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Parasite Genomics: Methods and Protocols
Paperback
Series: Methods in Molecular Biology, Book 2369
ISBN13: 9781071616833
Publisher: Humana Pr
Published: Jul 29 2022
Pages: 336
Weight: 1.34
Height: 0.73 Width: 7.00 Depth: 10.00
Language: English
Part I: Novel Sequencing and Bioinformatic Pipelines for the Study of Parasite Genomes
1. Nanopore Long Read DNA Sequencing of Protozoan Parasites: Hybrid Genome Assembly of Trypanosoma cruzi
Florencia DÃaz-Viraqué, Gonzalo Greif, Luisa Berná, and Carlos Robello
2. Chromosomes Conformation Capture Coupled with Next Generation Sequencing (Hi-C) in Plasmodium falciparum
Mohit Gupta, Todd Lenz, and Karine G. Le Roch
3. Sequencing and Reconstructing Helminth Mitochondrial Fenomes Directly from Genomic Next-Generation Sequencing Data
Nikola Palevich and Paul Haydon Maclean
4. Automated Phylogenetic Analysis Using Best Reciprocal BLAST
Erin R. Butterfield, James C. Abbott, and Mark C. Field
Part II: Diagnostic Approaches Using Genomic Tools
5. An Illumina MiSeq-Based Amplicon Sequencing Method for the Detection of Mixed Parasite Infections Using the Blastocystis SSU rRNA Gene as an Example
Jenny G. Maloney, Nadja S. George, Aleksey Molokin, and Monica Santin
6. Giardia duodenalis: Detection by Quantitative Real-Time PCR and Molecular Diversity
Alejandro Dashti, Pamela C. Köster, and David Carmena
Part III: Host-Parasite Interactions: Deciphering Gene Function and Molecular Processes in Parasites
7. Conditional Gene Deletion in Mammalian and Mosquito Stages of Plasmodium berghei Using Dimerizable Cre Recombinase
Priyanka Fernandes, Manon Loubens, Olivier Silvie, and Sylvie Briquet
8. Coupling Auxin-Inducible Degron System with Ultrastructure Expansion Microscopy to Accelerate the Discovery of Gene Function in Toxoplasma gondii
Nicolas Dos Santos Pacheco and Dominique Soldati-Favre
9. Genome-Wide Analysis of RNA-Protein Interactions in Plasmodium falciparum Using eCLIP-Seq
Thomas Hollin, Steven Abel, and Karine G. Le Roch
10. Transcriptional Analysis of Tightly Synchronized Plasmodium falciparum Intraerythrocytic Stages by RT-qPCR
Núria Casas-Vila, Anastasia K. Pickford, Harvie P. Portugaliza, Elisabet Tintó-Font, and Alfred Cortés
11. Analysis of the Interaction between Plasmodium falciparum-Infected Erythrocytes and Human Endothelial Cells Using a Laminar Flow System, Bioinformatic Tracking and Transcriptome Analysis
Yifan Wu, Philip Bouws, Stephan Lorenzen, Iris Bruchhaus, and Nahla Galal Metwally
12. Integration of Genomic and Transcriptomic Data to Elucidate Molecular Processes in Babesia divergens
Luis Miguel González, Elena Sevilla, Miguel Fernández-GarcÃa, Alejandro Sánchez-Flores, and Estrella Montero
13. Integration of Functional Genomic, T
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