All Outputs (9)

Multi-omics analysis of multiple missions to space reveal a theme of lipid dysregulation in mouse liver (2019)
Journal Article

Spaceflight has several detrimental effects on the physiology of astronauts, many of which are recapitulated in rodent models. Mouse studies performed on the Space Shuttle showed disruption of lipid metabolism in liver. However, given that these anim... Read More about Multi-omics analysis of multiple missions to space reveal a theme of lipid dysregulation in mouse liver.

The effects of rosiglitazone on the neonatal rat cardiomyocyte transcriptome: a temporal analysis (2019)
Journal Article
Abraham da Silveira, W., Vazquez-Hidalgo, E., Bartolotta, E., Renaud, L., Paolini, P., & Hardiman, G. (2019). The effects of rosiglitazone on the neonatal rat cardiomyocyte transcriptome: a temporal analysis. Pharmacogenomics, 20(16), 1125-1141. https://doi.org/10.2217/pgs-2019-0077

Aim: The objective was to determine via high-throughput RNA sequencing the temporal effects of rosiglitazone (Avandia®) on the neonatal rat ventricular myocyte transcriptome.

Materials & methods: Neonatal rat ventricular myocytes (NRVMs) were exp... Read More about The effects of rosiglitazone on the neonatal rat cardiomyocyte transcriptome: a temporal analysis.

Spaceflight influences gene expression, photoreceptor integrity, and oxidative stress-related damage in the murine retina (2019)
Journal Article

Extended spaceflight has been shown to adversely affect astronaut visual acuity. The purpose of this study was to determine whether spaceflight alters gene expression profiles and induces oxidative damage in the retina. Ten week old adult C57BL/6 mal... Read More about Spaceflight influences gene expression, photoreceptor integrity, and oxidative stress-related damage in the murine retina.

Mice Exposed to Combined Chronic Low-Dose Irradiation and Modeled Microgravity Develop Long-Term Neurological Sequelae (2019)
Journal Article

Spaceflight poses many challenges for humans. Ground-based analogs typically focus on single parameters of spaceflight and their associated acute effects. This study assesses the long-term transcriptional effects following single and combination spac... Read More about Mice Exposed to Combined Chronic Low-Dose Irradiation and Modeled Microgravity Develop Long-Term Neurological Sequelae.

Gene expression and immunohistochemical analyses identify SOX2 as major risk factor for overall survival and relapse in Ewing sarcoma patients (2019)
Journal Article

Background: Up to 30-40% of Ewing sarcoma (EwS) patients with non-metastatic disease develop local or metastatic relapse within a time span of 2-10 years. This is in part caused by the absence of prognostic biomarkers that can identify high-risk pati... Read More about Gene expression and immunohistochemical analyses identify SOX2 as major risk factor for overall survival and relapse in Ewing sarcoma patients.

GAIL: An interactive webserver for inference and dynamic visualization of gene-gene associations based on gene ontology guided mining of biomedical literature (2019)
Journal Article

In systems biology, inference of functional associations among genes is compelling because the construction of functional association networks facilitates biomarker discovery. Specifically, such gene associations in human can help identify putative b... Read More about GAIL: An interactive webserver for inference and dynamic visualization of gene-gene associations based on gene ontology guided mining of biomedical literature.

Primary cilia defects causing mitral valve prolapse (2019)
Journal Article

Mitral valve prolapse (MVP) affects 1 in 40 people and is the most common indication for mitral valve surgery. MVP can cause arrhythmias, heart failure, and sudden cardiac death, and to date, the causes of this disease are poorly understood. We now d... Read More about Primary cilia defects causing mitral valve prolapse.

A Human Skin Model Recapitulates Systemic Sclerosis Dermal Fibrosis and Identifies COL22A1 as a TGFβ Early Response Gene that Mediates Fibroblast to Myofibroblast Transition (2019)
Journal Article
Watanabe, T., Baker Frost, D., Mlakar, L., Heywood, J., da Silveira, W. A., Hardiman, G., & Feghali-Bostwick, C. (2019). A Human Skin Model Recapitulates Systemic Sclerosis Dermal Fibrosis and Identifies COL22A1 as a TGFβ Early Response Gene that Mediates Fibroblast to Myofibroblast Transition. Genes, 10(2), Article 75. https://doi.org/10.3390/genes10020075

Systemic sclerosis (SSc) is a complex multi-system autoimmune disease characterized by immune dysregulation, vasculopathy, and organ fibrosis. Skin fibrosis causes high morbidity and impaired quality of life in affected individuals. Animal models do... Read More about A Human Skin Model Recapitulates Systemic Sclerosis Dermal Fibrosis and Identifies COL22A1 as a TGFβ Early Response Gene that Mediates Fibroblast to Myofibroblast Transition.

Molecular Profiling of RNA Tumors Using High-Throughput RNA Sequencing: From Raw Data to Systems Level Analyses (2019)
Journal Article
Abraham da Silveira, W., Hazard, E. S., Chung, D., & Hardiman, G. (2019). Molecular Profiling of RNA Tumors Using High-Throughput RNA Sequencing: From Raw Data to Systems Level Analyses. Methods in Molecular Biology, 185-204. https://doi.org/10.1007/978-1-4939-9004-7_13

RNAseq is a powerful technique enabling global profiles of transcriptomes in healthy and diseased states. In this chapter we review pipelines to analyze the data generated by sequencing RNA, from raw data to a system level analysis. We first give an... Read More about Molecular Profiling of RNA Tumors Using High-Throughput RNA Sequencing: From Raw Data to Systems Level Analyses.