Cited by 36Hepatitis C virus researchAdvanced Proteomics Techniques and ApplicationsPlant Virus Research Studies

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Affinity Capture and Identification of Host Cell Factors Associated with Hepatitis C Virus (+) Strand Subgenomic RNA

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Upadhyay, Alok, Dixit, Updesh, Manvar, Dinesh, Chaturvedi, Nootan, Pandey, Virendra N.·2013·Molecular & Cellular Proteomics

DOI 10.1074/mcp.m112.017020PMC PMC3675812

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Abstract

Hepatitis C virus (HCV) infection leading to chronic hepatitis is a major factor in the causation of liver cirrhosis, hepatocellular carcinoma, and liver failure. This process may involve the interplay of various host cell factors, as well as the interaction of these factors with viral RNA and proteins. We report a novel strategy using a sequence-specific biotinylated peptide nucleic acid (PNA)-neamine conjugate targeted to HCV RNA for the in situ capture of subgenomic HCV (+) RNA, along with cellular and viral factors associated with it in MH14 host cells. Using this affinity capture system in conjunction with LC/MS/MS, we have identified 83 cellular factors and three viral proteins (NS5B, NS5A, and NS3-4a protease-helicase) associated with the viral genome. The capture was highly specific. These proteins were not scored with cured MH14 cells devoid of HCV replicons because of the absence of the target sequence in cells for the PNA-neamine probe and also because, unlike oligomeric DNA, cellular proteins have no affinity for PNA. The identified cellular factors belong to different functional groups, including signaling, oncogenic, chaperonin, transcriptional regulators, and RNA helicases as well as DEAD box proteins, ribosomal proteins, translational regulators/factors, and metabolic enzymes, that represent a diverse set of cellular factors associated with the HCV RNA genome. Small interfering RNA-mediated silencing of a diverse class of selected proteins in an HCV replicon cell line either enhanced or inhibited HCV replication/translation, suggesting that these cellular factors have regulatory roles in HCV replication.

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THE FUNCTION OF HEAT-SHOCK PROTEINS IN STRESS TOLERANCE: DEGRADATION AND REACTIVATION OF DAMAGED PROTEINS
Parsell, D. A., & Lindquist, S. (1993) · Annual Review of Genetics · doi:10.1146/annurev.ge.27.120193.002253 · Cited by 2,275
Internal ribosome entry site within hepatitis C virus RNA
Tsukiyama–Kohara, K., Iizuka, N., Kohara, M., & Nomoto, A. (1992) · Journal of Virology · doi:10.1128/jvi.66.3.1476-1483.1992 · Cited by 925
A prokaryotic-like mode of cytoplasmic eukaryotic ribosome binding to the initiation codon during internal translation initation of hepatitis C and classical swine fever virus RNAsPreprint
Pestova, T. V., Shatsky, I. N., Fletcher, S. P., Jackson, R. J., & Hellen, C. U. T. (1998) · Genes & Development · doi:10.1101/gad.12.1.67 · Cited by 729
Genome‐wide molecular profiles of HCV‐induced dysplasia and hepatocellular carcinoma†
Wurmbach, E., Chen, Y., Khitrov, G., Zhang, W., Roayaie, S., Schwartz, M., Fiel, M. I., Thung, S. N., Mazzaferro, V., Bruix, J., et al. (2007) · Hepatology · doi:10.1002/hep.21622 · Cited by 721
Cellular cofactors affecting hepatitis C virus infection and replication
Randall, G. C., Panis, M., Cooper, J. D., Tellinghuisen, T. L., Sukhodolets, K. E., Pfeffer, S., Landthaler, M., Landgraf, P., Kan, S., Lindenbach, B. D., et al. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0704894104 · Cited by 527
Overview of Hepatitis C Virus Genome Structure, Polyprotein Processing, and Protein Properties
Reed, K. E., & Rice, C. M. (2000) · Current topics in microbiology and immunology · doi:10.1007/978-3-642-59605-6_4 · Cited by 507
Translation of human hepatitis C virus RNA in cultured cells is mediated by an internal ribosome-binding mechanism
Wang, C., Sarnow, P., & Siddiqui, A. (1993) · Journal of Virology · doi:10.1128/jvi.67.6.3338-3344.1993 · Cited by 440
Temporal Proteome and Lipidome Profiles Reveal Hepatitis C Virus-Associated Reprogramming of Hepatocellular Metabolism and Bioenergetics
Diamond, D. L., Syder, A. J., Jacobs, J., Sorensen, C. M., Walters, K., Proll, S. C., McDermott, J., Gritsenko, M. A., Zhang, Q., Zhao, R., et al. (2010) · PLoS Pathogens · doi:10.1371/journal.ppat.1000719 · Cited by 429
Diagnostic value of HSP70, glypican 3, and glutamine synthetase in hepatocellular nodules in cirrhosis
Tommaso, L. D., Franchi, G., Park, Y. N., Fiamengo, B., Destro, A., Morenghi, E., Montorsi, M., Torzilli, G., Tommasini, M., Terracciano, L., et al. (2007) · Hepatology · doi:10.1002/hep.21531 · Cited by 425
A genome-wide genetic screen for host factors required for hepatitis C virus propagation
Li, Q.-S., Brass, A., Ng, A., Hu, Z.-Y., Xavier, R., Liang, T., & Elledge, S. (2009) · Proceedings of the National Academy of Sciences of the United States of America · doi:10.1073/pnas.0907439106 · Cited by 391
The dsRNA binding protein family: critical roles, diverse cellular functions
Saunders, L. R., & Barber, G. N. (2003) · The FASEB Journal · doi:10.1096/fj.02-0958rev · Cited by 344
A sequence-specific, single-strand binding protein activates the far upstream element of c-myc and defines a new DNA-binding motif.Preprint
DUNCAN, R. C., Bazar, L. S., Michelotti, G. A., Tomonaga, T., Krutzsch, H. C., Avigan, M., & Levens, D. (1994) · Genes & Development · doi:10.1101/gad.8.4.465 · Cited by 326
Hsp60 Regulation of Tumor Cell Apoptosis
Ghosh, J. C., Dohi, T., Kang, B. H., & Altieri, D. C. (2007) · Journal of Biological Chemistry · doi:10.1074/jbc.m705904200 · Cited by 312
The Pathway of HCV IRES-Mediated Translation Initiation
Otto, G. A., & Puglisi, J. D. (2004) · Cell · doi:10.1016/j.cell.2004.09.038 · Cited by 311
Cloning of a gene highly overexpressed in cancer coding for a novel KH-domain containing protein
Müller-Pillasch, F., Lacher, U., Wallrapp, C., Micha, A. E., Zimmerhackl, F., Hameister, H., Varga, G., Friess, H., Büchler, M. W., Beger, H. G., et al. (1997) · Oncogene · doi:10.1038/sj.onc.1201110 · Cited by 284
The La antigen binds 5′ noncoding region of the hepatitis C virus RNA in the context of the initiator AUG codon and stimulates internal ribosome entry site-mediated translation
Ali, N., & Siddiqui, A. (1997) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.94.6.2249 · Cited by 277
Distinct Structural Features ofCaprin-1 Mediate Its Interaction with G3BP-1 and Its Induction of Phosphorylation of Eukaryotic Translation InitiationFactor 2 α , Entry to Cytoplasmic Stress Granules, and Selective Interaction with a Subset of mRNAs
Solomon, S., Xu, Y., Wang, B., David, M. D., Schubert, P., Kennedy, D. D., & Schrader, J. W. (2007) · Molecular and Cellular Biology · doi:10.1128/mcb.02300-06 · Cited by 260
Interaction of polypyrimidine tract-binding protein with the 5' noncoding region of the hepatitis C virus RNA genome and its functional requirement in internal initiation of translation
Ali, N., & Siddiqui, A. (1995) · Journal of Virology · doi:10.1128/jvi.69.10.6367-6375.1995 · Cited by 237
Analysis of ISG Expression in Chronic Hepatitis C Identifies Viperin as a Potential Antiviral Effector *
Helbig, K. J., Lau, D., Semendric, L., Harley, H. A. J., & Beard, M. R. (2005) · Hepatology · doi:10.1002/hep.20844 · Cited by 231
Hepatitis C virus glycoprotein folding: disulfide bond formation and association with calnexin
Dubuisson, J., & Rice, C. M. (1996) · Journal of Virology · doi:10.1128/jvi.70.2.778-786.1996 · Cited by 210
Genetic Analysis of Internal Ribosomal Entry Site on Hepatitis C Virus RNA: Implication for Involvement of the Highly Ordered Structure and Cell Type-Specific Transacting Factors
Kamoshita, N., Tsukiyama–Kohara, K., Kohara, M., & Nomoto, A. (1997) · Virology · doi:10.1006/viro.1997.8600 · Cited by 207
Coordinated assembly of human translation initiation complexes by the hepatitis C virus internal ribosome entry site RNA
Ji, H., Fraser, C. S., Yu, Y., Leary, J. A., & Doudna, J. A. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0407402101 · Cited by 207
The heat shock protein inhibitor Quercetin attenuates hepatitis C virus production†
Gonzalez, O., Fontanes, V., Raychaudhuri, S., Loo, R. R. O., Loo, J., Arumugaswami, V., Sun, R., Dasgupta, A., & French, S. W. (2009) · Hepatology · doi:10.1002/hep.23232 · Cited by 198
DNA unwinding upon strand-displacement binding of a thymine-substituted polyamide to double-stranded DNA.
Cherny, D., Belotserkovskii, B. P., Frank-Kamenetskii, M. D., Egholm, M., Buchardt, O., Berg, R. H., & Nielsen, P. E. (1993) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.90.5.1667 · Cited by 194
New Antiviral Pathway That Mediates Hepatitis C Virus Replicon Interferon Sensitivity through ADAR1
Taylor, D. R., Puig, M., Darnell, M. E. R., Mihalik, K., & Feinstone, S. M. (2005) · Journal of Virology · doi:10.1128/jvi.79.10.6291-6298.2005 · Cited by 186
The La‐related protein LARP7 is a component of the 7SK ribonucleoprotein and affects transcription of cellular and viral polymerase II genes
Markert, A., Grimm, M. F., Martinez, J., Wiesner, J., Meyerhans, A., Meyuhas, O., Sickmann, A., & Fischer, U. (2008) · EMBO Reports · doi:10.1038/embor.2008.72 · Cited by 179
Xp54 and related (DDX6-like) RNA helicases: roles in messenger RNP assembly, translation regulation and RNA degradation
Weston, A. J. (2006) · Nucleic Acids Research · doi:10.1093/nar/gkl409 · Cited by 169
Hepatitis C Virus Core Protein Binds to a DEAD Box RNA Helicase
Mamiya, N., & Worman, H. J. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.22.15751 · Cited by 165
The Double-Stranded RNA-Binding Protein Staufen Is Incorporated in Human Immunodeficiency Virus Type 1: Evidence for a Role in Genomic RNA Encapsidation
Mouland, A. J., Mercier, J., Luo, M., Bernier, L., DesGroseillers, L., & Cohen, É. A. (2000) · Journal of Virology · doi:10.1128/jvi.74.12.5441-5451.2000 · Cited by 162
Hepatitis C Virus Non-structural Proteins in the Probable Membranous Compartment Function in Viral Genome Replication
Miyanari, Y., Hijikata, M., Yamaji, M., Hosaka, M., Takahashi, H., & Shimotohno, K. (2003) · Journal of Biological Chemistry · doi:10.1074/jbc.m305684200 · Cited by 161
Nuclear factors are involved in hepatitis C virus RNA replication
Isken, O., Baroth, M., Grassmann, C. W., Weinlich, S., Ostareck, D. H., Ostareck‐Lederer, A., & Behrens, S. (2007) · RNA · doi:10.1261/rna.594207 · Cited by 159
Gene-expression signature of vascular invasion in hepatocellular carcinoma
Mínguez, B., Hoshida, Y., Villanueva, A., Toffanin, S., Cabellos, L., Thung, S. N., Mandeli, J., Sia, D., April, C., Fan, J., et al. (2011) · Journal of Hepatology · doi:10.1016/j.jhep.2011.02.034 · Cited by 159
Association of HPC2/ELAC2 Genotypes and Prostate Cancer
Rebbeck, T. R., Walker, A. H., Zeigler-Johnson, C. M., Weisburg, S., Martin, A., Nathanson, K. L., Wein, A. J., & Malkowicz, S. B. (2000) · The American Journal of Human Genetics · doi:10.1086/303096 · Cited by 156
The RNA export factor Gle1p is located on the cytoplasmic fibrils of the NPC and physically interacts with the FG‐nucleoporin Rip1p, the DEAD‐box protein Rat8p/Dbp5p and a new protein Ymr255p
Strahm, Y., Fahrenkrog, B., Zenklusen, D. R., Rychner, E., Kantor, J., Rosbash, M., & Stutz, F. (1999) · The EMBO Journal · doi:10.1093/emboj/18.20.5761 · Cited by 155
Human DEAD-box protein 3 has multiple functions in gene regulation and cell cycle control and is a prime target for viral manipulation
Schröder, M. (2009) · Biochemical Pharmacology · doi:10.1016/j.bcp.2009.08.032 · Cited by 143
Hepatitis C Virus Core Protein Interacts with Heterogeneous Nuclear Ribonucleoprotein K
Hsieh, T., Matsumoto, M., Chou, H.-C., Schneider, R. J., Hwang, S. B., Lee, A. S., & Lai, M. M. C. (1998) · Journal of Biological Chemistry · doi:10.1074/jbc.273.28.17651 · Cited by 139
A far upstream element stimulates c-myc expression in undifferentiated leukemia cells.
Avigan, M., Strober, B. J., & Levens, D. (1990) · Journal of Biological Chemistry · doi:10.1016/s0021-9258(17)44785-5 · Cited by 135
Expression of activation‐induced cytidine deaminase in human hepatocytes during hepatocarcinogenesis
Kou, T., Marusawa, H., Kinoshita, K., Endo, Y., Okazaki, I., Ueda, Y., Kodama, Y., Haga, H., Ikai, I., & Chiba, T. (2006) · International Journal of Cancer · doi:10.1002/ijc.22292 · Cited by 129
Cellular RNA Helicase p68 Relocalization and Interaction with the Hepatitis C Virus (HCV) NS5B Protein and the Potential Role of p68 in HCV RNA Replication
Goh, P., Tan, Y., Lim, S. P., Tan, Y., Lim, S. G., Fuller-Pace, F. V., & Hong, W. (2004) · Journal of Virology · doi:10.1128/jvi.78.10.5288-5298.2004 · Cited by 125
The Eukaryotic Ccr4-Not Complex: A Regulatory Platform Integrating mRNA Metabolism with Cellular Signaling Pathways?
Collart, M. A., & Timmers, H. T. M. (2004) · Progress in nucleic acid research and molecular biology · doi:10.1016/s0079-6603(04)77008-7 · Cited by 122
Transforming Properties of 8p11-12 Amplified Genes in Human Breast Cancer
Yang, Z.-Q., Liu, G., Bollig-Fischer, A. B., Giroux, C. N., & Ethier, S. P. (2010) · Cancer Research · doi:10.1158/0008-5472.can-10-1013 · Cited by 114
E1B 55-Kilodalton-Associated Protein: a Cellular Protein with RNA-Binding Activity Implicated in Nucleocytoplasmic Transport of Adenovirus and Cellular mRNAs
Gabler, S., SCHÜTT, H., Groitl, P., Wolf, H. J., Shenk, T. E., & Dobner, T. (1998) · Journal of Virology · doi:10.1128/jvi.72.10.7960-7971.1998 · Cited by 114
Internal Ribosome Entry Site-Mediated Translation in Hepatitis C Virus Replication
Rijnbrand, R. C. A., & Lemon, S. M. (2000) · Current topics in microbiology and immunology · doi:10.1007/978-3-642-59605-6_5 · Cited by 111
DDX6 (Rck/p54) Is Required for Efficient Hepatitis C Virus Replication but Not for Internal Ribosome Entry Site-Directed Translation
Jangra, R. K., Yi, M., & Lemon, S. M. (2010) · Journal of Virology · doi:10.1128/jvi.00397-10 · Cited by 109
Right-handed triplex formed between peptide nucleic acid PNA-T8 and poly(dA) shown by linear and circular dichroism spectroscopy
Kim, S. K., Nielsen, P. E., Egholm, M., Buchardt, O., Berg, R. H., & Nordén, B. (1993) · Journal of the American Chemical Society · doi:10.1021/ja00068a001 · Cited by 105
Template Requirement and Initiation Site Selection by Hepatitis C Virus Polymerase on a Minimal Viral RNA Template
Oh, J., Sheu, G., & Lai, M. M. C. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.m908781199 · Cited by 105
IGF2BP1 enhances HCV IRES-mediated translation initiation via the 3′UTR
Weinlich, S., Hüttelmaier, S., Schierhorn, A., Behrens, S., Ostareck‐Lederer, A., & Ostareck, D. H. (2009) · RNA · doi:10.1261/rna.1578409 · Cited by 99
hnRNP C and polypyrimidine tract-binding protein specifically interact with the pyrimidine-rich region within the 3'NTR of the HCV RNA genome
Gontarek, R. R. (1999) · Nucleic Acids Research · doi:10.1093/nar/27.6.1457 · Cited by 94
Overexpression of the Far Upstream Element Binding Protein 1 in Hepatocellular Carcinoma Is Required for Tumor Growth†
Rabenhorst, U., Beinoravičiūtė-Kellner, R., Brezniceanu, M.-L., Joos, S., Devens, F., Lichter, P., Rieker, R. J., Trojan, J., Chung, H. J., Levens, D., et al. (2009) · Hepatology · doi:10.1002/hep.23098 · Cited by 93
[7] Ubiquinol-cytochrome-c reductase from human and bovine mitochondria
Schägger, H., Brandt, U., Gencic, S., & von JAGOW, G. (1995) · Methods in enzymology on CD-ROM/Methods in enzymology · doi:10.1016/0076-6879(95)60132-5 · Cited by 87
The ErbB3 binding protein Ebp1 interacts with Sin3A to repress E2F1 and AR-mediated transcription
Zhang, Y. (2005) · Nucleic Acids Research · doi:10.1093/nar/gki903 · Cited by 87
Identification of Cellular Factors Associated with the 3′-Nontranslated Region of the Hepatitis C Virus Genome
Harris, D., Zhang, Z., Chaubey, B., & Pandey, V. N. (2006) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m500429-mcp200 · Cited by 87
Self-citation
Cell-Free Replication of the Hepatitis C Virus Subgenomic Replicon
Ali, N., Tardif, K. D., & Siddiqui, A. (2002) · Journal of Virology · doi:10.1128/jvi.76.23.12001-12007.2002 · Cited by 86
Proteome Analysis of Liver Cells Expressing a Full-Length Hepatitis C Virus (HCV) Replicon and Biopsy Specimens of Posttransplantation Liver from HCV-Infected Patients
Jacobs, J., Diamond, D. L., Chan, E. Y., Gritsenko, M. A., Qian, W., Št́astná, M., Baas, T., Camp, D., Carithers, R. L., Smith, R. D., et al. (2005) · Journal of Virology · doi:10.1128/jvi.79.12.7558-7569.2005 · Cited by 81
RNA-Binding Protein hnRNP D Modulates Internal Ribosome Entry Site-Dependent Translation of Hepatitis C Virus RNA
Paek, K. Y., Kim, C. S., Park, S. M., Kim, J. H., & Jang, S. K. (2008) · Journal of Virology · doi:10.1128/jvi.01405-08 · Cited by 80
Demonstration of Functional Requirement of Polypyrimidine Tract-binding Protein by SELEX RNA during Hepatitis C Virus Internal Ribosome Entry Site-mediated Translation Initiation
Anwar, A., Ali, N., Tanveer, R., & Siddiqui, A. (2000) · Journal of Biological Chemistry · doi:10.1074/jbc.m006343200 · Cited by 75
A Peptide Nucleic Acid−Neamine Conjugate That Targets and Cleaves HIV-1 TAR RNA Inhibits Viral Replication
Riguet, E., Tripathi, S., Chaubey, B., Désiré, J., Pandey, V. N., & Décout, J. (2004) · Journal of Medicinal Chemistry · doi:10.1021/jm049642d · Cited by 74
Self-citation
Chaperonin TRiC/CCT participates in replication of hepatitis C virus genome via interaction with the viral NS5B protein
Inoue, Y., Aizaki, H., Hara, H., Matsuda, M., Ando, T., Shimoji, T., Murakami, K., Masaki, T., Shoji, I., Homma, S. A., et al. (2010) · Virology · doi:10.1016/j.virol.2010.10.026 · Cited by 73
Hepatitis C Virus Co-Opts Ras-GTPase-Activating Protein-Binding Protein 1 for Its Genome Replication
Yi, Z., Pan, T., Wu, X., Song, W., Wang, S., Xu, Y., Rice, C. M., MacDonald, M. R., & Yuan, Z. (2011) · Journal of Virology · doi:10.1128/jvi.00013-11 · Cited by 67
Riboproteomic analysis of polypeptides interacting with the internal ribosome‐entry site element of foot‐and‐mouth disease viral RNA
Pacheco, A., Reigadas, S., & Martı́nez-Salas, E. (2008) · PROTEOMICS · doi:10.1002/pmic.200800338 · Cited by 64
Valosin-containing protein and the pathogenesis of frontotemporal dementia associated with inclusion body myopathy
Guinto, J. B., Ritson, G. P., Taylor, J. P., & Forman, M. S. (2007) · Acta Neuropathologica · doi:10.1007/s00401-007-0224-7 · Cited by 61
Suppression of hepatitis C virus replicon by TGF-β
Murata, T., Ohshima, T., Yamaji, M., Hosaka, M., Miyanari, Y., Hijikata, M., & Shimotohno, K. (2004) · Virology · doi:10.1016/j.virol.2004.10.036 · Cited by 61
Targeted Deletion of the Murine apobec-1 Complementation Factor (acf) Gene Results in Embryonic Lethality
Blanc, V., Henderson, J. O., Newberry, E. P., Kennedy, S., Luo, J., & Davidson, N. O. (2005) · Molecular and Cellular Biology · doi:10.1128/mcb.25.16.7260-7269.2005 · Cited by 57
The FUSE Binding Protein Is a Cellular Factor Required for Efficient Replication of Hepatitis C Virus
Zhang, Z., Harris, D., & Pandey, V. N. (2008) · Journal of Virology · doi:10.1128/jvi.00064-08 · Cited by 56
Self-citation
Human Staufen1 Protein Interacts with Influenza Virus Ribonucleoproteins and Is Required for Efficient Virus Multiplication
de Lucas, S., Peredo, J., Marión, R. M., Sánchez, C., & Ortı́n, J. (2010) · Journal of Virology · doi:10.1128/jvi.00504-10 · Cited by 53
Co-overexpression of DEAD box protein rck/p54 and c-myc protein in human colorectal adenomas and the relevance of their expression in cultured cell lines
Hashimoto, K., Nakagawa, Y., Morikawa, H., Niki, M., Egashira, Y., Hirata, I., Katsu, K., & Akao, Y. (2001) · Carcinogenesis · doi:10.1093/carcin/22.12.1965 · Cited by 53
A New Nucleoporin-like Protein Interacts with Both HIV-1 Rev Nuclear Export Signal and CRM-1
Farjot, G., Sergeant, A., & Mikaélian, I. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.24.17309 · Cited by 50
KAP1 regulates type I interferon/STAT1-mediated IRF-1 gene expression
Kamitani, S., Ohbayashi, N., Ikeda, O., Togi, S., Muromoto, R., Sekine, Y., Ohta, K., Ishiyama, H., & Matsuda, T. (2008) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2008.03.104 · Cited by 49
Association of a novel GTP binding protein, DRG, with TAL oncogenic proteins.
Mahajan, M., Park, S. T., & Sun, X.-H. (1996) · PubMed · Cited by 48
Two-step affinity purification of the hepatitis C virus ribonucleoprotein complex
Waris, G., Sarker, S. F., & Siddiqui, A. (2004) · RNA · doi:10.1261/rna.5124404 · Cited by 40
Overexpression of a DEAD box/RNA helicase protein, rck/p54, in human hepatocytes from patients with hepatitis C virus‐related chronic hepatitis and its implication in hepatocellular carcinogenesis
Miyaji, K., Nakagawa, Y., Matsumoto, K., Yoshida, H., Morikawa, H., HONGOU, Y., Arisaka, Y., Kojima, H., Inoue, T., Hirata, I., et al. (2003) · Journal of Viral Hepatitis · doi:10.1046/j.1365-2893.2003.00447.x · Cited by 39
Aberrant AID expression and human cancer development
Marusawa, H. (2008) · The International Journal of Biochemistry & Cell Biology · doi:10.1016/j.biocel.2008.01.018 · Cited by 37
A Peptide Nucleic Acid–Aminosugar Conjugate Targeting Transactivation Response Element of HIV-1 RNA Genome Shows a High Bioavailability in Human Cells and Strongly Inhibits Tat-Mediated Transactivation of HIV-1 Transcription
Das, I., Désiré, J., Manvar, D., Baussanne, I., Pandey, V. N., & Décout, J. (2012) · Journal of Medicinal Chemistry · doi:10.1021/jm300253q · Cited by 35
Self-citation
The packaging of human immunodeficiency virus type 1 RNA is restricted by overexpression of an RNA helicase DHX30
Zhou, Y., Ma, J., Roy, B. B., Wu, J. Y.-Y., Pan, Q., Rong, L., & Liang, C. (2007) · Virology · doi:10.1016/j.virol.2007.10.027 · Cited by 34
Surface expression of heterogeneous nuclear RNA binding protein M4 on Kupffer cell relates to its function as a carcinoembryonic antigen receptor
Bajenova, O., Stolper, E., Gapon, S., Sundina, N., Zimmer, R., & Thomas, P. (2003) · Experimental Cell Research · doi:10.1016/s0014-4827(03)00373-2 · Cited by 33
Gene expression profile of Huh‐7 cells expressing hepatitis C virus genotype 1b or 3a core proteins
Pazienza, V., Clément, S., Pugnale, P., Conzelmann, S., Pascarella, S., Mangia, A., & Negro, F. (2009) · Liver International · doi:10.1111/j.1478-3231.2008.01866.x · Cited by 31
Transcription Activating Property of Autoantigen SG2NA and Modulating Effect of WD-40 Repeats
Zhu, W., Chan, E. K. L., Li, J., Hemmerich, P. H., & Tan, E. M. (2001) · Experimental Cell Research · doi:10.1006/excr.2001.5320 · Cited by 14
Generation of a Polymorphic Marker Linked to Thymoma Susceptibility Gene of Rat 1 by Genetically-Directed Representational Difference Analysis.
Higo, K., Ushijima, T., Oyabu, A., Chunlin, Y. E., Yagyu, S., Takahashi, H., & Matsuyama, M. (2000) · EXPERIMENTAL ANIMALS · doi:10.1538/expanim.49.189 · Cited by 6

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See all 36

Authors: Upadhyay, A., Dixit, U., Manvar, D., Chaturvedi, N., & Pandey, V. N.
Affiliations: Rutgers New Jersey Medical School (US)
Corresponding author: Pandey, Virendra N.
ORCID: Dixit, Updesh
Manvar, Dinesh
Pandey, Virendra N.
Venue: Molecular & Cellular Proteomics
Publisher: Elsevier BV
Published: 2013-06
Volume: 12
Issue: 6
Pages: 1539-1552
ISSN: 1535-9476 (ISSN-L)
DOI: 10.1074/mcp.m112.017020
PMC: PMC3675812
OpenAlex: W2126789024
Cited by: 36
References: 78
Citations by year: 2026: 1 · 2023: 1 · 2022: 2 · 2021: 3 · 2020: 2 · 2019: 3 · 2018: 3 · 2017: 4 · 2016: 8 · 2015: 4 · 2014: 4 · 2013: 1
FWCI: 3.53
Type: journal article
Language: en
Open access: hybrid
doi.org
Licence: cc-by
www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/legal/tdmrep-license (tdm)
creativecommons.org/licenses/by/4.0/ (vor, 2644 d)
Locations: Molecular & Cellular Proteomics (publishedVersion, cc-by)
Europe PMC (PubMed Central) (publishedVersion)
PubMed Central (publishedVersion)
PubMed (publishedVersion)
Funders: National Institutes of Health
National Institute of Allergy and Infectious Diseases (AI073703, R21AI073703)
National Institute of Diabetes and Digestive and Kidney Diseases (R21DK083560, DK083560)
Topics: Health Sciences › Medicine › Hepatology › Hepatitis C virus research
Physical Sciences › Chemistry › Spectroscopy › Advanced Proteomics Techniques and Applications
Life Sciences › Agricultural and Biological Sciences › Plant Science › Plant Virus Research Studies
Keywords: hepatitis C virus, subgenomic RNA, host cell factors, affinity capture, HCV replicon, NS5B, NS5A, viral replication, siRNA knockdown, RNA-protein interactions
MeSH terms: Viral Proteases, Chromatography, Affinity, Chromatography, Liquid, Framycetin, Humans, Replicon, RNA-Dependent RNA Polymerase, RNA, Viral, Serine Endopeptidases, Virus Replication, Gene Expression Regulation, Viral, Hepacivirus, Genome, Viral, Viral Nonstructural Proteins, Biotinylation, Protein Isoforms, Peptide Nucleic Acids, Hepatocytes, Nucleoside-Triphosphatase, Cell Line, Tumor, DEAD-box RNA Helicases, Tandem Mass Spectrometry, Host-Pathogen Interactions

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Affinity Capture and Identification of Host Cell Factors Associated with Hepatitis C Virus (+) Strand Subgenomic RNA

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