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List of works by Roger E Bumgarner

A prioritization analysis of disease association by data-mining of functional annotation of human genes

scientific article

A sequence-oriented comparison of gene expression measurements across different hybridization-based technologies

scientific article published in July 2006

A three-way comparative genomic analysis of Mannheimia haemolytica isolates

scientific article

An analysis of the dynamic range and linearity of an infrared DNA sequencer

scientific article published on 01 April 1996

An expressed-sequence-tag database of the human prostate: sequence analysis of 1168 cDNA clones.

scientific article

Attenuation of the type I interferon response in cells infected with human rhinovirus

scientific article published on 12 February 2008

Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria

scientific article (publication date: 2012)

Bayesian model averaging: development of an improved multi-class, gene selection and classification tool for microarray data

scientific article

Bayesian robust inference for differential gene expression in microarrays with multiple samples

scientific article published in March 2006

Benzene Forms Hydrogen Bonds with Water

scientific article published in Science

Cellular gene expression upon human immunodeficiency virus type 1 infection of CD4(+)-T-cell lines

scientific article

Cellular transcriptional profiling in influenza A virus-infected lung epithelial cells: the role of the nonstructural NS1 protein in the evasion of the host innate defense and its potential contribution to pandemic influenza

scientific article

Characterization of the effects of an rpoC mutation that confers resistance to the Fst peptide toxin-antitoxin system toxin

scientific article published on 26 October 2012

Chlamydia trachomatis infection alters host cell transcription in diverse cellular pathways

scientific article published on 24 January 2003

Chlamydia trachomatis variant with nonfusing inclusions: growth dynamic and host-cell transcriptional response

scientific article published on 25 August 2005

Clustering gene-expression data with repeated measurements

scientific article

Comparative genomic analysis of seven Mycoplasma hyosynoviae strains

scientific article published on 18 February 2015

Comparative genomic hybridization and transcriptome analysis with a pan-genome microarray reveal distinctions between JP2 and non-JP2 genotypes of Aggregatibacter actinomycetemcomitans.

scientific article published on 12 October 2012

Comparative genomics of susceptibility to mammary carcinogenesis among inbred rat strains: role of reduced prolactin signaling in resistance of the Copenhagen strain

scientific article published on 4 October 2007

Construction of regulatory networks using expression time-series data of a genotyped population

scientific article

Context-specific infinite mixtures for clustering gene expression profiles across diverse microarray dataset.

scientific article published on 18 May 2006

Development of the Minimum Information Specification for In Situ Hybridization and Immunohistochemistry Experiments (MISFISHIE).

scientific article published on January 2006

Differential gene expression profiling of adult murine hematopoietic stem cells

scientific article

Donuts, scratches and blanks: robust model-based segmentation of microarray images

scientific article published on 21 April 2005

Erratum: Corrigendum: Direct multiplexed measurement of gene expression with color-coded probe pairs

article

Evolutionary and Biomedical Insights from the Rhesus Macaque Genome

scientific article

From co-expression to co-regulation: how many microarray experiments do we need?

scientific article

Functional annotation from predicted protein interaction networks

scientific article

Gene Expression Profiling of the Cellular Transcriptional Network Regulated by Alpha/Beta Interferon and Its Partial Attenuation by the Hepatitis C Virus Nonstructural 5A Protein

scientific article (publication date: June 2003)

Gene expression in Pseudomonas aeruginosa biofilms

scientific article published in October 2001

Genome sequence of Aggregatibacter actinomycetemcomitans serotype c strain D11S-1.

scientific article published on 9 October 2009

Genome sequence of Methyloversatilis universalis FAM5T, a methylotrophic representative of the order Rhodocyclales

scientific article

Genome sequence of a novel species, Propionibacterium humerusii

scientific article

Genome sequence of a serotype b non-JP2 aggregatibacter actinomycetemcomitans strain, ANH9381, from a periodontally healthy individual

scientific article published on April 2012

Genome sequence of naturally competent Aggregatibacter actinomycetemcomitans serotype a strain D7S-1

scientific article

Genome sequences of Mannheimia haemolytica serotype A2: ovine and bovine isolates

scientific article

Genomic Stability of Aggregatibacter actinomycetemcomitans during Persistent Oral Infection in Human

scientific article (publication date: 2013)

Hierarchical gene expression profiles of HUVEC stimulated by different lipid A structures obtained from Porphyromonas gingivalis and Escherichia coli

scientific article published on 12 December 2006

High-density lipoprotein suppresses the type I interferon response, a family of potent antiviral immunoregulators, in macrophages challenged with lipopolysaccharide

scientific article

Human rhinovirus attenuates the type I interferon response by disrupting activation of interferon regulatory factor 3.

scientific article published on May 2006

Human rhinovirus attenuates the type I interferon response by disrupting activation of interferon regulatory factor 3.

scientific article published on June 2007

Identification of the pangenome and its components in 14 distinct Aggregatibacter actinomycetemcomitans strains by comparative genomic analysis

scientific article

Independent and Cooperative Antiviral Actions of Beta Interferon and Gamma Interferon against Herpes Simplex Virus Replication in Primary Human Fibroblasts

scientific article

Integrated genomic and proteomic analyses of a systematically perturbed metabolic network

scientific article (publication date: 4 May 2001)

Integrating external biological knowledge in the construction of regulatory networks from time-series expression data

scientific article

Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks

scientific article

Interaction of pseudomonas aeruginosa with epithelial cells: identification of differentially regulated genes by expression microarray analysis of human cDNAs

scientific article

Iterative Bayesian Model Averaging: a method for the application of survival analysis to high-dimensional microarray data

scientific article

Large-scale monitoring of host cell gene expression during HIV-1 infection using cDNA microarrays.

scientific article

Laser capture microdissection enables cellular and molecular studies of tooth root development

scientific article

Markedly different genome arrangements between serotype a strains and serotypes b or c strains of Aggregatibacter actinomycetemcomitans

scientific article

MeV+R: using MeV as a graphical user interface for Bioconductor applications in microarray analysis

scientific article

Metagenomic Analysis of Subgingival Microbiota Following Non-Surgical Periodontal Therapy: a Pilot Study ⬇️

scientific article published on December 28, 2012

Methods for the inference of biological pathways and networks

scientific article published on January 2009

Minimum information specification for in situ hybridization and immunohistochemistry experiments (MISFISHIE)

scientific article

Multiclass classification of microarray data with repeated measurements: application to cancer

scientific article

Multifunctionality of PAI-1 in fibrogenesis: evidence from obstructive nephropathy in PAI-1-overexpressing mice

scientific article published in June 2005

Negative selection: a method for obtaining low-abundance cDNAs using high-density cDNA clone arrays

scientific article published on 01 December 1999

On the persistence of supplementary resources in biomedical publications

scientific article published on 19 May 2006

PEDB: the Prostate Expression Database

scientific article

Phylobook: a tool for display, clade annotation and extraction of sequences from molecular phylogenies

scientific article published on 10 May 2024

Propionibacterium persists in the skin despite standard surgical preparation

scientific article published on September 2014

Proteomic and computational analysis of bronchoalveolar proteins during the course of the acute respiratory distress syndrome

scientific article

Protinfo PPC: a web server for atomic level prediction of protein complexes

scientific article

Quality Control and Robust Estimation for cDNA Microarrays With Replicates

RNA amplification, fidelity and reproducibility of expression profiling

scientific article published in October 2003

Relationships between deficits in tissue mass and transcriptional programs after partial hepatectomy in mice

scientific article

Rosaceaous Genome Sequencing: Perspectives and Progress

Sample size for detecting differentially expressed genes in microarray experiments.

scientific article

Stitching together multiple data dimensions reveals interacting metabolomic and transcriptomic networks that modulate cell regulation

scientific article

The Transcriptome and Its Translation during Recovery from Cell Cycle Arrest inSaccharomyces cerevisiae

The derivation of diagnostic markers of chronic myeloid leukemia progression from microarray data

scientific article

The genome of the domesticated apple (Malus × domestica Borkh.)

scientific article

The prostate expression database (PEDB): status and enhancements in 2000.

scientific article

Validation of an oligonucleotide ligation assay for quantification of human immunodeficiency virus type 1 drug-resistant mutants by use of massively parallel sequencing

scientific article

What Is the Best Reference RNA? And Other Questions Regarding the Design and Analysis of Two-color Microarray Experiments

article

cDNA microarray analysis reveals fundamental differences in the expression profiles of primary human monocytes, monocyte-derived macrophages, and alveolar macrophages

scientific article published on 17 October 2006

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