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Cytogenetics - Technologies, Markets and Companies Product Image

Cytogenetics - Technologies, Markets and Companies

  • ID: 344168
  • December 2014
  • Region: Global
  • 231 Pages
  • Jain PharmaBiotech

This report deals with cytogenetics in a broader sense rather than the classical use mainly to describe the chromosome structure and identify abnormalities related to disease. In the age of molecular biology, it is also referred to as molecular cytogenetics. Historical landmarks in the evolution of cytogenetics are reviewed since the first images of chromosomes were made in 1879. The scope of cytogenetics includes several technologies besides fluorescence in situ hybridization (FISH), comparative genomic hybridization (CGH), and multicolor FISH. Molecular cytogenetics includes application of nanobiotechnology, microarrays, real-time polymerase chain reaction (PCR), in vivo imaging, and single molecule detection. Bioinformatics is described briefly as it plays an important role in analyzing data from many of these technologies.

FISH remains the single most important technology in cytogenetics. Several innovations are described of which the most important are single copy FISH, in vivo FISH (imaging of nucleic acids in living cells) and nanotechnology-based FISH. The unique character of peptide nucleic acid (PNA) allows these probes to hybridize to target nucleic acid molecules READ MORE >

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0. Executive Summary

1. Introduction
Definitions
Historical evolution of cytogenetics
Scope of cytogenetics
Molecular cytogenetics
Basics of molecular biology relevant to cytogenetics
DNA
RNA
DNA transcription
Chromosomes
Mitochondrial DNA
Genes
The genetic code
Gene expression
The human genome
Variations in the human genome
Variations in DNA sequences
Single nucleotide polymorphisms
Copy number variations in the human genome
Genotype and haplotypes
Complex chromosomal rearrangements
Insertions and deletions in the human genome
Large scale variation in human genome
Structural variations in the human genome
Replication of the DNA helix
Transposons
Mapping and sequencing of structural variation from human genomes

2. Technologies used for cytogenetics
Introduction
Quantitative fluorescent polymerase chain reaction
RNA interference and cytogenetics
RNA-induced transcriptional silencing complex
Single cell genetics by siRNA ablation
RNAi and cancer cytogenetics
Role of miRNAs in cancer cytogenetics
Preimplantation genetic diagnosis
Preimplantation genetic haplotyping
Bioinformatics and cytogenetics
FISH probe design software
LS-CAP algorithm
Distance-based clustering of CGH data

3. Fluorescent In Situ Hybridization
Introduction
Innovative FISH technologies
Automation of FISH
Chromogenic in situ hybridization (CISH)
Direct visual in situ hybridization
Direct labeled Satellite FISH probes
Fiber FISH
FISH with telomere-specific probes
High-throughput quantitative FISH
In vivo FISH
Interphase FISH
Intron chromosomal expression FISH
Multicolor FISH
Multicolor chromosome banding
Oligonucleotide FISH
peT-FISH™
Primed in situ labeling
RNA-FISH
Single copy FISH probes
Use of peptide nucleic acid with FISH
Use of locked nucleic acids with FISH
Applications of FISH
Companies involved in FISH diagnostics

4. Genomic Technologies relevant to Cytogenetics
Introduction
Microarrays/biochips for cytogenetics
Microarrays vs karyotyping
Tissue microarrays
Chromosome copy number analysis
Combination of FISH and gene chips
Combination of CGH+SNP microarrays
SignatureChip®
Molecular Combing
High density oligonucleotide arrays
Next Generation Screening®
Comparative genomic hybridization
Array-based comparative genomic hybridization
aCGH vs karyotyping
Comparison of array CGH and multipoint FISH
Combined use of tissue microarrays and aCGH
Single-cell array CGH
Regulatory requirements for array CGH
Future prospects of aCGH
Whole genome expression microarrays
Life Technologies Expression Array System
Arrayit's® H25K
CytoScan® HD Array
Optical Mapping
Single cell cytogenetics
Single cell PCR
LATE-PCR
AmpliGrid-System
Digital Counting
Analysis of single-cell gene expression
Fluorescent in situ RNA sequencing
Application of single cell cytogenetics in preimplantation genetic testing
Direct molecular analysis without amplification

5. Molecular Imaging & Single Molecular Detection
Molecular imaging
Companies involved in molecular imaging
Single molecule detection
Spectrally resolved fluorescence lifetime imaging microscopy
Single-molecule fluorescence resonance energy transfer
Confocal laser scanning
Single Molecule Array
PCR systems for single molecule detection
Real-time PCR
Digital PCR
Emulsion PCR
Rolling circle amplification technology
Microfluidic assay for protein expression at the single molecule level
Bioinformatic and single molecule detection

6. Role of Nanobiotechnology in Cytogenetics
Introduction
Nanobiology and the cell
Visualization on nanoscale
Application of AFM for biomolecular imaging
Future insights into biomolecular processes by AFM
Use of AFM for microdissection of chromosomes
Scanning probe microscopy
Near-field scanning optical microscopy
Multiple single-molecule fluorescence microscopy
Nanoscale scanning electron microscopy
Nanotechnology-based FISH
Study of chromosomes by atomic force microscopy
Quantum dot FISH
Nanobiotechnology for single molecule detection
Nanolaser spectroscopy for detection of cancer in single cells
Carbon nanotube transistors for genetic screening
Quantum-dots-FRET nanosensors for single molecule detection
3D single-molecular imaging by nanotechnology
Manipulation of DNA sequence by use of nanoparticles
Nanofluidic/nanoarray devices to detect a single molecule of DNA
Nanopore technology
Portable nanocantilever system for diagnosis
Nanobiosensors

7. Biomarkers and Cytogenetics
Introduction
Definitions
Biomarkers and cytogenetics
Cancer biomarkers
Technologies for detection of cancer biomarkers
Telomerase as a biomarker of cancer
Digital karyotyping for cancer biomarkers
Optical systems for in vivo molecular imaging of cancer
Circulating cancer cells in blood as biomarkers of cancer
Array CGH for biomarker discovery in cancer
Genetic biomarkers

8. Applications of Cytogenetics
Introduction
Applications of cytogenetics in research
Cytogenetics of embryonic stem cells
Genetic disorders
Technologies for diagnosis of genetic disorders
Cytogenetic microarrays for diagnosis of mental retardation
Detection of copy number variations in genetic disorders
Detection of non-recurrent DNA rearrangements by aCGH
Quantitative fluorescent PCR
Representational oligonucleotide microarray analysis
SignatureChip®-based diagnostics for cytogenetic abnormalities
Screening for cytogenetic abnormalities
Cytogenetics in prenatal diagnosis
aCGH for prenatal diagnosis
BAC HD Scan test
FISH for prenatal diagnosis
PCR for prenatal diagnosis of trisomy 21
Plasma DNA sequencing to detect fetal chromosomal aneuploidies
Concluding remarks and future prospects of prenatal diagnosis
Cytogenetics in preimplantation genetic diagnosis
Array CGH for PGD
Fluorescent PCR for PGD
FISH for PGD
PGD using whole genome amplification
Conditions detected by preimplantation cytogenetic diagnosis
The future of preimplantation genetic diagnosis
Disorders of the nervous system
Application of cytogenetics in epilepsy
Neuropsychiatric disorders in children
Cardiovascular disorders
Infections
PNA-FISH for diagnosis of infections
Diagnosis of bacterial infections at single molecule level
Detection of single virus particles
Role of cytogenetics in drug discovery and development
Role of cytogenetics in the development of personalized medicine
Relation of cytogenetics to personalized medicine
Cytomics as a basis for personalized medicine
Molecular imaging and personalized medicine
Cytogenetics for gender determination
Gender determination in competitive sport
Gender determination in forensic cases
Regulatory aspects of FISH

9. Cancer Cytogenetics
Cancer genetics
Cytogenetic abnormalities in cancer
Cytogenetic technologies for molecular diagnosis of cancer
Applications of aCGH in oncology
Cytogenetics of tumor cells in body fluids
Cytogenetics and microRNAs
FISH on paraffin-embedded tissues
Gene expression profiles predict chromosomal instability in tumors
Loss of heterozygosity
Molecular Combing for cancer diagnosis
Mutation detection at molecular level
Proteomic identification of oncogenic chromosomal translocation partners
SNPs and cytogenetics
Tissue microarrays for cancer diagnosis
Applications of cytogenetics in molecular diagnosis of cancer
Molecular cytogenetics in hematological malignancies
Chromosome translocations in leukemias
Cytogenetics diagnostics for leukemia
Cytogenetics of acute myeloid leukemia
Detection of p53 deletions in chronic lymphocytic leukemia
Cytogenetics of lymphomas
Cytogenetics of myelodysplastic syndrome
Cytogenetics of plasma cell myeloma
Bladder cancer
Bone and soft tissue tumors
Brain tumors
Breast cancer
Chromosomal aberrations in breast carcinomas
FISH vs CISH and SISH for determining of HER-2/neu amplification
Genomic profiles of breast cancer
Colorectal cancer
Lung cancer
Ovarian cancer
aCGH analyses of cisplatin-resistant ovarian cancer cells
Prostate cancer
Renal cancer
Thyroid cancer
Cytogenetics-based anticancer strategies
aCGH-based strategies for targeting cancer pathways
Allele-specific inhibition
Prognostic and therapeutic significance of gene amplifications
RNAi-based approach for leukemia
Significance of double minutes
Online resources for cancer cytogenetics
The Cancer Genome Atlas
Concluding remarks on cancer cytogenetics

10. Cytogenetics Markets
Introduction
Methods for study of cytogenetic markets
Cytogenetic markets according to technologies
Market for FISH technologies
Array CGH markets
Sorting the markets of overlapping technologies
Markets for cytogenetics according to therapeutic areas
Geographical distribution of markets for cytogenetics
SWOT of competing technologies
Unfulfilled needs
Limitations of current technologies
Promising future developments in cytogenetics
Commercial aspects of genome sequencing technologies
Cost of genotyping

11. Companies
Profiles of companies
Collaborations

12. References

Tables
Table 1-1: Historical landmarks in the evolution of cytogenetics
Table 2-1: A classification of technologies used for cytogenetics
Table 3-1: Classification and scope of FISH and related technologies
Table 3-2: A selection of companies with FISH diagnostics
Table 4-1: Microarray/biochip-based technologies for cytogenetics
Table 4-2: Chromosomal structural abnormalities detected by CGH
Table 4-3: Companies developing whole genome chips/microarrays
Table 5-1: Companies involved in developing molecular imaging
Table 5-2: Technologies for single molecule detection
Table 6-1: Nanobiotechnologies for single molecule detection
Table 7-1: Types of cancer biomarkers relevant to cytogenetics
Table 8-1: Applications of cytogenetics
Table 8-2: Application of preimplantation cytogenetic diagnosis in monogenic disorders
Table 9-1: WHO classification of myelodysplastic syndromes
Table 9-2: Fusion genes in in malignant bone and soft tissue tumors
Table 9-3: Fusion genes in adenocarcinoma of the thyroid
Table 10-1: Cytogenetic markets according to technologies from 2013-2023
Table 10-2: Market size for cytogenetics according to applications 2013-2023
Table 10-3: Global cytogenetics markets 2013-2023
Table 10-4: SWOT of conventional FISH
Table 10-5: SWOT of innovative FISH technologies
Table 10-6: SWOT of PCR-based assays
Table 10-7: SWOT of aCGH
Table 10-8: SWOT of single molecule imaging
Table 11-1: Major suppliers of reagents/services/equipment for cytogenetics
Table 11-2: Major consumers of reagents
Table 11-3: Companies developing innovative technologies in cytogenetics
Table 11-4: Collaborations in cytogenetics

Figures
Figure 6-1: Scheme of a novel optical mRNA biosensor
Figure 8-1: Relation of various technologies to drug discovery and development
Figure 8-2: Relation of cytogenetics to personalized medicine
Figure 8-3: Relation of cytomics to personalized medicine
Figure 9-1: Basic scheme of genome-wide screening techniques for cancer
Figure 10-1: Distribution of applications of cytogenetics in the year 2018
Figure 10-2: Distribution of applications of cytogenetics in the year 2023
Figure 10-3: Unfulfilled needs in cytogenetics according to technologies
Figure 10-4: Unfulfilled needs in cytogenetics according to areas of application

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Professor K. K. Jain is a neurologist/neurosurgeon by training and has been working in the biotechnology/biopharmaceuticals industry for several years. He received graduate training in both Europe and USA, has held academic positions in several countries and is a Fellow of the Faculty of Pharmaceutical Medicine of the Royal Colleges of UK. Currently he is a consultant at Jain PharmaBiotech. Prof. Jain is the author of 415 publications including 16 books (2 as editor) and 48 special reports, which have covered important areas in biotechnology, gene therapy and biopharmaceuticals.

Note: Product cover images may vary from those shown
Note: Product cover images may vary from those shown

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