Center for the Study of Chronic Metabolic and Rare Diseases

Publications

CSCMRD supports student-driven model for publications of the results of the studies and encourages students to contribute scientific writing for both review and research papers. The names of GMU student co-authors are highlighted for each publication. Many students continue to contribute to work of the CSGLD after advancing to collaborator or faculty status, in these cases the names are not highlighted anymore. Please note that for GMU faculty we only list work relevant to CSCMRD charge. Academic works covering other topics (i.e. cancer) are not listed. CSCMRD supports student-driven model for publications of the results of the studies and encourages students to contribute scientific writing for both review and research papers. The names of GMU student co-authors are highlighted for each publication. Many students continue to contribute to work of the CSGLD after advancing to collaborator or faculty status, in these cases the names are not highlighted anymore. Please note that for GMU faculty we only list work relevant to CSCMRD charge. Academic works covering other topics (i.e. cancer) are not listed.

BOOKS:

  • Jarrar M, Younossi ZM, Baranova A. “Adipokines and Pathogenesis of Non Alcoholic Fatty Liver Disease” VDM Verlag Dr. Muller, (ISBN-10: 3639091655), 2008
  • Manyam G, Baranova A. “Gene expression during carcinogenesis: A bioinformatics perspective” LAP Lambert Academic Publishing, (ISBN-10: 3838350898), (2010)

BOOK CHAPTERS:

  • Veytsman B, Baranova A. "High Throughput Approaches to Biomarker Discovery and the Challenges of Subsequent Validation" In: Biomarkers in Disease: Methods, Discoveries and Applications. Editors: Victor Preedy, Springer (ISBN-10 9400776950), 2015
  • Moshkovskii S, Pyatnitsky M, Lokhov P, Baranova A. "OMICS for Tumor Biomarker Research" In: Biomarkers in Disease Methods, Discoveries and Applications. Editors: Victor Preedy, Springer (ISBN-10: 9400776950), 2015
  • Baranova A, Younossi ZM. "Adipokines in Non-alcoholic Fatty Liver Diseases” In: Adipose tissue and adipokines in health and disease (Nutrition and Health), 2nd Edition. Editors: Giamila Fantuzzi and Carol Braunschweig, Humana Press (ISBN-10: 1627037691), 2014
  • Wojtusiak J, Baranova A. “Model Learning from Published Aggregated Data” In: Learning Structure and Schemas from Documents. Editors: Marenglen Biba and Fatos Xhafa, Springer (ISBN-10: 3642229123), 2011
  • Baranova A, Birerdinc A, Estep M, Younossi ZM. “Pathogenesis of obesity-related chronic liver diseases as the study case for the systems biology” In: Systems Biology for Signaling Networks. Editor: Sangdun Choi, Springer, Springer; 1st Edition, (ISBN-13: 978-1441957962), 2008
  • Baranova A, Petricoin E, Liotta L, Jarrar MH, Younossi ZM. ”Novel Technologies in Studying Chronic Liver Diseases” In: Practical Management of Liver Diseases, 1st Edition, Cambridge University Press, Hardback (ISBN-13: 9780521684897), 2008
  • Baranova A, Younossi ZM. “Adipokines in Non-alcoholic Fatty Liver Diseases” In: Adipose tissue and adipokines in health and disease. Editors: Giamila Fantuzzi and Theodore Mazzone. Humana Press, 2007

JOURNAL ARTICLES:

2015

  • Ivanov M, Baranova A, Butler T, Spellman P, Mileyko V. Non-random fragmentation patterns in circulating cell-free DNA reflect epigenetic regulation. BMC Genomics. 2015
  • Stepanova M, Rodriguez E, Birerdinc A, Baranova A. Age-independent rise of inflammatory scores may contribute to accelerated aging in multi-morbidity. Oncotarget. 2015 Jan 30;6(3):1414-21.
  • Manyam G, Birerdinc A, Baranova A. KPP: KEGG Pathway Painter. BMC Syst Biol. 2015; 9 Suppl 2:S3.
  • de Oliveira MR, Elangovan N, Ljubkovic M, Baranova A. The roads to mitochondrial dysfunction. Biomed Res Int. 2015
  • Baranova A, Willett JD. Anti-aging dilemma: to restore the hardware or to reinstall the software? Front Genet. 2015 Apr 14;6:129.
  • Myakishev-Rempel M, Stadler I, Polesskaya O, Motiwala AS, Nardia FB, Mintz B, Baranova A, Zavislan J, Lanzafame RJ. Red Light Modulates Ultraviolet-Induced Gene Expression in the Epidermis of Hairless Mice. Photomed Laser Surg. 2015 Oct;33(10):498-503.
  • Velegzhaninov I, Mezenceva V, Shostal O, Baranova A, Moskalev A. Age dynamics of DNA damage and CpG methylation in the peripheral blood leukocytes of mice. Mutat Res. - Fundamental and Molecular Mechanisms of Mutagenesis. 2015 May;775:38-42.
  • Estep JM, Goodman Z, Sharma H, Younossi E, Elarainy H, Baranova A, Younossi Z. Adipocytokine expression associated with miRNA regulation and diagnosis of NASH in obese patients with NAFLD. Liver Int. 2015 Apr;35(4):1367-72.


2014

  • Veytsman B, Wang L, Cui T, Bruskin S, Baranova A. Distance-based classifiers as potential diagnostic and prediction tools for human diseases. BMC Genomics. 2014;15
  • Baranova A. LRRC8s revisited: and now they SWELL! Bioessays. 2014 Nov;36(11):1017-8.
  • Marakhonov A, Sadovskaya N, Antonov I, Baranova A, Skoblov M. Analysis of discordant Affymetrix probesets casts serious doubt on idea of microarray data reutilization. BMC Genomics. 2014;15
  • Mehta R, Neupane A, Wang L, Goodman Z, Baranova A, Younossi ZM. Expression of NALPs in adipose and the fibrotic progression of non-alcoholic fatty liver disease in obese subjects. BMC Gastroenterol. 2014 Dec 16;14:208
  • Mehta R, Birerdinc A, Wang L, Younoszai Z, Moazzez A, Elariny H, Goodman Z, Chandhoke V, Baranova A, Younossi ZM. Expression of energy metabolism related genes in the gastric tissue of obese individuals with non-alcoholic fatty liver disease. BMC Gastroenterol. 2014 Apr 9;14:72.
  • Glebova K, Reznik ON, Reznik AO, Mehta R, Galkin A, Baranova A, Skoblov M. siRNA technology in kidney transplantation: current status and future potential. BioDrugs. 2014 Aug;28(4):345-61.
  • Loria A, Doyle K, Weinstein AA, Winter P, Escheik C, Price J, Wang L, Birerdinc A, Baranova A, Gerber L, Younossi ZM. Multiple factors predict physical performance in people with chronic liver disease. Am J Phys Med Rehabil. 2014 Jun;93(6):470-6
  • Kolker E, Özdemir V, Martens L, Hancock W, Anderson G, Anderson N, Aynacioglu S, Baranova A, Campagna SR, Chen R, Choiniere J, Dearth SP, Feng WC, Ferguson L, Fox G, Frishman D, Grossman R, Heath A, Higdon R, Hutz MH, Janko I, Jiang L,oshi S, Kel A, Kemnitz JW, Kohane IS, Kolker N, Lancet D, Lee E, Li W, Lisitsa A, Llerena A, Macnealy-Koch C, Marshall JC, Masuzzo P, May A, Mias G, Monroe M, Montague E, Mooney S, Nesvizhskii A, Noronha S, Omenn G, Rajasimha H, Ramamoorthy P, Sheehan J, Smarr L, Smith CV, Smith T, Snyder M, Rapole S, Srivastava S, Stanberry L, Stewart E, Toppo S, Uetz P, Verheggen K, Voy BH, Warnich L, Wilhelm SW, Yandl G. Toward more transparent and reproducible omics studies through a common metadata checklist and data publications. OMICS. 2014 Jan;18(1):10-4.
  • Melkina OE, Goryanin II, Manukhov IV, Baranova AV, Kolb VA, Svetlov MS, Zavilgelsky GB. Trigger factor assists the refolding of heterodimeric but not monomeric luciferases. Biochemistry (Mosc). 2014 Jan;79(1):62-8.


2013

  • Skoblov M, Marakhonov A, Marakasova E, Guskova A, Chandhoke V, Birerdinc A, Baranova A. Protein partners of KCTD proteins provide insights about their functional roles in cell differentiation and vertebrate development. Bioessays. 2013 Jul;35(7):586-96.
  • Page S, Birerdinc A, Estep M, Stepanova M, Afendy A, Petricoin E, Younossi Z, Chandhoke V, Baranova A. Knowledge-based identification of soluble biomarkers: hepatic fibrosis in NAFLD as an example. PLoS One. 2013;8(2)
  • Birerdinc A, Jarrar M, Stotish T, Randhawa M, Baranova A. Manipulating molecular switches in brown adipocytes and their precursors: a therapeutic potential. Prog Lipid Res. 2013 Jan;52(1):51-61
  • Mayburd A, Baranova A. Knowledge-based compact disease models identify new molecular players contributing to early-stage Alzheimer's disease. BMC Syst Biol. 2013 Nov 7;7:121
  • Marakasova ES, Akhmatova NK, Amaya M, Eisenhaber B, Eisenhaber F, van Hoek ML, Baranova AV. Prenylation: from bacteria to eukaryotes. Mol Biol (Mosk). 2013 Sep-Oct;47(5):717-30
  • Baranova A, Tran TP, Afendy A, Wang L, Shamsaddini A, Mehta R, Chandhoke V, Birerdinc A, Younossi ZM. Molecular signature of adipose tissue in patients with both non-alcoholic fatty liver disease (NAFLD) and polycystic ovarian syndrome (PCOS). J Transl Med. 2013 May 31;11:133
  • Sharma H, Estep M, Birerdinc A, Afendy A, Moazzez A, Elariny H, Goodman Z, Chandhoke V, Baranova A, Younossi ZM. Expression of genes for microRNA-processing enzymes is altered in advanced non-alcoholic fatty liver disease. J Gastroenterol Hepatol. 2013 Aug;28(8):1410-5
  • Mehta R, Birerdinc A, Neupane A, Shamsaddini A, Afendy A, Elariny H, Chandhoke V, Baranova A, Younossi ZM. Expression of inflammation-related genes is altered in gastric tissue of patients with advanced stages of NAFLD. Mediators Inflamm. 2013;2013:684237


2012

  • Birerdinc A, Estep M, Afendy A, Stepanova M, Younossi I, Baranova A, Younossi ZM. Gene expression profiles associated with anaemia and ITPA genotypes in patients with chronic hepatitis C (CH-C). J Viral Hepat. 2012 Jun;19(6):414-22.
  • Stephen S, Baranova A, Younossi ZM. Nonalcoholic fatty liver disease and bariatric surgery. Expert Rev Gastroenterol Hepatol. 2012 Apr;6(2):163-71.
  • Younossi ZM, Birerdinc A, Estep M, Stepanova M, Afendy A, Baranova A. The Impact of IL28B Genotype on the Gene Expression Profile of Patients with Chronic Hepatitis C Treated with Pegylated Interferon Alpha and Ribavirin. J Transl Med. 2012 Feb 7;10(1):25. (Impact 3.51)
  • Elariny HA, Baranova A. Comment on: Diet-induced obesity associated with steatosis, oxidative stress and inflammation in liver. Surg Obes Relat Dis. 2012 Jan;8(1):81-3.
  • Baranova A, Lal P, Birerdinc A, Younossi ZM. Non-Invasive Markers for Hepatic Fibrosis. BMC Gastroenterol. 2011 Aug 17;11(1):91. Paper received HIGHLY ACCESSED status; it received 4139 accesses and is currently 12th most popular paper in the journal for year 2011 (Impact 2.47)
  • Birerdinc A, Stepanova M, Pawloski L, Younossi ZM. Caffeine is protective in patients with non-alcoholic fatty liver disease. Aliment Pharmacol Ther. 2012 Jan;35(1):76-82.
  • Baranova A. The more the merrier: the pannexin family just got a new branch. Bioessays. 2012 Jul;34(7):530-1
  • Birerdinc A, Mehta R, Alhussain R, Afendi A, Chandhoke V, Younossi Z, Baranova A. Selection of reliable reference genes for qRT-PCR analysis in human non-cancerous gastric tissue. Mol Biol (Mosk). 2012 Jan-Feb;46(1):166-75.
  • Birerdinc A, Afendy A, Stepanova M, Younossi I, Baranova A, Younossi ZM. Gene expression profiles associated with depression in patients with chronic hepatitis C (CH-C). Brain Behav. 2012 Sep;2(5):525-31
  • Mehta R, Baranova A, Birerdinc A. Do-It-Yourself device for recovery of cryopreserved samples accidentally dropped into cryogenic storage tanks. J Vis Exp. 2012 May 11;(63):e3903.

2011

  • Akula N, Baranova A, Seto D, Solka J, Nalls MA, et al. 2011 A Network-Based Approach to Prioritize Results from Genome-Wide Association Studies. PLoS ONE, 2011, Sep 6(9): e24220. doi:10.1371/journal.pone.0024220 (Impact 4.41)
  • Estep M, Abawi M, Jarrar M, Wang L, Stepanova M, Elariny H, Moazez A, Goodman Z, Chandhoke V, Baranova A, Younossi ZM. Association of Obestatin, Ghrelin, and Inflammatory Cytokines in Obese Patients with Non-alcoholic Fatty Liver Disease. Obes Surg. 2011 Jul 9. (Impact 3.078)
  • Baranova A, Younossi ZM. Biomarkers for Non-invasive Diagnosis of Non-alcoholic Steatohepatitis. Obes Surg. 2011 Aug;21(8):1318. (Impact 3.078)
  • Vernon G, Baranova A, Younossi ZM. Systematic review: the epidemiology and natural history of non-alcoholic fatty liver disease and non-alcoholic steatohepatitis in adults. Aliment Pharmacol Ther. 2011 Aug;34(3):274-85
  • Baranova A, Bode J, Manyam G, Emelianenko M. An efficient algorithm for systematic analysis of nucleotide strings suitable for siRNA design. BMC Res Notes. 2011 May 27;4:168.
  • Baranova A, Tran TP, Birerdinc A, Younossi ZM. Systematic review: association of polycystic ovary syndrome with metabolic syndrome and non-alcoholic fatty liver disease. Aliment Pharmacol Ther. 2011 Apr;33(7):801-14. (Impact: 3.861)
  • Younossi ZM, Limongi D, Stepanova M, Pierobon M, Afendy A, Mehta R, Baranova A, Liotta L, Petricoin E. Protein pathway activation associated with sustained virologic response in patients with chronic hepatitis C treated with pegylated interferon (PEG-IFN) and ribavirin (RBV). J Proteome Res. 2011 Feb 4;10(2):774-9. (Impact: 5.460)
  • Baranova A, Jarrar MH, Stepanova M, Johnson A, Rafiq N, Gramlich T, Chandhoke V, Younossi ZM. Association of serum adipocytokines with hepatic steatosis and fibrosis in patients with chronic hepatitis C. Digestion. 2011;83(1-2):32-40. (Impact: 2.146)
  • Page S, Chandhoke V, Baranova A. Melanin and melanogenesis in adipose tissue: possible mechanisms for abating oxidative stress and inflammation? Obes Rev. 2011 May;12(5):e21-31. Review. (Impact: 5.862)
  • Younossi ZM, Page S, Rafiq N, Birerdinc A, Stepanova M, Hossain N, Afendy A, Younoszai Z, Goodman Z, Baranova A. A Biomarker Panel for Non-alcoholic Steatohepatitis (NASH) and NASH-Related Fibrosis. Obes Surg. 2011 Apr;21(4):431-9. (Impact 3.078)

2010

  • Birerdinc A, Younossi ZM. Emerging therapies for hepatitis C virus. Expert Opin Emerg Drugs. 2010 Dec;15(4):535-44.
  • Estep JM, Birerdinc A, Younossi Z. Non-invasive diagnostic tests for non-alcoholic fatty liver disease. Curr Mol Med. 2010 Mar;10(2):166-72.
  • Estep JM, O'Reilly L, Grant G, Piper J, Jonsson J, Afendy A, Chandhoke V, Younossi ZM. Hepatic stellate cell and myofibroblast-like cell gene expression in the explanted cirrhotic livers of patients undergoing liver transplantation. Dig Dis Sci. 2010 Feb;55(2):496-504.
  • Estep M, Armistead D, Hossain N, Elarainy H, Goodman Z, Baranova A, Chandhoke V, Younossi ZM. Differential expression of miRNAs in the visceral adipose tissue of patients with non-alcoholic fatty liver disease. Aliment Pharmacol Ther. 2010 Aug;32(3):487-97. (Impact 4.357)
  • Mehta R, Birerdinc A, Hossain N, Afendy A, Chandhoke V, Younossi Z, Baranova A. Validation of endogenous reference genes for qRT-PCR analysis of human visceral adipose samples. BMC Mol Biol. 2010 May 21;11:39 Paper received HIGHLY ACCESSED status.It received 3199 lifetime accesses and is currently 12th most popular paper in the journal for year 2011 (Impact 3.19)
  • Younossi ZM, Baranova A, Stepanova M, Page S, Calvert VS, Afendy A, Goodman Z, Chandhoke V, Liotta L, Petricoin E. Phosphoproteomic biomarkers predicting histologic nonalcoholic steatohepatitis and fibrosis. J Proteome Res. 2010 Jun 4;9(6):3218-24 (Impact 5.132)
  • Deigner HP, Baranova AV. Current methods and perspectives in biomarker discovery. Curr Mol Med. 2010 Mar;10(2):113-4. Impact 5.254)
  • Birerdinc A, Afendy A, Stepanova M, Younossi I, Manyam G, Baranova A, Younossi ZM Functional pathway analysis of genes associated with response to treatment for chronic hepatitis C. J Viral Hepat. 2010 Oct;17(10):730-6. (Impact 3.502)
  • Stepanova M, Hossain N, Afendy A, Perry K, Goodman ZD, Baranova A, Younossi Z. Hepatic Gene Expression of Caucasian and African-American Patients with Obesity-Related Non-Alcoholic Fatty Liver Disease. Obes Surg. 2010 Jan 30. (Impact 3.078)

2009

  • Manyam G, Baranova A, Skoblov M, Mishra RK. SnS-Align: a graphic tool for alignment of distantly related proteins. Int J Bioinform Res Appl. 2009;5(6):663-73
  • Younossi ZM, Afendy A, Stepanova M, Hossain N, Younossi I, Ankrah K, Gramlich T, Baranova A. Gene expression profile associated with superimposed non-alcoholic fatty liver disease and hepatic fibrosis in patients with chronic hepatitis C. Liver Int. 2009 Oct;29(9):1403-12. (Impact 3.840)
  • Wojtusiak J, Michalski RS, Simanivanh T, Baranova AV. Towards application of rule learning to the meta-analysis of clinical data: An example of the metabolic syndrome. Int J Med Inform. 2009 May 21. (Impact 2.754)
  • Estep JM, Baranova A, Hossain N, Elariny H, Ankrah K, Afendy A, Chandhoke V, Younossi ZM. Expression of cytokine signaling genes in morbidly obese patients with non-alcoholic steatohepatitis and hepatic fibrosis. Obes Surg. 2009 May;19(5):617-24. (Impact 3.078)
  • Younossi ZM, Baranova A, Afendy A, Collantes R, Stepanova M, Manyam G, Bakshi A, Sigua CL, Chan JP, Iverson AA, Santini CD, Chang SY. Early gene expression profiles of patients with chronic hepatitis C treated with pegylated interferon-alfa and ribavirin. Hepatology. 2009 Mar;49(3):763-74. (Impact 10.885)
  • Randhawa M, Huff T, Valencia JC, Younossi Z, Chandhoke V, Hearing VJ, Baranova A. Evidence for the ectopic synthesis of melanin in human adipose tissue. FASEB J. 2009 Mar;23(3):835-43. (Impact 6.515)

2008

  • Baranova AV. Adipokine genetics: unbalanced protein secretion by human adipose tissue as a cause of the metabolic syndrome. Russ J Genet 2008 Oct;44(10):1338-55. (Impact 0.266)
  • Baranova A. PPAR Ligands as Potential Modifiers of Breast Carcinoma Outcomes. PPAR Res. 2008;2008:230893.
  • Younossi ZM, Jarrar M, Nugent C, Randhawa M, Afendy M, Stepanova M, Rafiq N, Goodman Z, Chandhoke V, Baranova A. A novel diagnostic biomarker panel for obesity-related nonalcoholic steatohepatitis (NASH). Obes Surg. 2008 Nov;18(11):1430-7. (Impact 3.078)
  • Alsheddi T, Vasin L, Meduri R, Randhawa M, Glazko G, Baranova A. siRNAs with high specificity to the target: a systematic design by CRM algorithm. Mol Biol (Mosk). 2008 Jan-Feb;42(1):163-71. (Impact 0.849)
  • Myakishev M, Polesskaya O, Kulichkova V, Baranova A, Gause L, Konstantinova I. PCR-based detection of Pol III-transcribed transposons and its application to the rodent model of ultraviolet response. Cell Stress Chaperones. 2008 Spring;13(1):111-6. (Impact 2.238)
  • Baranova A, Younossi ZM. The future is around the corner: Noninvasive diagnosis of progressive nonalcoholic steatohepatitis. Hepatology. 2008 Feb;47(2):373-5. (Impact 11.355)
  • Jarrar MH, Baranova A, Collantes R, Ranard B, Stepanova M, Bennett C, Fang Y, Elariny H, Goodman Z, Chandhoke V, Younossi ZM. Adipokines and cytokines in non-alcoholic fatty liver disease. Aliment Pharmacol Ther. 2008 Mar 1;27(5):412-21. (Impact 1.215)

2007

  • Baranova A, Schlauch K, Elariny H, Jarrar M, Bennett C, Nugent C, Gowder SJ, Younoszai Z, Collantes R, Chandhoke V, Younossi ZM. Gene expression patterns in hepatic tissue and visceral adipose tissue of patients with non-alcoholic fatty liver disease. Obes Surg. 2007 Aug;17(8):1111-8. (Impact 2.913)
  • Calvert VS, Collantes R, Elariny H, Afendy A, Baranova A, Mendoza M, Goodman Z, Liotta LA, Petricoin EF, Younossi ZM. A systems biology approach to the pathogenesis of obesity-related nonalcoholic fatty liver disease using reverse phase protein microarrays for multiplexed cell signaling analysis. Hepatology. 2007 Jul;46(1):166-72. (Impact 11.355)
  • Jarrar MH, Baranova A. PPARgamma activation by thiazolidinediones (TZDs) may modulate breast carcinoma outcome: the importance of interplay with TGFbeta signalling. J Cell Mol Med. 2007 Jan-Feb;11(1):71-87. (Impact 5.114)
  • Baranova A, Randhawa M, Jarrar M, Younossi ZM. Adipokines and melanocortins in the hepatic manifestation of metabolic syndrome: nonalcoholic fatty liver disease. Expert Rev Mol Diagn. 2007 Mar;7(2):195-205. (Impact 3.472)

2006

  • Litvin O, Tiunova A, Connell-Alberts Y, Panchin Y, Baranova A. What is hidden in the pannexin treasure trove: the sneak peek and the guesswork. J Cell Mol Med. 2006 Jul-Sep;10(3):613-34. (Impact 5.114)
  • Baranova A, Gowder SJ, Schlauch K, Elariny H, Collantes R, Afendy A, Ong JP, Goodman Z, Chandhoke V, Younossi ZM. Gene expression of leptin, resistin, and adiponectin in the white adipose tissue of obese patients with non-alcoholic fatty liver disease and insulin resistance. Obes Surg. 2006 Sep;16(9):1118-25. (Impact 2.908)
  • Vanden Abeele F, Bidaux G, Gordienko D, Beck B, Panchin YV, Baranova AV, Ivanov DV, Skryma R, Prevarskaya N. Functional implications of calcium permeability of the channel formed by pannexin 1. J Cell Biol. 2006 Aug 14;174(4):535-46. (Impact 9.120)
  • Stepanova M, Tiazhelova T, Skoblov M, Baranova A. Potential regulatory SNPs in promoters of human genes: a systematic approach. Mol Cell Probes. 2006 Dec;20(6):348-58. (Impact 2.196)