Allen reference atlas : A digital color brain atlas of the C57Black/6J male mouse / Hong-Wei Dong. — Hoboken, N.J. : John Wiley & Sons, Inc., 2008. – (59.1343074/D682) |
Contents
Contents
Foreword
Preface
Acknowledgments
1 Introduction 1
A Brief History of Modern Neuroanatomy and Brain Mapping 1
Gross Neuroanatomy 1
Cytoarchitectonics and Myeloarchitectonics 1
Chemical Neuroanatomy and Modern Neural Tract Tracing 2
Molecular Neuroanatomy 3
Computational Neuroanatomy 4
Global Efforts in Brain Mapping 5
Cell-based Approach 6
Gene-based Approach 6
The Allen Institute for Brain Science and the Allen Brain Atlas Project 6
The Allen Reference Atlas (ARA) and its Unique Features 7
2 Construction of the Allen Reference Atlas 9
Materials and Methods 9
Animals and Histology 9
Digital Image Acquisition 9
Annotation of Nissl Images and Making Adobe Illustrator Drawings 10
Level Selection 10
Stereotaxic Coordinate System 10
Development of Ontology, Hierarchical Structure Tree, and Color Scheme 10
The Principle of ARA Ontology Development 10
Organization of the Mouse Central Nervous System 11
Development of a Hierarchically Organized Brain Structure Tree and Color Scheme 15
Gene Markers and Delineation of Brain Structures 17
Cerebrum 19
Cerebellum 21
Brainstem , 21
3 Allen Reference Atlas Applications 23
ARA Online Version and ABA Gene Expression Database 23
ARA Digital Version, its 3D Computer Graphics Models (Brain Explorer), and its Informatics Applications 23
ARA and ABA Gene Expression Annotation 25
4 Atlas of 132 Transverse Levels 26
5 Atlas of 21 Sagittal Levels 290
6 Annotated Nomenclature Tables 333
7 Indexes 343
Index I Abbreviations 344
Index 2 Brain Structures by Name 351
Index 3 Gene Markers 359