Automated 3-D Quantification of Brain Tissue at tThe Cellular Scale from Multi-Parameter Confocal Microscopy Images. - Gang Lin; Yousef Al-Kofahi; James Alexander Tyrrell; Christopher Björnsson; William Shain; Badrinath Roysam (ISBI, 2007)

Algorithms and framework for cellular-scale mapping of complex biological tissues from 2-D / 3-D multi-spectral images. - Yousef Al-Kofahi (2009)

5-D imaging and parallel automated analysis of cellular events in living immune tissue microenvironments. - Arunachalam Narayanaswamy; Ena Ladi; Yousef Al-Kofahi; Ying Chen; Christopher D. Carothers; Ellen Robey; Badrinath Roysam (ISBI, 2010)

Improved Automatic Detection and Segmentation of Cell Nuclei in Histopathology Images. - Yousef Al-Kofahi; Wiem Lassoued; William Lee; Badrinath Roysam (IEEE Trans. Biomed. Eng., 2010)

Integrated segmentation of cellular structures. - Peter O. Ajemba; Yousef Al-Kofahi; Richard Scott; Michael J. Donovan; Gerardo Fernandez (Image Processing, 2011)

An automated algorithm for cell-level FISH dot counting. - Yousef Al-Kofahi; Dirk Ryan Padfield; Antti Seppo (Image Processing, 2013)

Multi-channel algorithm for segmentation of tumor blood vessels using multiplexed image data. - Yousef Al-Kofahi; Christopher Sevinsky; Alberto Santamaría-Pang; Fiona Ginty; Anup Sood; Qing Li (ISBI, 2016)

Image analytic algorithms for automated cell segmentation quality control. - Yousef Al-Kofahi; Fiona Ginty (ISBI, 2018)

Improved automated segmentation of human kidney organoids using deep convolutional neural networks. - Michael MacDonald; Theron R. Fennel; Asha Singanamalli; Nelly M. Cruz; Mohammad Yousefhussein; Yousef Al-Kofahi; Benjamin S. Freedman (Image Processing, 2020)