Preserving biological heterogeneity with a permuted surrogate variable analysis for genomics batch correction. - Hilary S. Parker; Jeffrey T. Leek; Alexander V. Favorov; Michael Considine; Xiaoxin Xia; Sameer Chavan; Christine H. Chung; Elana J. Fertig (Bioinform., 2014)

CancerInSilico: An R/Bioconductor package for combining mathematical and statistical modeling to simulate time course bulk and single cell gene expression data in cancer. - Thomas Sherman; Luciane T. Kagohara; Raymon Cao; Raymond Cheng; Matthew Satriano; Michael Considine; Gabriel Krigsfeld; Ruchira Ranaweera; Yong Tang; Sandra A. Jablonski; Genevieve L. Stein-O'Brien; Daria A. Gaykalova; et al. (PLoS Comput. Biol., 2019)

TIMEx: tumor-immune microenvironment deconvolution web-portal for bulk transcriptomics using pan-cancer scRNA-seq signatures. - Mengyu Xie; Kyubum Lee; John H. Lockhart; Scott D. Cukras; Rodrigo Carvajal; Amer A. Beg; Elsa R. Flores; Mingxiang Teng; Christine H. Chung; Aik Choon Tan (Bioinform., 2021)

Deep Learning of Histopathology Images at the Single Cell Level. - Kyubum Lee; John H. Lockhart; Mengyu Xie; Ritu Chaudhary; Robbert J. C. Slebos; Elsa R. Flores; Christine H. Chung; Aik Choon Tan (Frontiers Artif. Intell., 2021)

An AI-Ready Multiplex Staining Dataset for Reproducible and Accurate Characterization of Tumor Immune Microenvironment. - Parmida Ghahremani; Joseph Marino; Juan Hernandez-Prera; Janis V. de la Iglesia; Robbert J. C. Slebos; Christine H. Chung; Saad Nadeem (MICCAI (6), 2023)

NuKit: A deep learning platform for fast nucleus segmentation of histopathological images. - Ching-Nung Lin; Christine H. Chung; Aik Choon Tan (J. Bioinform. Comput. Biol., 2023)