Thawing Frozen Robust Multi-array Analysis (fRMA). - Matthew N. McCall; Rafael A. Irizarry (BMC Bioinform., 2011)

Assessments of Affymetrix GeneChip Microarray Quality for Laboratories and Single Samples. - Matthew N. McCall; Peter N. Murakami; Margus Lukk; Wolfgang Huber; Rafael A. Irizarry (BMC Bioinform., 2011)

The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes. - Matthew N. McCall; Karan Uppal; Harris A. Jaffee; Michael J. Zilliox; Rafael A. Irizarry (Nucleic Acids Res., 2011)

Affymetrix GeneChip microarray preprocessing for multivariate analyses. - Matthew N. McCall; Anthony Almudevar (Briefings Bioinform., 2012)

fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays. - Matthew N. McCall; Harris A. Jaffee; Rafael A. Irizarry (Bioinform., 2012)

Gene expression anti-profiles as a basis for accurate universal cancer signatures. - Héctor Corrada Bravo; Vasyl Pihur; Matthew N. McCall; Rafael A. Irizarry; Jeffrey T. Leek (BMC Bioinform., 2012)

ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data. - George Wu; Jason T. Yustein; Matthew N. McCall; Michael J. Zilliox; Rafael A. Irizarry; Karen Zeller; Chi V. Dang; Hongkai Ji (Bioinform., 2013)

On non-detects in qPCR data. - Matthew N. McCall; Helene R. McMurray; Hartmut Land; Anthony Almudevar (Bioinform., 2014)

The Gene Expression Barcode 3.0: improved data processing and mining tools. - Matthew N. McCall; Harris A. Jaffee; Susan J. Zelisko; Neeraj Sinha; Guido J. E. K. Hooiveld; Rafael A. Irizarry; Michael J. Zilliox (Nucleic Acids Res., 2014)

A benchmark for microRNA quantification algorithms using the OpenArray platform. - Matthew N. McCall; Alexander S. Baras; Alexander Crits-Christoph; Roxann Ingersoll; Melissa A. McAlexander; Kenneth W. Witwer; Marc K. Halushka (BMC Bioinform., 2016)

miRcomp-Shiny: Interactive assessment of qPCR-based microRNA quantification and quality control algorithms. - Lauren Kemperman; Matthew N. McCall (F1000Research, 2017)

Multiple imputation and direct estimation for qPCR data with non-detects. - Valeriia Sherina; Helene R. McMurray; Winslow Powers; Hartmut Land; Tanzy M. T. Love; Matthew N. McCall (BMC Bioinform., 2020)

The effect of tissue composition on gene co-expression. - Yun Zhang 021; Jonavelle Cuerdo; Marc K. Halushka; Matthew N. McCall (Briefings Bioinform., 2021)

Autoregressive modeling and diagnostics for qPCR amplification. - Benjamin Hsu; Valeriia Sherina; Matthew N. McCall (Bioinform., 2021)

A systems genomics approach uncovers molecular associates of RSV severity. - Matthew N. McCall; Chin-Yi Chu; Lu Wang; Lauren Benoodt; Juilee Thakar; Anthony Corbett; Jeanne Holden-Wiltse; Christopher Slaunwhite; Alex Grier; Steven R. Gill; Ann R. Falsey; David J. Topham; et al. (PLoS Comput. Biol., 2021)

Correction: Multiple imputation and direct estimation for qPCR data with non-detects. - Valeriia Sherina; Helene R. McMurray; Winslow Powers; Hartmut Land; Tanzy M. T. Love; Matthew N. McCall (BMC Bioinform., 2024)