Works by Favorov, A. V.

Results: 59

RNAKINETICS:: A WEB SERVER THAT MODELS SECONDARY STRUCTURE KINETICS OF AN ELONGATING RNA.

Published in:

Journal of Bioinformatics & Computational Biology, 2006, v. 4, n. 2, p. 589, doi. 10.1142/S0219720006001904

By:

Danilova, Ludmila V.;
Pervouchine, Dmitri D.;
Favorov, Alexander V.;
Mironov, Andrei A.

Publication type:

Article

Investigation of the Role of PUFA Metabolism in Breast Cancer Using a Rank-Based Random Forest Algorithm.

Published in:

Cancers, 2022, v. 14, n. 19, p. 4663, doi. 10.3390/cancers14194663

By:

Guryleva, Mariia V.;
Penzar, Dmitry D.;
Chistyakov, Dmitry V.;
Mironov, Andrey A.;
Favorov, Alexander V.;
Sergeeva, Marina G.

Publication type:

Article

Deconvolution of B cell receptor repertoire in multiple sclerosis patients revealed a delay in tBreg maturation.

Published in:

Frontiers in Immunology, 2022, v. 13, p. 1, doi. 10.3389/fimmu.2022.803229

By:

Lomakin, Yakov A.;
Zvyagin, Ivan V.;
Ovchinnikova, Leyla A.;
Kabilov, Marsel R.;
Staroverov, Dmitriy B.;
Mikelov, Artem;
Tupikin, Alexey E.;
Zakharova, Maria Y.;
Bykova, Nadezda A.;
Mukhina, Vera S.;
Favorov, Alexander V.;
Ivanova, Maria;
Simaniv, Taras;
Rubtsov, Yury P.;
Chudakov, Dmitriy M.;
Zakharova, Maria N.;
Illarioshkin, Sergey N.;
Belogurov Jr., Alexey A.;
Gabibov, Alexander G.

Publication type:

Article

Weak Negative and Positive Selection and the Drift Load at Splice Sites.

Published in:

Genome Biology & Evolution, 2014, v. 6, n. 6, p. 1437, doi. 10.1093/gbe/evu100

By:

Denisov, Stepan V.;
Bazykin, Georgii A.;
Sutormin, Roman;
Favorov, Alexander V.;
Mironov, Andrey A.;
Gelfand, Mikhail S.;
Kondrashov, Alexey S.

Publication type:

Article

Natural variation of gene models in Drosophila melanogaster.

Published in:

BMC Genomics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12864-015-1415-6

By:

Kurmangaliyev, Yerbol Z.;
Favorov, Alexander V.;
Osman, Noha M.;
Lehmann, Kjong-Van;
Campo, Daniel;
Salomon, Matthew P.;
Tower, John;
Gelfand, Mikhail S.;
Nuzhdin, Sergey V.

Publication type:

Article

Determination of Periodic Changes in the Stress State of Grounds from Variations in Infrared Radiation Flux.

Published in:

Journal of Applied Mechanics & Technical Physics, 2000, v. 41, n. 6, p. 1131, doi. 10.1023/A:1026627311045

By:

Sheinin, V. I.;
Levin, B. V.;
Motovilov, É. A.;
Morozov, A. A.;
Favorov, A. V.

Publication type:

Article

Rational genomic optimization of DNA detection for human papillomavirus type 16 in head and neck squamous cell carcinoma.

Published in:

Head & Neck, 2020, v. 42, n. 4, p. 688, doi. 10.1002/hed.26041

By:

Saito, Yuki;
Favorov, Alexander V.;
Forman, Michael;
Ren, Shuling;
Sakai, Akihiro;
Fukusumi, Takahito;
Liu, Chao;
Sadat, Sayed;
Ando, Mizuo;
Xu, Guorong;
Khan, Zubair;
Pang, John;
Valsamakis, Alex;
Fisch, Kathleen M.;
Califano, Joseph A.

Publication type:

Article

Activity of Somatosensory-Responsive Neurons in High Subdivisions of SI Cortex during Locomotion.

Published in:

Journal of Neuroscience, 2015, v. 35, n. 20, p. 7763, doi. 10.1523/JNEUROSCI.3545-14.2015

By:

Favorov, Oleg V.;
Nilaweera, Wijitha U.;
Miasnikov, Alexandre A.;
Beloozerova, Irina N.

Publication type:

Article

Stimulus-dependent spatial patterns of response in SI cortex.

Published in:

BMC Neuroscience, 2005, v. 6, p. 47, doi. 10.1186/1471-2202-6-47

By:

Chiu, Joannellyn S.;
Tommerdahl, Mark;
Whitsel, Barry L.;
Favorov, Oleg V.

Publication type:

Article

Amplitude-dependency of response of SI cortex to flutter stimulation.

Published in:

BMC Neuroscience, 2005, v. 6, p. 43, doi. 10.1186/1471-2202-6-43

By:

Simons, Stephen B.;
Tannan, Vinay;
Chiu, Joannellyn;
Favorov, Oleg V.;
Whitsel, Barry L.;
Tommerdahl, Mark

Publication type:

Article

A Markov Chain Monte Carlo Technique for Identification of Combinations of Allelic Variants Underlying Complex Diseases in Humans.

Published in:

Genetics, 2005, v. 171, n. 4, p. 2113, doi. 10.1534/genetics.105.048090

By:

Favorov, Alexander V.;
Andreewski, Timophey V.;
Sudomoina, Marina A.;
Favorova, Olga O.;
Parmugiani, Giovanni;
Ochs, Michael F.

Publication type:

Article

Publisher Correction: Chromatin dysregulation and DNA methylation at transcription start sites associated with transcriptional repression in cancers.

Published in:

2019

By:

Ando, Mizuo;
Saito, Yuki;
Xu, Guorong;
Bui, Nam Q.;
Medetgul-Ernar, Kate;
Pu, Minya;
Fisch, Kathleen;
Ren, Shuling;
Sakai, Akihiro;
Fukusumi, Takahito;
Liu, Chao;
Haft, Sunny;
Pang, John;
Mark, Adam;
Gaykalova, Daria A.;
Guo, Theresa;
Favorov, Alexander V.;
Yegnasubramanian, Srinivasan;
Fertig, Elana J.;
Ha, Patrick

Publication type:

Correction Notice

Chromatin dysregulation and DNA methylation at transcription start sites associated with transcriptional repression in cancers.

Published in:

Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-09937-w

By:

Ando, Mizuo;
Saito, Yuki;
Xu, Guorong;
Bui, Nam Q.;
Medetgul-Ernar, Kate;
Pu, Minya;
Fisch, Kathleen;
Ren, Shuling;
Sakai, Akihiro;
Fukusumi, Takahito;
Liu, Chao;
Haft, Sunny;
Pang, John;
Mark, Adam;
Gaykalova, Daria A.;
Guo, Theresa;
Favorov, Alexander V.;
Yegnasubramanian, Srinivasan;
Fertig, Elana J.;
Ha, Patrick

Publication type:

Article

Chromatin dysregulation and DNA methylation at transcription start sites associated with transcriptional repression in cancers.

Published in:

Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-09937-w

By:

Ando, Mizuo;
Saito, Yuki;
Xu, Guorong;
Bui, Nam Q.;
Medetgul-Ernar, Kate;
Pu, Minya;
Fisch, Kathleen;
Ren, Shuling;
Sakai, Akihiro;
Fukusumi, Takahito;
Liu, Chao;
Haft, Sunny;
Pang, John;
Mark, Adam;
Gaykalova, Daria A.;
Guo, Theresa;
Favorov, Alexander V.;
Yegnasubramanian, Srinivasan;
Fertig, Elana J.;
Ha, Patrick

Publication type:

Article

Empiricist word learning.

Published in:

Behavioral & Brain Sciences, 2001, v. 24, n. 6, p. 1117, doi. 10.1017/S0140525X01360132

By:

Ryder, Dan;
Favorov, Oleg V.

Publication type:

Article

Epigenetic regulation of gene expression in cancer: techniques, resources and analysis.

Published in:

Briefings in Functional Genomics, 2018, v. 17, n. 1, p. 49, doi. 10.1093/bfgp/elx018

By:

Kagohara, Luciane T.;
Stein-O'Brien, Genevieve L.;
Kelley, Dylan;
Flam, Emily;
Wick, Heather C.;
Danilova, Ludmila V.;
Easwaran, Hariharan;
Favorov, Alexander V.;
Qian, Jiang;
Gaykalova, Daria A.;
Fertig, Elana J.

Publication type:

Article

Effects of stimulus-driven synchronization on sensory perception.

Published in:

Behavioral & Brain Functions, 2007, v. 3, p. 1, doi. 10.1186/1744-9081-3-61

By:

Tommerdahl, Mark;
Tannan, Vinay;
Zachek, Matt;
Holden, Jameson K.;
Favorov, Oleg V.

Publication type:

Article

Three allele combinations associated with Multiple Sclerosis.

Published in:

BMC Medical Genetics, 2006, v. 7, p. 63, doi. 10.1186/1471-2350-7-63

By:

Favorova, Olga O;
Favorov, Alexander V;
Boiko, Alexey N;
Andreewski, Timofey V;
Sudomoina, Marina A;
Alekseenkov, Alexey D;
Kulakova, Olga G;
Gusev, Eugenyi I;
Parmigiani, Giovanni;
Ochs, Michael F

Publication type:

Article

Identification of Nonstationary Changes in Stress State of Geomaterials by Infrared Radiometry Data.

Published in:

Journal of Mining Science, 2003, v. 39, n. 5, p. 431, doi. 10.1023/B:JOMI.0000029305.43373.5f

By:

Sheinin, V. I.;
Levin, B. V.;
Blokhin, D. I.;
Favorov, A. V.

Publication type:

Article

Candidate SNP Markers of Gender-Biased Autoimmune Complications of Monogenic Diseases Are Predicted by a Significant Change in the Affinity of TATA-Binding Protein for Human Gene Promoters.

Published in:

Frontiers in Immunology, 2016, p. 1, doi. 10.3389/fimmu.2016.00130

By:

Ponomarenko, Mikhail P.;
Arkova, Olga;
Rasskazov, Dmitry;
Ponomarenko, Petr;
Savinkova, Ludmila;
Kolchanov, Nikolay;
Rogozin, Igor B.;
Favorov, Alexander V.

Publication type:

Article

Integrated time course omics analysis distinguishes immediate therapeutic response from acquired resistance.

Published in:

Genome Medicine, 2018, v. 10, n. 1, p. N.PAG, doi. 10.1186/s13073-018-0545-2

By:

Stein-O'Brien, Genevieve;
Kagohara, Luciane T.;
Li, Sijia;
Thakar, Manjusha;
Ranaweera, Ruchira;
Ozawa, Hiroyuki;
Cheng, Haixia;
Considine, Michael;
Schmitz, Sandra;
Favorov, Alexander V.;
Danilova, Ludmila V.;
Califano, Joseph A.;
Izumchenko, Evgeny;
Gaykalova, Daria A.;
Chung, Christine H.;
Fertig, Elana J.

Publication type:

Article

Genetic risk factors of arterial hypertension: Analysis of ischemic stroke patients from the Yakut ethnic group.

Published in:

Doklady Biochemistry & Biophysics, 2006, v. 410, n. 1, p. 324, doi. 10.1134/S160767290605019X

By:

Sudomoina, M. A.;
Nikolaeva, T. Ya.;
Parfenov, M. G.;
Alekseenkov, A. D.;
Favorov, A. V.;
Gekht, A. B.;
Gusev, E. I.;
Favorova, O. O.

Publication type:

Article

CoGAPS: an R/C++ package to identify patterns and biological process activity in transcriptomic data.

Published in:

Bioinformatics, 2010, v. 26, n. 21, p. 2792, doi. 10.1093/bioinformatics/btq503

By:

Fertig, Elana J.;
Jie Ding;
Favorov, Alexander V.;
Parmigiani, Giovanni;
Ochs, Michael F.

Publication type:

Article

Deep and wide digging for binding motifs in ChIP-Seq data.

Published in:

Bioinformatics, 2010, v. 26, n. 20, p. 2622, doi. 10.1093/bioinformatics/btq488

By:

Kulakovskiy, I. V.;
Boeva, V. A.;
Favorov, A. V.;
Makeev, V. J.

Publication type:

Article

Motif discovery and motif finding from genome-mapped DNase footprint data.

Published in:

Bioinformatics, 2009, v. 25, n. 18, p. 2318, doi. 10.1093/bioinformatics/btp434

By:

Kulakovskiy, Ivan V.;
Favorov, Alexander V.;
Makeev, Vsevolod J.

Publication type:

Article

A Gibbs sampler for identification of symmetrically structured, spaced DNA motifs with improved estimation of the signal length.

Published in:

Bioinformatics, 2005, v. 21, n. 10, p. 2240, doi. 10.1093/bioinformatics/bti336

By:

A. V. Favorov;
M. S. Gelfand;
A. V. Gerasimova;
D. A. Ravcheev;
A. A. Mironov;
V. J. Makeev

Publication type:

Article

Association of Polymorphic Genome Variants in the 2q32.1 Locus with the Development of Vasovagal Syncope.

Published in:

Molecular Biology, 2023, v. 57, n. 5, p. 843, doi. 10.1134/S0026893323050126

By:

Matveeva, N. A.;
Titov, B. V.;
Bazyleva, E. A.;
Kuchinskaya, E. A.;
Kozin, M. S.;
Favorov, A. V.;
Pevzner, A. V.;
Favorova, O. O.

Publication type:

Article

Methodological Problems With Online Concussion Testing.

Published in:

Frontiers in Human Neuroscience, 2020, v. 14, p. N.PAG, doi. 10.3389/fnhum.2020.509091

By:

Holden, Jameson;
Francisco, Eric;
Tommerdahl, Anna;
Lensch, Rachel;
Kirsch, Bryan;
Zai, Laila;
Pearce, Alan J.;
Favorov, Oleg V.;
Dennis, Robert G.;
Tommerdahl, Mark

Publication type:

Article

StereoGene: rapid estimation of genome-wide correlation of continuous or interval feature data.

Published in:

Bioinformatics, 2017, v. 33, n. 20, p. 3158, doi. 10.1093/bioinformatics/btx379

By:

Stavrovskaya, Elena D.;
Niranjan, Tejasvi;
Fertig, Elana J.;
Wheelan, Sarah J.;
Favorov, Alexander V.;
Mironov, Andrey A.

Publication type:

Article

PatternMarkers & GWCoGAPS for novel data-driven biomarkers via whole transcriptome NMF.

Published in:

Bioinformatics, 2017, v. 33, n. 12, p. 1892, doi. 10.1093/bioinformatics/btx058

By:

Stein-O'Brien, Genevieve L.;
Carey, Jacob L.;
Wai Shing Lee;
Considine, Michael;
Favorov, Alexander V.;
Flam, Emily;
Guo, Theresa;
Sijia Li;
Marchionni, Luigi;
Sherman, Thomas;
Sivy, Shawn;
Gaykalova, Daria A.;
McKay, Ronald D.;
Ochs, Michael F.;
Colantuoni, Carlo;
Fertig, Elana J.

Publication type:

Article

Preserving biological heterogeneity with a permuted surrogate variable analysis for genomics batch correction.

Published in:

Bioinformatics, 2014, v. 30, n. 19, p. 2757, doi. 10.1093/bioinformatics/btu375

By:

Parker, Hilary S.;
Leek, Jeffrey T.;
Favorov, Alexander V.;
Considine, Michael;
Xia, Xiaoxin;
Chavan, Sameer;
Chung, Christine H.;
Fertig, Elana J.

Publication type:

Article

Matrix factorization and transfer learning uncover regulatory biology across multiple single-cell ATAC-seq data sets.

Published in:

Nucleic Acids Research, 2020, v. 48, n. 12, p. e68, doi. 10.1093/nar/gkaa349

By:

Erbe, Rossin;
Kessler, Michael D;
Favorov, Alexander V;
Easwaran, Hariharan;
Gaykalova, Daria A;
Fertig, Elana J

Publication type:

Article

CORECLUST: identification of the conserved CRM grammar together with prediction of gene regulation.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 13, p. e93, doi. 10.1093/nar/gks235

By:

Nikulova, Anna A.;
Favorov, Alexander V.;
Sutormin, Roman A.;
Makeev, Vsevolod J.;
Mironov, Andrey A.

Publication type:

Article

CORECLUST: identification of the conserved CRM grammar together with prediction of gene regulation.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 12, p. e93, doi. 10.1093/nar/gks235

By:

Nikulova, Anna A.;
Favorov, Alexander V.;
Sutormin, Roman A.;
Makeev, Vsevolod J.;
Mironov, Andrey A.

Publication type:

Article

Area 3a Neuron Response to Skin Nociceptor Afferent Drive.

Published in:

Cerebral Cortex, 2009, v. 19, n. 2, p. 349, doi. 10.1093/cercor/bhn086

By:

Whitsel, Barry L.;
Favorov, Oleg V.;
Li, Yongbiao;
Quibrera, Miguel;
Tommerdahl, Mark

Publication type:

Article

Minicolumnar Organization within Somatosensory Cortical Segregates: II. Emergent Functional Properties.

Published in:

Cerebral Cortex, 1994, v. 4, n. 4, p. 428

By:

Favorov, Oleg V.;
Kelly, Douglas G.

Publication type:

Article

Minicolumnar Organization within Somatosensory Cortical Segregates: I. Development of Afferent Connections.

Published in:

Cerebral Cortex, 1994, v. 4, n. 4, p. 408

By:

Favorov, Oleg V.;
Kelly, Douglas G.

Publication type:

Article

Percept of the duration of a vibrotactile stimulus is altered by changing its amplitude.

Published in:

Frontiers in Systems Neuroscience, 2015, v. 9, p. 1, doi. 10.3389/fnsys.2015.00077

By:

Francisco, Eric M.;
Holden, Jameson K.;
Nguyen, Richard H.;
Favorov, Oleg V.;
Tommerdahl, Mark

Publication type:

Article

Senescence and entrenchment in evolution of amino acid sites.

Published in:

Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-18366-z

By:

Stolyarova, A. V.;
Nabieva, E.;
Ptushenko, V. V.;
Favorov, A. V.;
Popova, A. V.;
Neverov, A. D.;
Bazykin, G. A.

Publication type:

Article

Variants of the Coagulation and Inflammation Genes Are Replicably Associated with Myocardial Infarction and Epistatically Interact in Russians.

Published in:

PLoS ONE, 2015, v. 10, n. 12, p. 1, doi. 10.1371/journal.pone.0144190

By:

Barsova, Rosa M.;
Lvovs, Dmitrijs;
Titov, Boris V.;
Matveeva, Natalia A.;
Shakhnovich, Roman M.;
Sukhinina, Tatiana S.;
Kukava, Nino G.;
Ruda, Mikhail Ya.;
Karamova, Irina M.;
Nasibullin, Timur R.;
Mustafina, Olga E.;
Osmak, German J.;
Tsareva, Ekaterina Yu.;
Kulakova, Olga G.;
Favorov, Alexander V.;
Favorova, Olga O.

Publication type:

Article

Hidden Markov Models for Evolution and Comparative Genomics Analysis.

Published in:

PLoS ONE, 2013, v. 8, n. 6, p. 1, doi. 10.1371/journal.pone.0065012

By:

Bykova, Nadezda A.;
Favorov, Alexander V.;
Mironov, Andrey A.

Publication type:

Article

Base-Calling Algorithm with Vocabulary (BCV) Method for Analyzing Population Sequencing Chromatograms.

Published in:

PLoS ONE, 2013, v. 8, n. 1, p. 1, doi. 10.1371/journal.pone.0054835

By:

Fantin, Yuri S.;
Neverov, Alexey D.;
Favorov, Alexander V.;
Alvarez-Figueroa, Maria V.;
Braslavskaya, Svetlana I.;
Gordukova, Maria A.;
Karandashova, Inga V.;
Kuleshov, Konstantin V.;
Myznikova, Anna I.;
Polishchuk, Maya S.;
Reshetov, Denis A.;
Voiciehovskaya, Yana A.;
Mironov, Andrei A.;
Chulanov, Vladimir P.

Publication type:

Article

Complex analysis of association of inflammation gene polymorphisms with myocardial infarction.

Published in:

Molecular Biology, 2010, v. 44, n. 3, p. 407, doi. 10.1134/S0026893310030088

By:

Sudomoina, M. A.;
Sukhinina, T. S.;
Barsova, R. M.;
Favorov, A. V.;
Sakhnovich, R. M.;
Titov, B. V.;
Matveeva, N. A.;
Rybalkin, I. N.;
Vlasik, T. N.;
Ochs, M. F.;
Ruda, M. Ya.;
Favorova, O. O.

Publication type:

Article

Genetic susceptibility to ischemic stroke in Russians.

Published in:

Molecular Biology, 2009, v. 43, n. 5, p. 873, doi. 10.1134/S0026893309050185

By:

Parfenov, M. G.;
Titov, B. V.;
Sudomoina, M.;
Martynov, M. Yu.;
Favorov, A. V.;
Ochs, M. F.;
Gusev, E. I.;
Favorova, O. O.

Publication type:

Article

Comparative genetic analysis of different forms of low-renin arterial hypertension.

Published in:

Molecular Biology, 2008, v. 42, n. 4, p. 521, doi. 10.1134/S0026893308040067

By:

Chikhladze, N. M.;
Samedova, Kh. F.;
Sudomoina, M. A.;
Ko Min;
Koliadina, Ju. A.;
Litonova, G. N.;
Favorov, A. V.;
Chazova, I. E.;
Favorova, O. O.

Publication type:

Article

SINBAD: A neocortical mechanism for discovering environmental variables and regularities hidden in sensory input.

Published in:

Biological Cybernetics, 2004, v. 90, n. 3, p. 191, doi. 10.1007/s00422-004-0464-8

By:

Favorov, Oleg V.;
Ryder, Dan

Publication type:

Article

FEATURE SELECTION AND EXTRACTION USING AN UNSUPERVISED BIOLOGICALLY-SUGGESTED APPROXIMATION TO GEBELEIN'S MAXIMAL CORRELATION.

Published in:

International Journal of Pattern Recognition & Artificial Intelligence, 2010, v. 24, n. 3, p. 337, doi. 10.1142/S0218001410008007

By:

KURSUN, OLCAY;
FAVOROV, OLEG V.

Publication type:

Article

Demonstration of discrete place-defined columns-segregates-in the cat SI.

Published in:

Journal of Comparative Neurology, 1990, v. 298, n. 1, p. 97, doi. 10.1002/cne.902980108

By:

Favorov, Oleg V.;
Diamond, Mathew E.

Publication type:

Article

Assessing computational tools for the discovery of transcription factor binding sites.

Published in:

Nature Biotechnology, 2005, v. 23, n. 1, p. 137, doi. 10.1038/nbt1053

By:

Tompa, Martin;
Li, Nan;
Bailey, Timothy L.;
Church, George M.;
De Moor, Bart;
Eskin, Eleazar;
Favorov, Alexander V.;
Frith, Martin C.;
Fu, Yutao;
Kent, W. James;
Makeev, Vsevolod J.;
Mironov, Andrei A.;
Noble, William Stafford;
Pavesi, Giulio;
Pesole, Graziano;
Régnier, Mireille;
Simonis, Nicolas;
Sinha, Saurabh;
Thijs, Gert;
van Helden, Jacques

Publication type:

Article

Quantification of Mild Traumatic Brain Injury via Cortical Metrics: Analytical Methods.

Published in:

Military Medicine, 2019, v. 184, p. 228, doi. 10.1093/milmed/usy411

By:

Favorov, Oleg V;
Francisco, Eric;
Holden, Jameson;
Kursun, Olcay;
Zai, Laila;
Tommerdahl, Mark

Publication type:

Article