Linking Proteomic and Transcriptional Data through the Interactome and Epigenome Reveals a Map of Oncogene-induced Signaling. - Shao-Shan Carol Huang; David C. Clarke; Sara J. C. Gosline; Adam Labadorf; Candace R. Chouinard; William Gordon; Douglas A. Lauffenburger; Ernest Fraenkel (PLoS Comput. Biol., 2013)

SAMNetWeb: identifying condition-specific networks linking signaling and transcription. - Sara J. C. Gosline; Coyin Oh; Ernest Fraenkel (Bioinform., 2015)

Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package. - Nurcan Tuncbag; Sara J. C. Gosline; Amanda J. Kedaigle; Anthony R. Soltis; Anthony Gitter; Ernest Fraenkel (PLoS Comput. Biol., 2016)

Probing the chemical-biological relationship space with the Drug Target Explorer. - Robert J. Allaway; Salvatore La Rosa; Justin Guinney; Sara J. C. Gosline (J. Cheminformatics, 2018)

Knowledge-based classification of fine-grained immune cell types in single-cell RNA-Seq data. - Xuan Liu; Sara J. C. Gosline; Lance T. Pflieger; Pierre Wallet; Archana Iyer; Justin Guinney; Andrea H. Bild; Jeffrey T. Chang (Briefings Bioinform., 2021)