Image datasets associated with Gut Analysis Toolbox

This repository will primarily hold raw image data associated with Gut Analysis Toolbox. This will include example images for testing and those that may have been used in the tutorials/guides.

Multiplex data

Multiplexing_H2202Desc_Layer 1_Ganglia1_Hu.zip is from:

Chen, B. N., Humenick, A., Yew, W. P., Peterson, R. A., Wiklendt, L., Dinning, P. G., Spencer, N. J., Wattchow, D. A., Costa, M., & Brookes, S. J. H. (2023). Types of Neurons in the Human Colonic Myenteric Plexus Identified by Multilayer Immunohistochemical Coding. Cellular and molecular gastroenterology and hepatology, 16(4), 573–605.

This data is a myenteric wholemount from the descending colon. It has 14 different markers, 6 different rounds of staining. Every round has pan-neuronal marker Hu as a reference marker.

Images from public repositories:

DYM_22_7_Pr_Chat_BYFP_DIN_GFP-g_nNOS-m_VIP-r_Hu-b.tif is a crop from File 100 05-07-2019 DYM 22 7 Pr Chat%3BYFP DIN GFP-g nNOS-m VIP-r Hu-b (Mouse Proximal Colon)DYM_22_7_Pr_Hu_crop.tif is a crop from above.

Source for 146_02_14_20DYM8_6_mouse_Mid_Chat-g CalB-r CalR-b_max.tif is from File 146 02-14-20 DYM 8 6 Mid Chat-g CalB-r CalR-b (Mouse mid colon)Howard, M. (2021). 3D imaging of enteric neurons in mouse (Version 1) [Data set]. SPARC Consortium. https://doi.org/10.26275/9FFG-482D