Objective With personal computer (PC) as the platform, to explore an computerized 3D reconstruction method based on rat’s cervical cord serial sections. Methods Normal cervical cord segment of SD rat was embeded in paraffin block, four locating marks were made at four corners around the specimen, the specimen was sectioned serially with Leica paraffin microtome, after each three sections, the images of specimen and outer locating marks were taken with CANON digital camera and the serial sections were obtained. The obtained images were ordered, cut, turned into gray scale images and background uneven corrected. The edges of white matter, grey matter and locating marks in each image were extracted, the locating marks were used for automated registration of serial sections with 3DDOCTOR software, the 3D surface reconstruction of cervical cord segment was observed, cut and measured freely in PC. Results The grey matter, white matter of rat cervical cord segment were reconstructed from serial transverse sections, the reconstructed segment was measured to obtain the surface area and volume data.Conclusion The paraffin embedding and “hard” locating marks techniques can be used to obtain the images of serial transverse sections of rat’s cerival cord segment, to make 3D reconstru