Alexandra Badea

Journal article Neuroimage · February 1, 2012 Featured Publication We introduce an automated method, called prior feature Support Vector Machine-Markov Random Field (pSVMRF), to segment three-dimensional mouse brain Magnetic Resonance Microscopy (MRM) images. Our earlier work, extended MRF (eMRF) integrated Support Vector ... Full text Link to item Cite

Identifying human disease genes through cross-species gene mapping of evolutionary conserved processes.

Journal article PLoS One · May 4, 2011 Featured Publication BACKGROUND: Understanding complex networks that modulate development in humans is hampered by genetic and phenotypic heterogeneity within and between populations. Here we present a method that exploits natural variation in highly diverse mouse genetic refe ... Full text Link to item Cite

A symmetrical Waxholm canonical mouse brain for NeuroMaps.

Journal article J Neurosci Methods · February 15, 2011 Featured Publication NeuroMaps (2010) is a Web-based application that enables investigators to map data from macaque studies to a canonical atlas of the macaque brain. It currently serves as an image processor enabling them to create figures suitable for publication, presentat ... Full text Link to item Cite

Quantitative neuromorphometry using magnetic resonance histology.

Journal article Toxicol Pathol · January 2011 Featured Publication Magnetic resonance imaging (MRI), now common in the clinical domain, has been adapted for use by the neuropathologist by increasing the spatial resolution over 100,000 times what is common in human clinical imaging. This increase in spatial resolution has ... Full text Link to item Cite

Waxholm space: an image-based reference for coordinating mouse brain research.

Journal article Neuroimage · November 1, 2010 Featured Publication We describe an atlas of the C57BL/6 mouse brain based on MRI and conventional Nissl histology. Magnetic resonance microscopy was performed on a total of 14 specimens that were actively stained to enhance tissue contrast. Images were acquired with three dif ... Full text Link to item Cite

Remote sites of structural atrophy predict later amyloid formation in a mouse model of Alzheimer's disease.

Journal article Neuroimage · April 1, 2010 Featured Publication Magnetic resonance (MR) imaging can provide a longitudinal view of neurological disease through repeated imaging of patients at successive stages of impairment. Until recently, the difficulty of manual delineation has limited volumetric analyses of MR data ... Full text Link to item Cite

Genetic dissection of the mouse CNS using magnetic resonance microscopy.

Journal article Curr Opin Neurol · August 2009 Featured Publication PURPOSE OF REVIEW: Advances in magnetic resonance microscopy (MRM) make it practical to map gene variants responsible for structural variation in brains of many species, including mice and humans. We review results of a systematic genetic analysis of MRM d ... Full text Link to item Cite

Automated segmentation of mouse brain images using extended MRF.

Journal article Neuroimage · July 1, 2009 Featured Publication We introduce an automated segmentation method, extended Markov random field (eMRF), to classify 21 neuroanatomical structures of mouse brain based on three dimensional (3D) magnetic resonance images (MRI). The image data are multispectral: T2-weighted, pro ... Full text Link to item Cite

Genetic dissection of the mouse brain using high-field magnetic resonance microscopy.

Journal article Neuroimage · May 1, 2009 Featured Publication Magnetic resonance (MR) imaging has demonstrated that variation in brain structure is associated with differences in behavior and disease state. However, it has rarely been practical to prospectively test causal models that link anatomical and functional d ... Full text Link to item Cite

Automated segmentation of the actively stained mouse brain using multi-spectral MR microscopy.

Journal article Neuroimage · January 1, 2008 Featured Publication Magnetic resonance microscopy (MRM) has created new approaches for high-throughput morphological phenotyping of mouse models of diseases. Transgenic and knockout mice serve as a test bed for validating hypotheses that link genotype to the phenotype of dise ... Full text Link to item Cite

Small animal imaging with magnetic resonance microscopy.

Journal article ILAR J · 2008 Featured Publication Small animal magnetic resonance microscopy (MRM) has evolved significantly from testing the boundaries of imaging physics to its expanding use today as a tool in noninvasive biomedical investigations. MRM now increasingly provides functional information ab ... Full text Link to item Cite

Morphometric analysis of the C57BL/6J mouse brain.

Journal article Neuroimage · September 1, 2007 Featured Publication Magnetic resonance microscopy (MRM), when used in conjunction with active staining, can produce high-resolution, high-contrast images of the mouse brain. Using MRM, we imaged in situ the fixed, actively stained brains of C57BL/6J mice in order to character ... Full text Link to item Cite

High-throughput morphologic phenotyping of the mouse brain with magnetic resonance histology.

Journal article Neuroimage · August 1, 2007 Featured Publication The Mouse Biomedical Informatics Research Network (MBIRN) has been established to integrate imaging studies of the mouse brain ranging from three-dimensional (3D) studies of the whole brain to focused regions at a sub-cellular scale. Magnetic resonance (MR ... Full text Link to item Cite

Neuroanatomical phenotypes in the reeler mouse.

Journal article Neuroimage · February 15, 2007 Featured Publication The reeler mouse (Reln) has been proposed as a neurodevelopmental model for certain neurological and psychiatric conditions and has been studied by qualitative histochemistry and electron microscopy. Using magnetic resonance microscopy (MRM), we have quant ... Full text Link to item Cite

Automated segmentation of neuroanatomical structures in multispectral MR microscopy of the mouse brain.

Journal article Neuroimage · August 15, 2005 Featured Publication We present the automated segmentation of magnetic resonance microscopy (MRM) images of the C57BL/6J mouse brain into 21 neuroanatomical structures, including the ventricular system, corpus callosum, hippocampus, caudate putamen, inferior colliculus, intern ... Full text Link to item Cite

Surface visualization of electromagnetic brain activity.

Journal article J Neurosci Methods · August 15, 2003 Featured Publication Advances in hardware and software have made possible the reconstruction of brain activity from non-invasive electrophysiological measurements over a large part of the brain. The appreciation of the information content in the data is enhanced when relevant ... Full text Link to item Cite