of a Turkish Article published in 2002

Dialogue Across an International Divide: Essays Towards a Turkish-Armenian Dialogue. Toronto: The Zoryan Institute of Canada, 2001.

The Armenian Taboo Exposed (Ermeni Tabusu Aralanırken). Ankara: Su Yayınları, 2000 (in Turkish).

Europe and Turkey (Europa und die Türkei). Hamburg: Green Party Publications, 2000 (in German).

The Armenian Question and Human Rights in History: From the Party of Union and Progress to the Turkish War of Independence (İnsan Hakları ve Ermeni Sorunu –İttihat ve Terakki’den Kurtuluş Savaşına). Ankara: İmge Yayınları, 1999 (in Turkish; English translation in progress).

The Armenian Question in History: The Turkish National Movement and the Istanbul Trials, 1919–22 (Armenien und die Völkermord. Die Istanbuler Prozesse und die türkische Nationalbewegung). Hamburg: Verlag Hamburger Edition, 1996 (in German).

Re-envisioning the Republic of Turkey (Türkiye’yi Yeniden Düsünmek). Istanbul: Birikim Yayınları, 1995 (in Turkish).

The Boundaries of Tolerance in Islam (İslamda Tolerans ve Sınırı). Ankara: Başak Yayınları, 1994 (in Turkish).

The Armenian Question and Turkish National Identity (Türk Ulusal Kimliği ve Ermeni Sorunu). İstanbul: İletişim Yayınları, 1992 (original in Turkish; Russian edition in 1995, Armenian in 1996, and Arabic in 1997).

Torture and Violence in Turkish Political Culture (Siyasi Kültürümüzde Zulüm ve İşkence). İstanbul: İletişim Yayınları, 1991 (in Turkish).

Marxism and Human Rights (İnsan Haklari ve Marksizm). Istanbul: Ayrıntı Yayınları, 1991 (in Turkish).