Part I: Review of Hepatitis C Virus and Bioinformatic Tools

1. Overview of Direct Acting Antiviral Drugs and Drug Resistance of Hepatitis C Virus

Darrick K. Li and Raymond T. Chung

1. Similarities and Differences between HCV Pseudoparticle (HCVpp) and Cell Culture HCV (HCVcc) in the Study of HCV

Laura Riva and Jean Dubuisson

1. Hepatitis C Virus Database and Bioinformatics Analysis Tools in the Virus Pathogen Resource (ViPR)

Yun Zhang, Christian Zmasek, Guangyu Sun, Christopher N. Larsen, and Richard H. Scheuermann

Part II: Methods for Virus Cloning, Culture, and Purification

1. Establishment of Replication-competent HCV Strain with Minimum Modifications

Takanobu Kato, Asako Murayama, and Takaji Wakita

1. Full-length Open Reading Frame Amplification of Hepatitis C Virus

Ulrik Fahnøe and Jens Bukh

1. InFusion Cloning for the Generation of Biologically Relevant HCV Chimeric Molecular Clones

Barnabas King, Richard Urbanowicz, Alexander W. Tarr, Jonathan K. Ball, and C. Patrick McClure

1. Production and Purification of Cell Culture Hepatitis C Virus

Cynthia de la Fuente and Maria Teresa Catanese

1. Embryonic or Induced Pluripotent Stem Cell-derived Hepatocellular Systems for HCV Culture

Xianfang Wu and Viet Loan Dao Thi

Part III: Methods for the Study of HCV Life Cycle

1. Molecular Identification of Transmitted/Founder Hepatitis C Viruses and their Progeny by Single Genome Sequencing

Hui Li, Muhammad N. Zahid, Shuyi Wang, and George M. Shaw

1. A Cell Culture Model for Persistent HCV Infection

Victoria Castro, Ginés Ávila, Lidia Mingorance, and Pablo Gastaminza

1. Expression Cloning of Host Factors Required for the HCV Replication Cycle

Sandra Ciesek and Thomas von Hahn

1. Application of Deep Mutational Scanning in Hepatitis C Virus

Nicholas C. Wu and Hangfei Qi

1. Studying the Hepatitis C Virus-induced Epigenetic Signature after Cure with Direct-acting Antivirals

Shira Perez and Meital Gal-Tanamy

1. Measuring Hepatitis C Virus Envelopment by using a Proteinase K Protection Assay

Allison E. Roder and Stacy M. Horner

1. Membrane Fusion Assays for Studying Entry Hepatitis C Virus into Cells

Solène Denolly, François-Loïc Cosset, and Natalia Freitas

1. Functional Characterization of Apolipoproteins in the HCV Life Cycle

Luhua Qiao and Guangxiang (George) Luo

1. Investigating Hepatitis C Virus Infection Using Super-resolution Microscopy

Pedro Matos Pereira, Caron Jacobs, and Joe Grove

1. Live Cell Imaging of Hepatitis C Virus Trafficking in Hepatocytes Yasmine Baktash and Glenn Randall

2. Cloning and Analysis of Authentic Patient-derived HCV E1/E2 Glycoproteins

Richard A. Urbanowicz, Jonathan K. Ball, and Alexander W. Tarr

1. Simultaneous Quantification of Hepatitis C virus Envelope Glycoproteins E1 and E2 by Dual-color Fluorescence Immunoblot Analysis

Fang Chen, Erick Giang, Radhika Gopal, and Mansun Law

1. Overcoming Challenges of Hepatitis C Virus Envelope Glycoprotein Production in Mammalian Cells

Samantha A. Yost, Jillian Whidby, Abdul G. Khan, Yuanyuan Wang, and Joseph Marcotrigiano

Part IV: Methods for Studying Immune Responses

1. Monitoring of Interferon Response Triggered by Cells Infected by Hepatitis C Virus or Other Viruses upon Cell-cell Contact

Séverin Coléon, Sonia Assil, and Marlène Dreux

1. Complement Regulation and Immune Evasion by Hepatitis C Virus

Young-Chan Kwon and Ranjit Ray

1. Direct ex vivo Functional Analysis of HCV-specific T Cells

Su-Hyung Park and Eui-Cheol Shin

1. Simultaneous Analysis of HCV-specific CD4 + and CD8 + T Cells by Multi-color Flow Cytometry David Wolski and Georg M Lauer

2. Probing the Antigenicity of HCV Envelope Glycoproteins by Phage Display Antibody Technology

Erick Giang, Fernando Aleman, and Mansun Law

1. Isolation of HCV Neutralizing Antibodies by Yeast Display

Zhenyong Keck, Yong Wang, Patri