The "Shimadzu" surname of the founder of Shimadzu was also given by his ancestors from Shimadzu Yihong, and was allowed to use the Shimadzu family emblem. The company's LOGO actually originated from the family emblem of Shimashimadzu, a famous family in Kyushu during the Warring States Period in Japan, but it was slightly modified.

The factory logo of "circle plus cross" is a trademark formulated by Shimadzu Genzo, the founder of Shimadzu Manufacturing Co., Ltd. The size of this trademark has been calculated scientifically and accurately. The width of the solid line part of the outer circle is one eighth of the diameter of the outer circle (.125 times the diameter of the outer circle), while the width of the cross part is 1.1 times the width of the solid line part of the outer circle (.1375 times the diameter of the outer circle). This design makes the size of the outer circle and its width balanced, so that the solid line width of the circumference and the cross can correct the visual difference and bring people the best visual beauty.