A. Favorov, D. Lvovs, W. Speier, G. Parmigiani, and M. F. Ochs, “OnionTree XML: A Format to Exchange Gene-Related Probabilities.,” Journal of Biomolecular Structure & Dynamics, vol. 29, no. 2, pp. 417-23, Oct. 2011.

Y. A. Medvedeva, I. V. Kulakovskii, N. Y. Oparina, A. V. Favorov, and V. Y. Makeev, “Asymmetry of the GC Content in the Vicinity of Transcription Starts (with the Participation of Polymerase PolII) and its Correlation with the Location of the Sites of Adsorption of Protein SP1 on DNA,” Biofizika, vol. 55, no. 6, pp. 976-985, Dec. 2010.

E. J. Fertig, J. Ding, A. V. Favorov, G. Parmigiani, and M. F. Ochs, “CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data,” Bioinformatics (Oxford, England), Sep. 2010.

I. V. Kulakovskiy, V. A. Boeva, A. V. Favorov, and V. J. Makeev, “Deep and wide digging for binding motifs in ChIP-Seq data,” Bioinformatics (Oxford, England), Aug. 2010.

M. A. Sudomoina et al., “[Complex analsis of association of inflammation genes with myocardial infarction].,” Molekuliarnaia biologiia, vol. 44, no. 3, pp. 463-71, Jun. 2010.

M. A. Sudomoina et al., “Complex analysis of association of inflammation gene polymorphisms with myocardial infarction,” Molecular biology, vol. 44, no. 3, pp. 407-414, Jun. 2010.

K. Samedova et al., “Complex Analysis of Genetic Predisposition to Different Forms of Low-Renin Arterial Hypertension,” Journal of hypertension, vol. 28, p. E348-E348, Jun. 2010.

M. G. Parfenov et al., “Genetic Susceptibility to Ischemic Stroke in Russians,” Molecular biology, vol. 43, no. 5, pp. 873-880, Oct. 2009.

M. G. Parfenov et al., “[Complex analysis of genetic predisposition to ischemic stroke in Russians].,” Molekuliarnaia biologiia, vol. 43, no. 5, pp. 937-45, Oct. 2009.

I. V. Kulakovskiy, A. V. Favorov, and V. J. Makeev, “Motif discovery and motif finding from genome-mapped DNase footprint data,” Bioinformatics (Oxford, England), Jul. 2009.

C. O’Doherty et al., “Genetic polymorphisms, their allele combinations and IFN-beta treatment response in Irish multiple sclerosis patients,” Pharmacogenomics, vol. 10, no. 7, pp. 1177-1186, Jul. 2009.

K. Vandenbroeck et al., “United Europeans for development of pharmacogenomics in multiple sclerosis network,” Pharmacogenomics, vol. 10, no. 5, pp. 885-894, May. 2009.

O. O. Favorova et al., “Genetic predisposition to multiple sclerosis as a polygenic autoimmune disease,” Zhurnal Nevrologii i Psikhiatrii Imeni S S Korsakova, vol. 109, no. 7, pp. 16-22, 2009.

M. S. Polishchyuk, A. Heinzel, A. V. Favorov, and Y. V. Makeev, “A Comparative Analysis of the Binding Sites of Proteins Regulating the Transcription in the Early Development of Drosophila melanogaster, Determined by the ChIP-chip Method and the Theoretically Predicted Clusters of the Binding Sites of these Proteins,” Biofizika, vol. 53, no. 5, pp. 754-757, Oct. 2008.

N. M. Chikhladze et al., “Comparative genetic analysis of different forms of low-renin arterial hypertension,” Molecular biology, vol. 42, no. 4, pp. 521-530, Aug. 2008.

K. Samedova et al., “Contribution of CYP11B2, ren and agt genes in genetic predisposition to low-renin arterial hypertension associated with hyperaldosteronism,” Journal of hypertension, vol. 26, p. S137-S138, Jun. 2008.

N. M. Chikhladze et al., “Contribution of CYP11B2, REN and AGT genes in genetic predisposition to arterial hypertension associated with hyperaldosteronism,” Kardiologiya, vol. 48, no. 1, pp. 37-42, 2008.

K. Samedova et al., “Genetic susceptibility to different forms of low-renin arterial hypertension,” Journal of hypertension, vol. 25, p. S399-S399, Jun. 2007.

R. N. Nurtdinov, A. D. Neverov, A. V. Favorov, A. A. Mironov, and M. S. Gelfand, “Conserved and species-specific alternative splicing in mammalian genomes,” BMC Evolutionary Biology, vol. 7, p. 249, 2007.

M. A. Sudomoina et al., “Genetic risk factors of arterial hypertension (the Study of Yakut Ethnic Group Patients with Ischemic Stroke),” Doklady Akademii Nauk, vol. 410, no. 6, pp. 832-834, Oct. 2006.

M. A. Sudomoina et al., “Genetic risk factors of arterial hypertension: analysis of ischemic stroke patients from the Yakut ethnic group,” Doklady. Biochemistry and Biophysics, vol. 410, pp. 324-326, Oct. 2006.

L. V. Danilova, D. D. Pervouchine, A. V. Favorov, and A. A. Mironov, “RNAKinetics: a web server that models secondary structure kinetics of an elongating RNA,” Journal of Bioinformatics and Computational Biology, vol. 4, no. 2, pp. 589-596, Apr. 2006.

O. O. Favorova et al., “Three allele combinations associated with multiple sclerosis,” BMC Medical Genetics, vol. 7, p. 63, 2006.

A. V. Favorov, T. V. Andreewski, M. A. Sudomoina, O. O. Favorova, G. Parmigiani, and M. F. Ochs, “A Markov Chain Monte Carlo Technique for Identification of Combinations of Allelic Variants Underlying Complex Diseases in Humans,” Genetics, vol. 171, no. 4, pp. 2113-2121, Dec. 2005.

T. Andreewski et al., “Complex analysis of genetic susceptibility to hypertension in ischemic stroke patients,” Journal of hypertension, vol. 23, p. S367-S367, Jun. 2005.

A. V. Favorov, M. S. Gelfand, A. V. Gerasimova, D. A. Ravcheev, A. A. Mironov, and V. J. Makeev, “A Gibbs sampler for identification of symmetrically structured, spaced DNA motifs with improved estimation of the signal length,” Bioinformatics (Oxford, England), vol. 21, no. 10, pp. 2240-2245, May. 2005.

M. Tompa et al., “Assessing computational tools for the discovery of transcription factor binding sites,” Nature Biotechnology, vol. 23, no. 1, pp. 137-144, Jan. 2005.

A. Favorov, “Methodological differences of the physical and computational model approaches,” Biofizika, vol. 49, no. 5, pp. 958-960, Oct. 2004.

B. W. Levin, V. I. Sheinin, D. I. Blokhin, and A. V. Favorov, “Infrared diagnostics of the response of geomaterials to pulse and shock loads,” Doklady Earth Sciences, vol. 395, no. 3, pp. 465-467, Apr. 2004.

V. I. Sheinin, B. V. Levin, D. I. Blokhin, and A. V. Favorov, “Identification of nonstationary changes in stress state of geomaterials by infrared radiometry data,” Journal of Mining Science, vol. 39, no. 5, pp. 431-437, Oct. 2003.

V. I. Sheinin, B. V. Levin, E. F. Motovilov, A. A. Morozov, and A. V. Favorov, “Recognition of rapid periodic variations in rock stresses from infrared radiometry data,” Izvestiya-Physics of the Solid Earth, vol. 37, no. 4, pp. 298-304, Apr. 2001.

V. I. Sheinin, E. A. Motovilov, A. A. Morozov, and A. V. Favorov, “Identification of stresses in rocks on the basis of changes in density of infrared radiation flux,” Journal of Mining Science, vol. 35, no. 6, pp. 602-607, Dec. 1999.

A. V. Favorov, M. A. Livshits, and A. D. Mirzabekov, “DNA hybridization to oligonucleotide microchip. Correlations and screening for errors,” Molecular biology, vol. 33, no. 3, pp. 374-378, Jun. 1999.

A. V. Favorov, M. A. Livshits, and A. D. Mirzabekov, “[Hybridization of DNA with an oligonucleotide microchip. Correlation and screening for errors],” Molekuliarnaia Biologiia, vol. 33, no. 3, pp. 428-432, Jun. 1999.

A. V. Favorov and M. V. Volkenshtein, “Mechanical Stability of Cytoskeleton and the Initiation of Cell Rebuildings,” Doklady Akademii nauk SSSR, vol. 319, no. 5, pp. 1239-1243, 1991.