This card's Japanese name is named for the Nephilim of Hebrew Myth. These creatures were a race of Giants and the "sons of God" and "daughters of men" who inhabited Canaan according to Numbers 13:33. These beings have been variously interpreted as fallen angels or the descendants of Seth (the third child of Adam and Eve) and Cain.
Nephilim are also sometimes interpreted as the offspring of Angels, "the sons of God", and the "daughters of men" according to Genesis 6:4.
Another interpretation of the Nephilim is "those who cause the others to fall down". In this case, it could refer to the strings that comes from this monster that seem to corrupt previous, existing monsters.
This card's name may be in reference to El-Shaddai, one of the Judaic names of God. A translation can be seen as "God Almighty" adding support to the idea of this being the "Shaddoll" boss monster.
As seen by this card's artwork, this monster appears to be massive in size as "El Shaddoll Winda" looks small in comparison. The artwork of "El Shaddoll Shekhinaga" reinforces this fact as it can be seen that it is of equal size to "Apoqliphort Towers", which is colossal in size itself. This fits, given that the Nephilim in mythology were often understood as a race of giants.