Chapter
1. Importance of Pathology
2. Possible Errors Caused by Tissue Inherent Factors-Why Histology Is Important for Supervised Analysis
3. Possible Errors Caused by Sample Inherent Factors-Small Pretherapeutic Biopsies
4. Possible Errors Caused by Sample Preparations-Artifacts Are Not Your Friend
5. Possible Errors Caused by Ill-Defined Sample Groups in the Training Set-Keep It Black and White/Shades of Gray Are Not ...
Chapter Two: Applications of Mass Spectrometry Imaging to Cancer
1.1. The Advantages of MSI
1.2. The Basic Principles of MSI
2. Protein MSI in Cancer Research
2.1. Distinguishing Tissue Types by Peptide MSI
2.2. Determining Tumor Margins by Peptide MSI
2.3. Prediction of Metastasis by Peptide MSI
2.4. Analysing Chemoresponse by Peptide MSI
2.5. Identification of Diagnostic and Prognostic Markers by Peptide MSI
2.6. Characterisation of Intra- and Intertumor Variability by Peptide MSI
2.7. Practical Considerations for Proteolytic Peptide MSI: Sample Preparation
2.8. Practical Considerations for Peptide MSI: Spatial Resolution
2.9. Practical Considerations for Peptide MSI: Mass Analysers
2.10. Practical Considerations for Peptide MSI: Identification
3. Lipid MSI in Cancer Research
3.1. Profiling Lipids in Cancer by DESI-MSI
3.2. Profiling Lipids in Cancer by SIMS-MSI
4. Glycan MSI in Cancer Research
5. Drug Imaging in Cancer Research
5.1. MALDI-MSI on Tissue Sections
5.2. MALDI-MSI on Whole Body Sections
5.3. MALDI-MSI on 3D Tissue Cultures
6.2. Preprocessing: Peak Detection
6.3. Classification of FFPE-TMAs and the Importance of Dimension Reduction
7.1. The Future of MSI: Molecular Pathology
Chapter Three: Assessing the Potential of Metal-Assisted Imaging Mass Spectrometry in Cancer Research
3.1. Preparation of Silver-Coated Glass Slides
3.2. Tissue Deposition on Silver- or ITO-Coated Slides
3.3. Silver Deposition on Tissue Section
3.4. LDI Data Acquisition of a Silver-Coated Tissue Section
3.5. Fast Optimization of New Tissue Sections
4.1. Preparation of Gold-Coated Glass Slides
4.2. Tissue Deposition on ITO- or Gold-Coated Slides
4.3. Sodium Salt Deposition
4.4. Gold Deposition on Tissue Section
4.5. LDI Data Acquisition of a CBS-Au-Coated Tissue Section
5. Applications to Cancer Research
Chapter Four: MALDI Mass Spectrometry Imaging of N-Linked Glycans in Cancer Tissues
2. Glycosylation and Cancer
2.1. Function and Types of Glycosylation
2.2. N-Linked Glycan Biosynthesis
2.3. N-Linked Glycans and Cancer
3. Methodology for N-Linked Glycan Detection by MALDI Imaging
3.2. Glycan Visualization in Tissues: Lectins and Anticarbohydrate Antibodies
3.3. Histochemistry Stains
3.4. Peptide N-Glycosidase F
3.5. Matrix and Instrumentation Choices for N-Glycans
3.6. Structural Confirmation
4. N-Glycan Distribution Linked With Histopathology
4.1. Major Structural Classes
4.2. High-Mannose N-Glycans
4.3. Nontumor Stroma and Normal Tissue Glycans
4.4. N-Glycan Branching and Sialylation
4.5. Fucosylation and the Glycan Isomer Problem
5.1. Combined Glycan and Peptide MS Imaging
5.2. Custom Multitumor TMA and Other Enzymes
5.3. Linkage to Genomic Studies
5.4. Potential Clinical Diagnostic Applications of N-Glycan MSI Data
Chapter Five: In Situ Metabolomics in Cancer by Mass Spectrometry Imaging
1. Metabolomics in Cancer
2. In Situ Metabolomics by MALDI Imaging
3. Fresh-Frozen- vs Formalin-Fixed Paraffin-Embedded Tissue Samples
4. Tissue-Based Disease Classification-Diagnostic Markers and Metabolic Signatures
5. Therapy Response Prediction and Prognosis
6. Intra- and Intertumoral Heterogeneity
Chapter Six: Mass Spectrometry Imaging in Oncology Drug Discovery
2. How MSI Can Inform Our Understanding of Pharmacokinetic-Pharmacodynamic Relationships
4. Tumor Metabolism: MSI Analysis for More Than Just Drug Distribution
7. Toxicity and Safety Assessment
8. Biomarkers for Efficacy
10. Tumor Microenvironment
13. Beyond Small Molecules
15. Emerging Applications: Spheroids
16. Increased Spatial Resolution
17. Metrology for MS Imaging
Chapter Seven: MALDI IMS and Cancer Tissue Microarrays
2.1. Preparation of the Donor Block
2.2. FFPE TMA Construction
3. MALDI IMS Analysis of TMAs
3.1.1. Cutting, Deparaffinization, and AR
3.1.2. In Situ Enzymatic Digestion
4. Identification of Peptides
5. Application of MALDI IMS on FFPE TMAs
6. Perspectives and Concluding Remarks
Chapter Eight: Mass Spectrometry Imaging for the Investigation of Intratumor Heterogeneity
1.1. Intratumor Heterogeneity
1.3. Clinical Relevance of ITH
1.4. Techniques to Study Spatial Organization of ITH
2. MSI to Study Tumor Heterogeneity
3. Multivariate Data Analysis Strategies in MSI
3.1. Unsupervised Analysis
3.2. Supervised Classification
4. MSI Applications for the Investigation of ITH
4.1. Revealing ITH by Clustering
4.2. Supervised Classification of ITH
4.3. Investigating the Degree of ITH
4.4. Investigation of ITH on Different Molecular Levels
5. Future Applications of MSI in ITH Research
Chapter Nine: Ambient Mass Spectrometry in Cancer Research
1. Desorption Electrospray Ionization
2. Intraoperative Mass Spectrometry
4. DESI-MSI for Drug Imaging in Cancer Research
Chapter Ten: Rapid Mass Spectrometry Imaging to Assess the Biochemical Profile of Pituitary Tissue for Potential Intraope ...
2. Current Imaging and Visualization Techniques
3. Mass Spectrometry in Clinical Usage
3.1. Atmospheric Pressure Ionization Mass Spectrometry
3.2. Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry
Chapter Eleven: Mass Spectrometry Imaging in Cancer Research: Future Perspectives
Applications of Mass Spectrometry Imaging to Cancer
( Volume 134 )
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