%0 Generic %A Spruston, Nelson %A Jin, Dezhe %A Zhao, Ting %A Hunt, David %A Pearcy, Rachel %A Hsu, Ching-Lung %D 2017 %T ShuTu: Rat dentate gyrus granule cell 100X %U https://janelia.figshare.com/articles/dataset/ShuTu_an_Open-Source_Software_for_Neuron_Reconstruction_rat_dente_gyrus_granule_cell_100X/5613190 %R 10.25378/janelia.5613190.v4 %2 https://ndownloader.figshare.com/files/9770332 %K Dendritic Morphology %K Neuroscience %X

Here we provide images of a rat dentate gyrus granule cell (100X) for practicing reconstruction using the ShuTu software platform. The cell was filled and imaged by Ching-Lung Hsu in the Spruston Lab. Two resolutions are provided, 63X and 100X. For more accurate reconstruction, use this 100X fileset.

ShuTu (Chinese for "dendrite") is a software platform for semi-automated reconstruction of neuronal morphology. It is designed for neurons stained following patch-clamp recording and biocytin filling/staining. With an additional preprocessing step, it can also handle fluorescence images from confocal stacks.

Even when there is only a single neuron in the imaged volume, automated reconstruction is tricky, because of background. Thus, ShuTu was developed to facilitate a two-step process: automated reconstruction, followed by manual correction. The software uses sophisticated algorithms to perform the automated reconstruction, as well as a convenient user interface to facilitate efficient completion of the reconstruction via manual annotation.


%I Janelia Research Campus