{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,11]],"date-time":"2026-06-11T02:23:59Z","timestamp":1781144639209,"version":"3.54.1"},"reference-count":97,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2016,7,1]],"date-time":"2016-07-01T00:00:00Z","timestamp":1467331200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2017,7,1]],"date-time":"2017-07-01T00:00:00Z","timestamp":1498867200000},"content-version":"vor","delay-in-days":365,"URL":"http:\/\/www.elsevier.com\/open-access\/userlicense\/1.0\/"},{"start":{"date-parts":[[2016,7,1]],"date-time":"2016-07-01T00:00:00Z","timestamp":1467331200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2016,7,1]],"date-time":"2016-07-01T00:00:00Z","timestamp":1467331200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2016,7,1]],"date-time":"2016-07-01T00:00:00Z","timestamp":1467331200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2016,7,1]],"date-time":"2016-07-01T00:00:00Z","timestamp":1467331200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2016,7,1]],"date-time":"2016-07-01T00:00:00Z","timestamp":1467331200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"NCI","doi-asserted-by":"publisher","award":["1 R01 CA057973"],"award-info":[{"award-number":["1 R01 CA057973"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000060","name":"NIAID","doi-asserted-by":"publisher","award":["1 R01 AI099284"],"award-info":[{"award-number":["1 R01 AI099284"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"Office of the Director and the NIDDK NIH Roadmap for Medical Research","doi-asserted-by":"publisher","award":["1 R01 DK085713"],"award-info":[{"award-number":["1 R01 DK085713"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008119","name":"The Greenberg Medical Research Institute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008119","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"NIH\/NCI Physical Sciences Oncology Center","doi-asserted-by":"publisher","award":["U54 CA143874"],"award-info":[{"award-number":["U54 CA143874"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100006919","name":"MIT","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100006919","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["1DP1 OD003936"],"award-info":[{"award-number":["1DP1 OD003936"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100009784","name":"The Starr Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100009784","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100005883","name":"Fannie and John Hertz Foundation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100005883","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000001","name":"NSF GRFP","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000001","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["clinicalkey.fr","clinicalkey.jp","clinicalkey.com.au","clinicalkey.es","clinicalkey.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Virology"],"published-print":{"date-parts":[[2016,7]]},"DOI":"10.1016\/j.virol.2016.04.020","type":"journal-article","created":{"date-parts":[[2016,4,28]],"date-time":"2016-04-28T18:40:50Z","timestamp":1461868850000},"page":"236-247","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":18,"special_numbering":"C","title":["Viral genome imaging of hepatitis C virus to probe heterogeneous viral infection and responses to antiviral therapies"],"prefix":"10.1016","volume":"494","author":[{"given":"Vyas","family":"Ramanan","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kartik","family":"Trehan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mei.-Lyn.","family":"Ong","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joseph M.","family":"Luna","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hans.-Heinrich","family":"Hoffmann","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christine","family":"Espiritu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Timothy P.","family":"Sheahan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hamsika","family":"Chandrasekar","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert E.","family":"Schwartz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kathleen S.","family":"Christine","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Charles M.","family":"Rice","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexander","family":"van Oudenaarden","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sangeeta N.","family":"Bhatia","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.virol.2016.04.020_bib1","doi-asserted-by":"crossref","first-page":"1483","DOI":"10.1056\/NEJMoa1316366","article-title":"Ledipasvir and Sofosbuvir for previously treated HCV genotype 1 infection","volume":"370","author":"Afdhal","year":"2014","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.virol.2016.04.020_bib2","unstructured":"Agency EM. 2014a. Daklinza, INN-daclatasvir."},{"key":"10.1016\/j.virol.2016.04.020_bib3","doi-asserted-by":"crossref","first-page":"573","DOI":"10.1002\/hep.510280240","article-title":"Detection of widespread hepatocyte infection in chronic hepatitis C","volume":"28","author":"Agnello","year":"1998","journal-title":"Hepatology"},{"key":"10.1016\/j.virol.2016.04.020_bib4","doi-asserted-by":"crossref","first-page":"8181","DOI":"10.1128\/JVI.77.15.8181-8186.2003","article-title":"Host factors in positive-strand RNA virus genome replication","volume":"77","author":"Ahlquist","year":"2003","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib5","doi-asserted-by":"crossref","first-page":"1901","DOI":"10.1002\/hep.24557","article-title":"Expression of paramyxovirus V proteins promotes replication and spread of hepatitis C virus in cultures of primary human fetal liver cells","volume":"54","author":"Andrus","year":"2011","journal-title":"Hepatology"},{"key":"10.1016\/j.virol.2016.04.020_bib6","doi-asserted-by":"crossref","first-page":"e1003561","DOI":"10.1371\/journal.ppat.1003561","article-title":"Replication vesicles are load- and choke-points in the hepatitis C virus lifecycle","volume":"9","author":"Binder","year":"2013","journal-title":"Plos Pathog."},{"key":"10.1016\/j.virol.2016.04.020_bib7","doi-asserted-by":"crossref","first-page":"13001","DOI":"10.1128\/JVI.76.24.13001-13014.2002","article-title":"Highly permissive cell lines for subgenomic and genomic hepatitis C virus RNA replication","volume":"76","author":"Blight","year":"2002","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib8","first-page":"159","article-title":"Comparison of The Replication of Positive-Stranded Rna Viruses of Plants and Animals","volume":"Volume 47","author":"Buck","year":"1996"},{"key":"10.1016\/j.virol.2016.04.020_bib9","doi-asserted-by":"crossref","first-page":"836","DOI":"10.4049\/jimmunol.1401515","article-title":"Profiling T cell activation using single-molecule fluorescence in situ hybridization and flow cytometry","volume":"194","author":"Bushkin","year":"2015","journal-title":"J. Immunol."},{"key":"10.1016\/j.virol.2016.04.020_bib10","doi-asserted-by":"crossref","first-page":"8282","DOI":"10.1128\/JVI.01102-13","article-title":"Different requirements for scavenger receptor class B type I in hepatitis C virus cell-free versus cell-to-cell transmission","volume":"87","author":"Catanese","year":"2013","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib11","doi-asserted-by":"crossref","first-page":"7364","DOI":"10.1128\/JVI.00586-06","article-title":"Replication of hepatitis C virus (HCV) RNA in mouse embryonic fibroblasts: protein kinase R (PKR)-dependent and PKR-independent mechanisms for controlling HCV RNA replication and mediating interferon activities","volume":"80","author":"Chang","year":"2006","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib12","doi-asserted-by":"crossref","first-page":"1427","DOI":"10.1016\/j.biocel.2011.06.006","article-title":"The ISG15\/USP18 ubiquitin-like pathway (ISGylation system) in hepatitis C virus infection and resistance to interferon therapy","volume":"43","author":"Chen","year":"2011","journal-title":"Int. J. Biochem. Cell Biol."},{"key":"10.1016\/j.virol.2016.04.020_bib13","doi-asserted-by":"crossref","first-page":"9101","DOI":"10.1073\/pnas.1206069109","article-title":"One influenza virus particle packages eight unique viral RNAs as shown by FISH analysis","volume":"109","author":"Chou","year":"2012","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"10.1016\/j.virol.2016.04.020_bib14","doi-asserted-by":"crossref","first-page":"e1003358","DOI":"10.1371\/journal.ppat.1003358","article-title":"Colocalization of different influenza viral RNA segments in the cytoplasm before viral budding as shown by single-molecule sensitivity FISH analysis","volume":"9","author":"Chou","year":"2013","journal-title":"Plos Pathog."},{"key":"10.1016\/j.virol.2016.04.020_bib15","doi-asserted-by":"crossref","first-page":"750","DOI":"10.1128\/JVI.01304-06","article-title":"Mathematical modeling of subgenomic hepatitis C virus replication in Huh-7 cells","volume":"81","author":"Dahari","year":"2007","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib16","doi-asserted-by":"crossref","first-page":"6383","DOI":"10.1128\/JVI.02612-08","article-title":"Modeling subgenomic hepatitis C virus RNA kinetics during treatment with alpha interferon","volume":"83","author":"Dahari","year":"2009","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib17","doi-asserted-by":"crossref","first-page":"1056","DOI":"10.1053\/j.gastro.2005.01.049","article-title":"Mathematical modeling of primary hepatitis C infection: noncytolytic clearance and early blockage of virion production","volume":"128","author":"Dahari","year":"2005","journal-title":"Gastroenterology"},{"key":"10.1016\/j.virol.2016.04.020_bib18","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.jhep.2006.10.005","article-title":"Going towards more relevant cell culture models to study the in vitro replication of serum-derived hepatitis C virus and virus\/host cell interactions?","volume":"46","author":"Durantel","year":"2007","journal-title":"J. Hepatol."},{"key":"10.1016\/j.virol.2016.04.020_bib19","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1038\/nature09326","article-title":"Functional roles for noise in genetic circuits","volume":"467","author":"Eldar","year":"2010","journal-title":"Nature"},{"key":"10.1016\/j.virol.2016.04.020_bib20","doi-asserted-by":"crossref","first-page":"2761","DOI":"10.1099\/vir.0.19305-0","article-title":"Replication of hepatitis C virus RNA occurs in a membrane-bound replication complex containing nonstructural viral proteins and RNA","volume":"84","author":"El-Hage","year":"2003","journal-title":"J. General. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib21","unstructured":"EM Agency, 2014. Olysio, INN-Simeprevir.\u00a0European Medicines Agency"},{"key":"10.1016\/j.virol.2016.04.020_bib22","doi-asserted-by":"crossref","first-page":"939","DOI":"10.1038\/nature04078","article-title":"Evasion of intracellular host defence by hepatitis C virus","volume":"436","author":"Gale","year":"2005","journal-title":"Nature"},{"key":"10.1016\/j.virol.2016.04.020_bib23","doi-asserted-by":"crossref","first-page":"27","DOI":"10.1038\/nsmb.1934","article-title":"Transcription of functionally related constitutive genes is not coordinated","volume":"18","author":"Gandhi","year":"2011","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.virol.2016.04.020_bib24","doi-asserted-by":"crossref","first-page":"513","DOI":"10.1016\/j.chom.2009.11.004","article-title":"Hepatitis C virus blocks interferon effector function by inducing protein kinase R phosphorylation","volume":"6","author":"Garaigorta","year":"2009","journal-title":"Cell Host Microbe"},{"key":"10.1016\/j.virol.2016.04.020_bib25","doi-asserted-by":"crossref","first-page":"963","DOI":"10.1038\/nbt.2031","article-title":"Hepatitis C: move over interferon","volume":"29","author":"Garber","year":"2011","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.virol.2016.04.020_bib26","doi-asserted-by":"crossref","first-page":"1025","DOI":"10.1016\/j.cell.2005.09.031","article-title":"Real-time kinetics of gene activity in individual bacteria","volume":"123","author":"Golding","year":"2005","journal-title":"Cell"},{"key":"10.1016\/j.virol.2016.04.020_bib27","doi-asserted-by":"crossref","first-page":"5487","DOI":"10.1128\/JVI.77.9.5487-5492.2003","article-title":"Identification of the hepatitis C virus RNA replication complex in Huh-7 cells harboring subgenomic replicons","volume":"77","author":"Gosert","year":"2003","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib28","doi-asserted-by":"crossref","first-page":"397","DOI":"10.1586\/17474124.2013.811050","article-title":"The rapid viral decline with the HCV NS5A inhibitor daclatasvir reveals a dual mode of action and leads to a new HCV half-life estimate","volume":"7","author":"Guedj","year":"2013","journal-title":"Expert Rev. Gastroenterol. Hepatol."},{"key":"10.1016\/j.virol.2016.04.020_bib29","doi-asserted-by":"crossref","first-page":"211","DOI":"10.3851\/IMP2733","article-title":"Analysis of hepatitis C viral kinetics during administration of two nucleotide analogues: sofosbuvir (GS-7977) and GS-0938","volume":"19","author":"Guedj","year":"2014","journal-title":"Antivir. Ther."},{"key":"10.1016\/j.virol.2016.04.020_bib30","doi-asserted-by":"crossref","first-page":"3991","DOI":"10.1073\/pnas.1203110110","article-title":"Modeling shows that the NS5A inhibitor daclatasvir has two modes of action and yields a shorter estimate of the hepatitis C virus half-life","volume":"110","author":"Guedj","year":"2013","journal-title":"Proc. Natl. Acad. Sci."},{"key":"10.1016\/j.virol.2016.04.020_bib31","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1146\/annurev.pathol.1.110304.100230","article-title":"Immunobiology and pathogenesis of viral hepatitis","volume":"1","author":"Guidotti","year":"2006","journal-title":"Annu. Rev. Pathol."},{"key":"10.1016\/j.virol.2016.04.020_bib32","doi-asserted-by":"crossref","first-page":"4957","DOI":"10.1529\/biophysj.107.120345","article-title":"Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination","volume":"94","author":"Gustafsson","year":"2008","journal-title":"Biophys. J."},{"key":"10.1016\/j.virol.2016.04.020_bib33","series-title":"AusPAR: sofosbuvir","author":"Health AGDo","year":"2014"},{"key":"10.1016\/j.virol.2016.04.020_bib34","doi-asserted-by":"crossref","first-page":"8469","DOI":"10.1128\/JVI.73.10.8469-8475.1999","article-title":"Expression of Hepatitis C Virus Proteins Inhibits Signal Transduction through the Jak-STAT Pathway","volume":"73","author":"Heim","year":"1999","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib35","doi-asserted-by":"crossref","first-page":"1859","DOI":"10.1056\/NEJMp1302973","article-title":"Hepatitis C in the United States","volume":"368","author":"Holmberg","year":"2013","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.virol.2016.04.020_bib36","doi-asserted-by":"crossref","first-page":"489","DOI":"10.1089\/jir.2009.0063","article-title":"Intracellular innate immune cascades and interferon defenses that control hepatitis C virus","volume":"29","author":"Horner","year":"2009","journal-title":"J. Interferon Cytokine Res."},{"key":"10.1016\/j.virol.2016.04.020_bib37","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1038\/nbt.1604","article-title":"Real-time imaging of hepatitis C virus infection using a fluorescent cell-based reporter system","volume":"28","author":"Jones","year":"2010","journal-title":"Nat. Biotech."},{"key":"10.1016\/j.virol.2016.04.020_bib38","doi-asserted-by":"crossref","first-page":"19114","DOI":"10.1073\/pnas.0907364106","article-title":"Imaging the interaction of HIV-1 genomes and Gag during assembly of individual viral particles","volume":"106","author":"Jouvenet","year":"2009","journal-title":"Proc. Natl. Acad. Sci."},{"key":"10.1016\/j.virol.2016.04.020_bib39","doi-asserted-by":"crossref","first-page":"e1004817","DOI":"10.1371\/journal.ppat.1004817","article-title":"Hepatitis C virus RNA replication depends on specific Cis- and Trans \u2013 acting activities of viral nonstructural proteins","volume":"11","author":"Kazakov","year":"2015","journal-title":"Plos. Pathog."},{"key":"10.1016\/j.virol.2016.04.020_bib40","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1016\/j.jviromet.2003.10.004","article-title":"Strand specific quantitative real-time PCR to study replication of hepatitis C virus genome","volume":"116","author":"Komurian-Pradel","year":"2004","journal-title":"J. Virol. Methods"},{"key":"10.1016\/j.virol.2016.04.020_bib41","doi-asserted-by":"crossref","first-page":"1879","DOI":"10.1056\/NEJMoa1402355","article-title":"Ledipasvir and Sofosbuvir for 8 or 12 weeks for chronic HCV without cirrhosis","volume":"370","author":"Kowdley","year":"2014","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.virol.2016.04.020_bib42","doi-asserted-by":"crossref","first-page":"8079","DOI":"10.1128\/jvi.69.12.8079-8083.1995","article-title":"Lack of detection of negative-strand hepatitis C virus RNA in peripheral blood mononuclear cells and other extrahepatic tissues by the highly strand-specific rTth reverse transcriptase PCR","volume":"69","author":"Lanford","year":"1995","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib43","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1016\/j.virol.2011.03.026","article-title":"The hepatitis C virus NS5A inhibitor (BMS-790052) alters the subcellular localization of the NS5A non-structural viral protein","volume":"414","author":"Lee","year":"2011","journal-title":"Virology"},{"key":"10.1016\/j.virol.2016.04.020_bib44","doi-asserted-by":"crossref","first-page":"22741","DOI":"10.1074\/jbc.R109.099556","article-title":"Induction and evasion of innate antiviral responses by hepatitis C virus","volume":"285","author":"Lemon","year":"2010","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.virol.2016.04.020_bib45","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1007\/s00281-012-0332-x","article-title":"Innate immune responses in hepatitis C virus infection","volume":"35","author":"Li","year":"2013","journal-title":"Semin Immunopathol."},{"key":"10.1016\/j.virol.2016.04.020_bib46","doi-asserted-by":"crossref","first-page":"544","DOI":"10.1038\/nrmicro3506","article-title":"The yin and yang of hepatitis C: synthesis and decay of hepatitis C","volume":"13","author":"Li","year":"2015","journal-title":"virus Rna. Nat. Rev. Micro"},{"key":"10.1016\/j.virol.2016.04.020_bib47","doi-asserted-by":"crossref","first-page":"1448","DOI":"10.1053\/j.gastro.2009.07.050","article-title":"Visualizing hepatitis C virus infections in human liver by two-photon microscopy","volume":"137","author":"Liang","year":"2009","journal-title":"Gastroenterology"},{"key":"10.1016\/j.virol.2016.04.020_bib48","doi-asserted-by":"crossref","first-page":"9226","DOI":"10.1128\/JVI.00459-06","article-title":"Hepatitis C virus core protein blocks interferon signaling by interaction with the STAT1 SH2 domain","volume":"80","author":"Lin","year":"2006","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib49","doi-asserted-by":"crossref","first-page":"623","DOI":"10.1126\/science.1114016","article-title":"Complete replication of hepatitis C virus in cell culture","volume":"309","author":"Lindenbach","year":"2005","journal-title":"Science"},{"key":"10.1016\/j.virol.2016.04.020_bib50","doi-asserted-by":"crossref","first-page":"623","DOI":"10.1126\/science.1114016","article-title":"Complete replication of hepatitis C virus in cell culture","volume":"309","author":"Lindenbach","year":"2005","journal-title":"Science"},{"key":"10.1016\/j.virol.2016.04.020_bib51","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1126\/science.285.5424.110","article-title":"Replication of subgenomic hepatitis C virus RNAS in a hepatoma cell line","volume":"285","author":"Lohmann","year":"1999","journal-title":"Science"},{"key":"10.1016\/j.virol.2016.04.020_bib52","doi-asserted-by":"crossref","first-page":"1843","DOI":"10.1002\/hep.22550","article-title":"Cell culture\u2013produced hepatitis C virus does not infect peripheral blood mononuclear cells","volume":"48","author":"Marukian","year":"2008","journal-title":"Hepatology"},{"key":"10.1016\/j.virol.2016.04.020_bib53","doi-asserted-by":"crossref","first-page":"1913","DOI":"10.1002\/hep.24580","article-title":"Hepatitis C virus induces interferon-lambda and interferon-stimulated genes in primary liver cultures","volume":"54","author":"Marukian","year":"2011","journal-title":"Hepatology"},{"key":"10.1016\/j.virol.2016.04.020_bib54","doi-asserted-by":"crossref","DOI":"10.1053\/j.gastro.2014.04.021","article-title":"Kinetic analyses reveal potent and early blockade of hepatitis C virus assembly by NS5A inhibitors","volume":"147","author":"McGivern","year":"2014","journal-title":"Gastroenterology"},{"key":"10.1016\/j.virol.2016.04.020_bib55","doi-asserted-by":"crossref","first-page":"551","DOI":"10.1016\/S0140-6736(94)91509-1","article-title":"False detection of negative-strand hepatitis C virus RNA","volume":"343","author":"McGuinness","year":"1994","journal-title":"Lancet"},{"key":"10.1016\/j.virol.2016.04.020_bib56","doi-asserted-by":"crossref","first-page":"461","DOI":"10.1128\/JVI.01894-07","article-title":"Effect of cell polarization on hepatitis C virus entry","volume":"82","author":"Mee","year":"2008","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib57","doi-asserted-by":"crossref","first-page":"1331","DOI":"10.1016\/j.jhep.2013.07.033","article-title":"Interferon-stimulated genes and their role in controlling hepatitis C virus","volume":"59","author":"Metz","year":"2013","journal-title":"J. Hepatol."},{"key":"10.1016\/j.virol.2016.04.020_bib58","doi-asserted-by":"crossref","first-page":"453","DOI":"10.1038\/nrmicro1645","article-title":"Replication of hepatitis C virus","volume":"5","author":"Moradpour","year":"2007","journal-title":"Nat. Rev. Micro"},{"key":"10.1016\/j.virol.2016.04.020_bib59","doi-asserted-by":"crossref","first-page":"2635","DOI":"10.1128\/JCM.02170-08","article-title":"Detection and quantification of hepatitis C virus (HCV) by MultiCode-RTx real-time PCR targeting the HCV 3\u2032 untranslated region","volume":"47","author":"Mulligan","year":"2009","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.virol.2016.04.020_bib60","doi-asserted-by":"crossref","first-page":"2926","DOI":"10.1529\/biophysj.106.101428","article-title":"Deconvolving single-molecule intensity distributions for quantitative microscopy measurements","volume":"92","author":"Mutch","year":"2007","journal-title":"Biophys. J."},{"key":"10.1016\/j.virol.2016.04.020_bib61","first-page":"3858","article-title":"Growth of human hepatoma cell lines with differentiated functions in chemically defined medium","volume":"42","author":"Nakabayashi","year":"1982","journal-title":"Cancer Res."},{"key":"10.1016\/j.virol.2016.04.020_bib62","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1126\/science.282.5386.103","article-title":"Hepatitis C viral dynamics in vivo and the antiviral efficacy of interferon-\u03b1 therapy","volume":"282","author":"Neumann","year":"1998","journal-title":"Science"},{"key":"10.1016\/j.virol.2016.04.020_bib63","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1016\/j.chom.2014.10.008","article-title":"Hepatitis C virus RNA replication and assembly: living on the fat of the land","volume":"16","author":"Paul","year":"2014","journal-title":"Cell Host Microbe"},{"key":"10.1016\/j.virol.2016.04.020_bib64","doi-asserted-by":"crossref","first-page":"437","DOI":"10.1038\/nrgastro.2015.97","article-title":"Modelling hepatitis C therapy[mdash]predicting effects of treatment","volume":"12","author":"Perelson","year":"2015","journal-title":"Nat. Rev. Gastroenterol. Hepatol."},{"key":"10.1016\/j.virol.2016.04.020_bib65","doi-asserted-by":"crossref","first-page":"7408","DOI":"10.1073\/pnas.0504877103","article-title":"Construction and characterization of infectious intragenotypic and intergenotypic hepatitis C virus chimeras","volume":"103","author":"Pietschmann","year":"2006","journal-title":"Proc. Natl. Acad. Sci."},{"key":"10.1016\/j.virol.2016.04.020_bib66","doi-asserted-by":"crossref","first-page":"13594","DOI":"10.1128\/JVI.79.21.13594-13605.2005","article-title":"Quantitative analysis of the hepatitis C virus replication complex","volume":"79","author":"Quinkert","year":"2005","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib67","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1016\/j.cell.2008.09.050","article-title":"Nature, nurture, or chance: stochastic gene expression and its consequences","volume":"135","author":"Raj","year":"2008","journal-title":"Cell"},{"key":"10.1016\/j.virol.2016.04.020_bib68","doi-asserted-by":"crossref","first-page":"255","DOI":"10.1146\/annurev.biophys.37.032807.125928","article-title":"Single-molecule approaches to stochastic gene expression","volume":"38","author":"Raj","year":"2009","journal-title":"Annu. Rev. Biophys."},{"key":"10.1016\/j.virol.2016.04.020_bib69","doi-asserted-by":"crossref","first-page":"913","DOI":"10.1038\/nature08781","article-title":"Variability in gene expression underlies incomplete penetrance","volume":"463","author":"Raj","year":"2010","journal-title":"Nature"},{"key":"10.1016\/j.virol.2016.04.020_bib70","doi-asserted-by":"crossref","first-page":"877","DOI":"10.1038\/nmeth.1253","article-title":"Imaging individual mRNA molecules using multiple singly labeled probes","volume":"5","author":"Raj","year":"2008","journal-title":"Nat. Methods"},{"key":"10.1016\/j.virol.2016.04.020_bib71","doi-asserted-by":"crossref","first-page":"346","DOI":"10.1186\/1743-422X-8-346","article-title":"Human cell types important for Hepatitis C Virus replication in vivo and in vitro. Old assertions and current evidence","volume":"8","author":"Revie","year":"2011","journal-title":"Virology"},{"key":"10.1016\/j.virol.2016.04.020_bib72","doi-asserted-by":"crossref","first-page":"1679","DOI":"10.1261\/rna.2016410","article-title":"Monitoring viral RNA in infected cells with LNA flow-FISH","volume":"16","author":"Robertson","year":"2010","journal-title":"RNA"},{"key":"10.1016\/j.virol.2016.04.020_bib73","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1016\/j.mbs.2013.04.012","article-title":"Mathematical analysis of multiscale models for hepatitis C virus dynamics under therapy with direct-acting antiviral agents","volume":"245","author":"Rong","year":"2013","journal-title":"Math. Biosci."},{"key":"10.1016\/j.virol.2016.04.020_bib74","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1038\/nri2314","article-title":"Interferon-inducible antiviral effectors","volume":"8","author":"Sadler","year":"2008","journal-title":"Nat. Rev. Immunol."},{"key":"10.1016\/j.virol.2016.04.020_bib75","doi-asserted-by":"crossref","first-page":"7034","DOI":"10.1073\/pnas.0707882105","article-title":"Interferon signaling and treatment outcome in chronic hepatitis C","volume":"105","author":"Sarasin-Filipowicz","year":"2008","journal-title":"Proc. Natl. Acad. Sci."},{"key":"10.1016\/j.virol.2016.04.020_bib76","doi-asserted-by":"crossref","first-page":"1332","DOI":"10.1126\/science.1156947","article-title":"Subdiffraction multicolor imaging of the nuclear periphery with 3D structured illumination microscopy","volume":"320","author":"Schermelleh","year":"2008","journal-title":"Science"},{"key":"10.1016\/j.virol.2016.04.020_bib77","doi-asserted-by":"crossref","first-page":"481","DOI":"10.1038\/nature09907","article-title":"A diverse range of gene products are effectors of the type I interferon antiviral response","volume":"472","author":"Schoggins","year":"2011","journal-title":"Nature"},{"key":"10.1016\/j.virol.2016.04.020_bib78","doi-asserted-by":"crossref","DOI":"10.1073\/pnas.1121400109","article-title":"Modeling hepatitis C virus infection using human induced pluripotent stem cells","author":"Schwartz","year":"2012","journal-title":"Proc. Natl. Acad. Sci."},{"key":"10.1016\/j.virol.2016.04.020_bib79","doi-asserted-by":"crossref","DOI":"10.1073\/pnas.1121400109","article-title":"Modeling hepatitis C virus infection using human induced pluripotent stem cells","author":"Schwartz","year":"2012","journal-title":"Proc. Natl. Acad. Sci."},{"key":"10.1016\/j.virol.2016.04.020_bib80","doi-asserted-by":"crossref","first-page":"e75120","DOI":"10.1371\/journal.pone.0075120","article-title":"Turbo FISH: a method for rapid single molecule RNA FISH","volume":"8","author":"Shaffer","year":"2013","journal-title":"Plos. One"},{"key":"10.1016\/j.virol.2016.04.020_bib81","doi-asserted-by":"crossref","first-page":"236","DOI":"10.1038\/nature12172","article-title":"Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells","volume":"498","author":"Shalek","year":"2013","journal-title":"Nature"},{"key":"10.1016\/j.virol.2016.04.020_bib82","doi-asserted-by":"crossref","first-page":"558","DOI":"10.1016\/S1473-3099(05)70216-4","article-title":"Global epidemiology of hepatitis C virus infection","volume":"5","author":"Shepard","year":"2005","journal-title":"Lancet Infect. Dis."},{"key":"10.1016\/j.virol.2016.04.020_bib83","doi-asserted-by":"crossref","first-page":"941","DOI":"10.1073\/pnas.1112263109","article-title":"Stabilization of hepatitis C virus RNA by an Ago2\u2013miR-122 complex","volume":"109","author":"Shimakami","year":"2012","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"10.1016\/j.virol.2016.04.020_bib84","doi-asserted-by":"crossref","first-page":"e1004758","DOI":"10.1371\/journal.ppat.1004758","article-title":"Spatiotemporal analysis of hepatitis C virus infection","volume":"11","author":"Shulla","year":"2015","journal-title":"Plos Pathog."},{"key":"10.1016\/j.virol.2016.04.020_bib85","doi-asserted-by":"crossref","first-page":"297","DOI":"10.1002\/hep.23354","article-title":"Highly efficient generation of human hepatocyte\u2013like cells from induced pluripotent stem cells","volume":"51","author":"Si-Tayeb","year":"2010","journal-title":"Hepatology"},{"key":"10.1016\/j.virol.2016.04.020_bib86","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1038\/nrm3044","article-title":"Origins of regulated cell-to-cell variability","volume":"12","author":"Snijder","year":"2011","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.virol.2016.04.020_bib87","doi-asserted-by":"crossref","first-page":"520","DOI":"10.1038\/nature08282","article-title":"Population context determines cell-to-cell variability in endocytosis and virus infection","volume":"461","author":"Snijder","year":"2009","journal-title":"Nature"},{"key":"10.1016\/j.virol.2016.04.020_bib88","doi-asserted-by":"crossref","first-page":"554","DOI":"10.1038\/ng.821","article-title":"General properties of transcriptional time series in Escherichia coli","volume":"43","author":"So","year":"2011","journal-title":"Nat. Genet"},{"key":"10.1016\/j.virol.2016.04.020_bib89","doi-asserted-by":"crossref","first-page":"2689","DOI":"10.1128\/JVI.79.5.2689-2699.2005","article-title":"Regulating intracellular antiviral defense and permissiveness to hepatitis C virus RNA replication through a cellular RNA helicase, RIG-I","volume":"79","author":"Sumpter","year":"2005","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib90","doi-asserted-by":"crossref","DOI":"10.1038\/msb.2010.14","article-title":"Transcript counting in single cells reveals dynamics of rDNA transcription","volume":"6","author":"Tan","year":"2010","journal-title":"Mol. Syst. Biol."},{"key":"10.1016\/j.virol.2016.04.020_bib91","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1146\/annurev.immunol.23.021704.115843","article-title":"Type I interferons (\u03b1\/\u03b2) in immunity and autoimmunity","volume":"23","author":"Theofilopoulos","year":"2005","journal-title":"Annu. Rev. Immunol."},{"key":"10.1016\/j.virol.2016.04.020_bib92","doi-asserted-by":"crossref","first-page":"3693","DOI":"10.1128\/JVI.01748-06","article-title":"Superinfection exclusion in cells infected with hepatitis C virus","volume":"81","author":"Tscherne","year":"2007","journal-title":"J. Virol."},{"key":"10.1016\/j.virol.2016.04.020_bib93","doi-asserted-by":"crossref","first-page":"17008","DOI":"10.1073\/pnas.0505580102","article-title":"Mechanism of mRNA transport in the nucleus","volume":"102","author":"Vargas","year":"2005","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"10.1016\/j.virol.2016.04.020_bib94","doi-asserted-by":"crossref","first-page":"e1000269","DOI":"10.1371\/journal.ppat.1000269","article-title":"Genomic analysis reveals a potential role for cell cycle perturbation in HCV-mediated apoptosis of cultured hepatocytes","volume":"5","author":"Walters","year":"2009","journal-title":"Plos Pathog."},{"key":"10.1016\/j.virol.2016.04.020_bib95","doi-asserted-by":"crossref","first-page":"2121","DOI":"10.1002\/hep.26770","article-title":"Simultaneous detection of hepatitis C virus and interferon stimulated gene expression in infected human liver","volume":"59","author":"Wieland","year":"2014","journal-title":"Hepatology"},{"key":"10.1016\/j.virol.2016.04.020_bib96","article-title":"Emerging roles of interferon-stimulated genes in the innate immune response to hepatitis C virus infection","author":"Wong","year":"2014","journal-title":"Cell Mol. Immunol."},{"key":"10.1016\/j.virol.2016.04.020_bib97","doi-asserted-by":"crossref","first-page":"e27552","DOI":"10.1371\/journal.pone.0027552","article-title":"Innate host response in primary human hepatocytes with hepatitis C virus infection","volume":"6","author":"Yang","year":"2011","journal-title":"Plos One"}],"container-title":["Virology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0042682216300782?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0042682216300782?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2024,4,5]],"date-time":"2024-04-05T15:21:13Z","timestamp":1712330473000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0042682216300782"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,7]]},"references-count":97,"alternative-id":["S0042682216300782"],"URL":"https:\/\/doi.org\/10.1016\/j.virol.2016.04.020","relation":{},"ISSN":["0042-6822"],"issn-type":[{"value":"0042-6822","type":"print"}],"subject":[],"published":{"date-parts":[[2016,7]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Viral genome imaging of hepatitis C virus to probe heterogeneous viral infection and responses to antiviral therapies","name":"articletitle","label":"Article Title"},{"value":"Virology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.virol.2016.04.020","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2016 Elsevier Inc.","name":"copyright","label":"Copyright"}]}}