The protein information and property explorer: an easy-to-use, rich-client web application for the management and functional analysis of proteomic data. - Hector Ramos; P. Shannon; Ruedi Aebersold (Bioinform., 2008)

FlyExpress: visual mining of spatiotemporal patterns for genes and publications in Drosophila embryogenesis. - Sudhir Kumar 001; Charlotte Konikoff; Bernard Van Emden; Christopher Busick; Kailah T. Davis; Shuiwang Ji; Lin-Wei Wu; Hector Ramos; Thomas Brody; Sethuraman Panchanathan; Jieping Ye; Timothy L. Karr; et al. (Bioinform., 2011)

ATAQS: A computational software tool for high throughput transition optimization and validation for selected reaction monitoring mass spectrometry. - Mi-Youn K. Brusniak; Sung-Tat Kwok; Mark Christiansen; David S. Campbell; Lukas Reiter; Paola Picotti; Ulrike Kusebauch; Hector Ramos; Eric W. Deutsch; Jingchun Chen; Robert L. Moritz; Ruedi Aebersold (BMC Bioinform., 2011)

Laboratory information management software for engineered mini-protein therapeutic workflow. - Mi-Youn K. Brusniak; Hector Ramos; Bernard Lee; James M. Olson (BMC Bioinform., 2019)