Publications

Google Scholar Profile

Haider BA, Baras AS, McCall MN, Hertel JA, Cornish TC, Halushka MK* (2014) A Critical Evaluation of microRNA Biomarkers in Non-Neoplastic Disease. PLoS ONE 9(2): e89565. [link]

McCall MN, Jaffee HA, Zelisko SJ, Sinha N, Hooiveld G, Irizarry RA, Zilliox MJ* (2014). The Gene Expression Barcode 3.0: improved data processing and mining tools. Nucleic Acids Research, 42(D1):D938-D943. [link] 

Tran V, McCall MN*, McMurray H, Almudevar A (2013). On the underlying assumptions of threshold Boolean networks as a model for genetic regulatory network behavior. Frontiers in Genetics, 4:263. doi: 10.3389/fgene.2013.00263. [link]

Wu G, Yustein JT, McCall MN, Zilliox M, Irizarry RA, Zeller K, Dang CV, Ji H* (2013). ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data. Bioinformatics, 29(9):1182-1189. [link]

McCall MN* (2013). Estimation of Gene Regulatory Networks, Journal of Postdoctoral Research, 1(1):60-69. [link]

Bravo HC*, Pihur V, McCall MN, Irizarry RA, Leek, JT (2012). Gene expression anti-profiles as a basis for accurate universal cancer signatures. BMC Bioinformatics, 13:272. [link]
Highly Accessed.

McCall MN*, Jaffee HA, Irizarry RA (2012). fRMA ST: Frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays, Bioinformatics, 28(23):3153-3154. [link]

McCall MN* and Almudevar A (2012). Affymetrix GeneChip microarray preprocessing for multivariate analyses, Briefings in Bioinformatics, 13(5):536-546. [link]

Barry CT*, D'Souza M, McCall MN, Safadjou S, Ryan C, Kashyap R, Marroquin C, Orloff M, Almudevar A, Godfrey TE (2012). Micro RNA expression profiles as adjunctive data to assess the risk of hepatocellular carcinoma recurrence after liver transplantation, American Journal of Transplantation, 12(2):428-437. [link]

McCall MN, Kent OA, Yu J, Fox-Talbot K, Zaiman AL, Halushka MK* (2011). MicroRNA profiling of diverse endothelial cell types, BMC Medical Genomics, 4:78. [link]
Highly Accessed.

Almudevar A, McCall MN*, McMurray H, Land H (2011). Fitting Boolean Networks from Steady State Perturbation Data, Statistical Applications in Genetics and Molecular Biology, 10(1):Article 47. [link]

McCall MN*
and Irizarry RA (2011). Thawing Frozen Robust Multi-array Analysis (fRMA), BMC Bioinformatics, 12:369. [link]
Highly Accessed.

McCall MN, Murakami PN, Lukk M, Huber W, Irizarry RA* (2011). Assessing Affymetrix GeneChip Microarray Quality, BMC Bioinformatics, 12:137. [link]
Highly Accessed.

McCall MN, Uppal K, Jaffee HA, Zilliox MJ*, and Irizarry RA* (2011). The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes, Nucleic Acids Research, 39:D1011-D1015. [link]

Shi L*, Campbell G, Jones WD, . . . , McCall MN, . . . , Puri RK, Scherf U, Tong W, Wolfinger RD; MAQC Consortium (2010). The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models, Nature Biotechnology, 28(8):827-38. [link]

McCall MN, Bolstad BM, and Irizarry RA* (2010). Frozen Robust Multi-Array Analysis (fRMA), Biostatistics, 11(2):242-253. [link]

Sachin S, McCall MN, Eveleigh D, Wilson M, and Irizarry RA* (2010). Performance Evaluation of Commercial miRNA Expression Array Platforms, BMC Research Notes, 3:80. [link]
Highly Accessed.

McCall MN and Irizarry RA* (2008). Consolidated strategy for the analysis of microarray spike-in data, Nucleic Acids Research, 36(17):e108. [link]

* corresponding author(s)