The special session of the UN's top rights body will consider a draft resolution calling for the council to "urgently dispatch an independent, worldwide commission of inquiry", the UN's highest level investigation.
A large number of Palestinians gathered to protest on the Gaza Strip's eastern border to commemorate the Nakba anniversary and protest the relocation of the U.S. embassy from Tel Aviv to Jerusalem, which overturned decades of American foreign policy.
The "cycle of violence" in Gaza serves no one and it must end, the UN Deputy Secretary-General Amina Mohammed said on Thursday at the UN Forum on the Question of Palestine.
The Arab League also called for an global investigation into the killings at an emergency meeting in Cairo on Thursday.
The increased tension comes as Israel's Independence Day approaches, with celebrations set to coincide with a ceremony marking the relocation of the US Embassy, scheduled for Monday, May 14.
The ministry had on Wednesday, re-assured that Nigeria's official position for a two state solution to resolve the Israeli-Palestinian conflict has not changed.
The UN human rights chief Zeid Ra'ad Al Hussein is expected to speak at the opening of the session, as is the UN Special Rapporteur on the situation of human rights in the occupied Palestinian Territory.
Turkey has also called for an emergency meeting of the Organization of Islamic Cooperation on Friday to discuss the Palestinian death toll.
Meanwhile, Kuwait is urging the Security Council to condemn Israel's use of force against Palestinian civilians "in the strongest terms", especially in the Gaza Strip, and to deploy and worldwide force to protect civilians.
It calls for measures to guarantee the safety of Palestinian civilians, including the deployment of "an global protection mission".
The statement released by the Israeli embassy today said Israel had been acting in self-defence in compliance with worldwide law against an internationally recognised terror organisation, Hamas.
The report adds that Hamas leaders were warned that Egypt considers the blood of Palestinians killed in Gaza "on their hands".