Author details

Full Name

Matthew N McCall

Affiliation

ORCID

Career Start Year

2008

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36747628	A Model-Based Hierarchical Bayesian Approach to Sholl Analysis.		2023
36945408	Patterns of unwanted biological and technical expression variation across 49 human tissues.		2023
36007182	A curated human cellular microRNAome based on 196 primary cell types.	GigaScience	2022
36181678	Protocol to use TopNet for gene regulatory network modeling using gene expression data from perturbation experiments.	STAR Protoc	2022
34936873	Gene network modeling via TopNet reveals functional dependencies between diverse tumor-critical mediator genes.	Cell Rep	2021
31813949	The effect of tissue composition on gene co-expression.	Briefings in Bioinformatics	2021
33632195	Airway gene-expression classifiers for respiratory syncytial virus (RSV) disease severity in infants.	BMC Medical Genomics	2021
34001262	Single cell RNA-seq analysis of the flexor digitorum brevis mouse myofibers.	Skelet Muscle	2021
34250902	The role of P2Y12 in the kinetics of microglial self-renewal and maturation in the adult visual cortex in vivo.	eLife	2021
33251806	Spatial Proteomic Approach to Characterize Skeletal Muscle Myofibers.	J Proteome Res	2021
32926149	Airway Gene Expression Correlates of Respiratory Syncytial Virus Disease Severity and Microbiome Composition in Infants.	J Infect Dis	2021
33244594	Autoregressive modeling and diagnostics for qPCR amplification.		2021
34732773	Tissue, age, sex, and disease patterns of matrisome expression in GTEx transcriptome data.	Sci Rep	2021
34962914	A systems genomics approach uncovers molecular associates of RSV severity.	PLoS Computational Biology	2021
34593881	The effect of air pollution on the transcriptomics of the immune response to respiratory infection.	Sci Rep	2021
33243147	Multiple imputation and direct estimation for qPCR data with non-detects.	BMC Bioinformatics	2020
32321923	Consistent RNA sequencing contamination in GTEx and other data sets.	Nature Communications	2020
31199303	Aims, Study Design, and Enrollment Results From the Assessing Predictors of Infant Respiratory Syncytial Virus Effects and Severity Study.	JMIR Research Protocols	2019
30403776	Identification of the novel Ido1 imprinted locus and its potential epigenetic role in pregnancy loss.	Human Molecular Genetics	2019
31274354	Cardioprotection by the mitochondrial unfolded protein response requires ATF5.	Am J Physiol Heart Circ Physiol	2019
29361313	Big Strides in Cellular MicroRNA Expression.	Trends Genet	2018
30011038	Systematic exploration of cell morphological phenotypes associated with a transcriptomic query.	Nucleic Acids Research	2018
29871934	<i>Kras</i> and <i>Tp53</i> Mutations Cause Cholangiocyte- and Hepatocyte-Derived Cholangiocarcinoma.	Cancer Res	2018
29955168	xMD-miRNA-seq to generate near in vivo miRNA expression estimates in colon epithelial cells.	Sci Rep	2018
27966447	A four gene signature predictive of recurrent prostate cancer.	Oncotarget	2017
28877962	Toward the human cellular microRNAome.	Genome Res	2017
27588449	Complex Sources of Variation in Tissue Expression Data: Analysis of the GTEx Lung Transcriptome.	American Journal of Human Genetics	2016
27059462	A microRNA biomarker of hepatocellular carcinoma recurrence following liver transplantation accounting for within-patient heterogeneity.	BMC Medical Genomics	2016
27000067	A benchmark for microRNA quantification algorithms using the OpenArray platform.	BMC Bioinformatics	2016
24875473	Lessons from miR-143/145: the importance of cell-type localization of miRNAs.	Nucleic Acids Research	2014
24271388	The Gene Expression Barcode 3.0: improved data processing and mining tools.	Nucleic Acids Res	2014
24586876	A critical evaluation of microRNA biomarkers in non-neoplastic disease.	PLoS ONE	2014
24764462	On non-detects in qPCR data.	Bioinformatics	2014
23457041	ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data.	Bioinformatics	2013
27595119	Estimation of Gene Regulatory Networks.		2013
24376454	On the underlying assumptions of threshold Boolean networks as a model for genetic regulatory network behavior.	Frontiers in Genetics	2013
22210854	Affymetrix GeneChip microarray preprocessing for multivariate analyses.	Briefings in Bioinformatics	2012
23044545	fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays.	Bioinformatics	2012
23088656	Gene expression anti-profiles as a basis for accurate universal cancer signatures.	BMC Bioinformatics	2012
21548974	Assessing affymetrix GeneChip microarray quality.	BMC Bioinformatics	2011
23089817	Fitting Boolean networks from steady state perturbation data.	Stat Appl Genet Mol Biol	2011
21177656	The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes.	Nucleic Acids Res	2011
22047531	MicroRNA profiling of diverse endothelial cell types.	BMC Medical Genomics	2011
21923903	Thawing Frozen Robust Multi-array Analysis (fRMA).	BMC Bioinformatics	2011
20097884	Frozen robust multiarray analysis (fRMA).	Biostatistics	2010
20676074	The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.	Nat Biotechnol	2010
20298588	Performance evaluation of commercial miRNA expression array platforms.	BMC Res Notes	2010
18676452	Consolidated strategy for the analysis of microarray spike-in data.	Nucleic Acids Res	2008