TY  - JOUR
AU  - Glišić, Sanja
AU  - Veljković, Nevena V.
AU  - Jovanović-Ćupić, Snežana P.
AU  - Vasiljevic, Nada
AU  - Prljić, Jelena
AU  - Gemović, Branislava S.
AU  - Perović, Vladimir R.
AU  - Veljković, Veljko
PY  - 2012
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/4755
AB  - Hepatitis C virus (HCV) infection is a major and rising global health problem, affecting about 170 million people worldwide. The current standard of care treatment with interferon alpha and ribavirin in patients with the genotype 1 infection, the most frequent genotype in the USA and Western Europe, leads to a successful outcome in only about 50% of individuals. Accurate prediction of hepatitis C treatment response is of great benefit to patients and clinicians. The informational spectrum method, a virtual spectroscopy method for structure/function analysis of nucleotide and protein sequences, is applied here for the identification of the conserved information of the HCV proteins that correlate with the combination therapy outcome. Among the HCV proteins that we have analyzed the informational property of the p7 of HCV genotype 1b was best related to the therapy outcome. On the basis of these results, a simple bioinformatics criterion that could be useful in assessment of the response of HCV-infected patients to the combination therapy has been proposed.
T2  - Protein Journal
T1  - Assessment of Hepatitis C Virus Protein Sequences with Regard to Interferon/Ribavirin Combination Therapy Response in Patients with HCV Genotype 1b
VL  - 31
IS  - 2
SP  - 129
EP  - 136
DO  - 10.1007/s10930-011-9381-6
ER  - 

@article{
author = "Glišić, Sanja and Veljković, Nevena V. and Jovanović-Ćupić, Snežana P. and Vasiljevic, Nada and Prljić, Jelena and Gemović, Branislava S. and Perović, Vladimir R. and Veljković, Veljko",
year = "2012",
abstract = "Hepatitis C virus (HCV) infection is a major and rising global health problem, affecting about 170 million people worldwide. The current standard of care treatment with interferon alpha and ribavirin in patients with the genotype 1 infection, the most frequent genotype in the USA and Western Europe, leads to a successful outcome in only about 50% of individuals. Accurate prediction of hepatitis C treatment response is of great benefit to patients and clinicians. The informational spectrum method, a virtual spectroscopy method for structure/function analysis of nucleotide and protein sequences, is applied here for the identification of the conserved information of the HCV proteins that correlate with the combination therapy outcome. Among the HCV proteins that we have analyzed the informational property of the p7 of HCV genotype 1b was best related to the therapy outcome. On the basis of these results, a simple bioinformatics criterion that could be useful in assessment of the response of HCV-infected patients to the combination therapy has been proposed.",
journal = "Protein Journal",
title = "Assessment of Hepatitis C Virus Protein Sequences with Regard to Interferon/Ribavirin Combination Therapy Response in Patients with HCV Genotype 1b",
volume = "31",
number = "2",
pages = "129-136",
doi = "10.1007/s10930-011-9381-6"
}

Glišić, S., Veljković, N. V., Jovanović-Ćupić, S. P., Vasiljevic, N., Prljić, J., Gemović, B. S., Perović, V. R.,& Veljković, V.. (2012). Assessment of Hepatitis C Virus Protein Sequences with Regard to Interferon/Ribavirin Combination Therapy Response in Patients with HCV Genotype 1b. in Protein Journal, 31(2), 129-136.
https://doi.org/10.1007/s10930-011-9381-6

Glišić S, Veljković NV, Jovanović-Ćupić SP, Vasiljevic N, Prljić J, Gemović BS, Perović VR, Veljković V. Assessment of Hepatitis C Virus Protein Sequences with Regard to Interferon/Ribavirin Combination Therapy Response in Patients with HCV Genotype 1b. in Protein Journal. 2012;31(2):129-136.
doi:10.1007/s10930-011-9381-6 .

Glišić, Sanja, Veljković, Nevena V., Jovanović-Ćupić, Snežana P., Vasiljevic, Nada, Prljić, Jelena, Gemović, Branislava S., Perović, Vladimir R., Veljković, Veljko, "Assessment of Hepatitis C Virus Protein Sequences with Regard to Interferon/Ribavirin Combination Therapy Response in Patients with HCV Genotype 1b" in Protein Journal, 31, no. 2 (2012):129-136,
https://doi.org/10.1007/s10930-011-9381-6 . .

TY  - JOUR
AU  - Vasiljevic, Nada
AU  - Veljković, Nevena V.
AU  - Kosec, Tatjana
AU  - Ma, Xue-Zhong
AU  - Glišić, Sanja
AU  - Prljić, Jelena
AU  - Vujicic, Ana Djordjevic
AU  - Markovic, Ljiljana
AU  - Branch, Donald R.
PY  - 2011
UR  - https://vinar.vin.bg.ac.rs/handle/123456789/4259
AB  - Natural autoantibodies (NAbs) are continually produced throughout life and have an ability to recognize self and altered self, as well as foreign antigens, by recognizing cellular pattern recognition receptors. Sometimes NAb specificity demonstrates overlap between human and pathologic proteomes. This information can be useful in selecting target sequences for screening purposes. In this study we undertook a multi-step bioinformatics search to predict a virus-derived peptide that can be recognized by NAbs in sera of uninfected individuals. We selected protein hepatitis C virus (HCV) NS5A as a target sequence, motivated by the fact that the HCV proteome is characterized by extensive sequence similarities to the human proteome, and because screening for anti-HCV antibodies, including anti-NS5A, is important clinically, particularly in screening of potential blood donors. The virus-specific peptide P1, and the homologous human peptide derived from enzyme-inducible nitric oxide synthase (iNOS), P2, exhibiting not only simple homology, but also complementarities of physicochemical patterns, were synthesized and 80 HCV-negative and 50 HCV-positive blood donor sera were tested by ELISA. These peptides reacted similarly (p LT 0.001) with HCV-negative sera, and in several cases the measured reactivity was significantly above the cut-off value of commercial anti-HCV screening assays. In HCV-positive sera, the titers of antibodies reactive with analyzed HCV NS5A peptide were not significantly increased (p LT 0.001) compared to host peptide, the implications of which are unclear, but may be consistent with these antibodies being naturally produced. Finally, we extended our bioinformatics analyses to the dataset of human self-binding sequences, and propose a general approach for the selection of specific diagnostic and screening antigens for use in immunoassays.
T2  - Viral Immunology
T1  - A Bioinformatics Approach to Identify Natural Autoantibodies from Healthy Blood Donors Sera Reactive with the HCV NS5A-Derived Peptide by Immunoassay
VL  - 24
IS  - 2
SP  - 69
EP  - 76
DO  - 10.1089/vim.2010.0107
ER  - 

@article{
author = "Vasiljevic, Nada and Veljković, Nevena V. and Kosec, Tatjana and Ma, Xue-Zhong and Glišić, Sanja and Prljić, Jelena and Vujicic, Ana Djordjevic and Markovic, Ljiljana and Branch, Donald R.",
year = "2011",
abstract = "Natural autoantibodies (NAbs) are continually produced throughout life and have an ability to recognize self and altered self, as well as foreign antigens, by recognizing cellular pattern recognition receptors. Sometimes NAb specificity demonstrates overlap between human and pathologic proteomes. This information can be useful in selecting target sequences for screening purposes. In this study we undertook a multi-step bioinformatics search to predict a virus-derived peptide that can be recognized by NAbs in sera of uninfected individuals. We selected protein hepatitis C virus (HCV) NS5A as a target sequence, motivated by the fact that the HCV proteome is characterized by extensive sequence similarities to the human proteome, and because screening for anti-HCV antibodies, including anti-NS5A, is important clinically, particularly in screening of potential blood donors. The virus-specific peptide P1, and the homologous human peptide derived from enzyme-inducible nitric oxide synthase (iNOS), P2, exhibiting not only simple homology, but also complementarities of physicochemical patterns, were synthesized and 80 HCV-negative and 50 HCV-positive blood donor sera were tested by ELISA. These peptides reacted similarly (p LT 0.001) with HCV-negative sera, and in several cases the measured reactivity was significantly above the cut-off value of commercial anti-HCV screening assays. In HCV-positive sera, the titers of antibodies reactive with analyzed HCV NS5A peptide were not significantly increased (p LT 0.001) compared to host peptide, the implications of which are unclear, but may be consistent with these antibodies being naturally produced. Finally, we extended our bioinformatics analyses to the dataset of human self-binding sequences, and propose a general approach for the selection of specific diagnostic and screening antigens for use in immunoassays.",
journal = "Viral Immunology",
title = "A Bioinformatics Approach to Identify Natural Autoantibodies from Healthy Blood Donors Sera Reactive with the HCV NS5A-Derived Peptide by Immunoassay",
volume = "24",
number = "2",
pages = "69-76",
doi = "10.1089/vim.2010.0107"
}

Vasiljevic, N., Veljković, N. V., Kosec, T., Ma, X., Glišić, S., Prljić, J., Vujicic, A. D., Markovic, L.,& Branch, D. R.. (2011). A Bioinformatics Approach to Identify Natural Autoantibodies from Healthy Blood Donors Sera Reactive with the HCV NS5A-Derived Peptide by Immunoassay. in Viral Immunology, 24(2), 69-76.
https://doi.org/10.1089/vim.2010.0107

Vasiljevic N, Veljković NV, Kosec T, Ma X, Glišić S, Prljić J, Vujicic AD, Markovic L, Branch DR. A Bioinformatics Approach to Identify Natural Autoantibodies from Healthy Blood Donors Sera Reactive with the HCV NS5A-Derived Peptide by Immunoassay. in Viral Immunology. 2011;24(2):69-76.
doi:10.1089/vim.2010.0107 .

Vasiljevic, Nada, Veljković, Nevena V., Kosec, Tatjana, Ma, Xue-Zhong, Glišić, Sanja, Prljić, Jelena, Vujicic, Ana Djordjevic, Markovic, Ljiljana, Branch, Donald R., "A Bioinformatics Approach to Identify Natural Autoantibodies from Healthy Blood Donors Sera Reactive with the HCV NS5A-Derived Peptide by Immunoassay" in Viral Immunology, 24, no. 2 (2011):69-76,
https://doi.org/10.1089/vim.2010.0107 . .