Publications
in 2011
(** RECESS member)
Chursov**A., Walter M.C., Schmidt T., Mironov**A.A., Shneider A., Frishman**D., 2011
Sequence-structure relationships in yeast mRNAs
Nucleic Acids Research 2011; doi: 10.1093/nar/gkr790
Федонин* Г., Рахманинова A.Б., Коростелев*Ю., Лайкова О., Гельфанд**M.C., 2011
Изучение связывания ДНК факторами транскрипции LacI семейства методами машинного обучения.
Молекулярная биология, 45: 724-739
Geistlinger**L., Csaba G., Kueffner R., Mulder N., Zimmer**R., 2011
From sets to graphs: towards a realistic enrichment analysis of transcriptomic systems.
Bioinformatics 27 (13): i366 - 73
Gerasimova A., Kazakov AE, Arkin A, Dubchak I, Gelfand MS**, 2011
Comparative genomics of the dormancy regulon in Mycobacteria.
J.
Bacteriology 193: 3446 - 3452
Khrameeva*E.E., Mironov** A.A., Gelfand**M.S., 2011
The impact of interchromosomal associations on the functional state of the human genome.
J.Biomol.Struct.Dynam. 28: 112
Kueffner R., Petri T., Tavakkolkhah**P., Windhager L., Zimmer**R.
Inferring Gene Regulatory Networks by ANOVA.
submitted to Bioinformatics
Kuravsky**K.L., Aleshin**V.V., Frishman**D., Muronetz**V.I., 2011
Testis-specific glyceraldehyde-3-phsophate dehydrogenase: origin and evolution.
BMC Evolutionary Biology 11:160
Kurmangaliyev* Y.Z., Goland S. and Gelfand**M.S., 2011.
Evolutionary patterns of phosphorylated serines.
Biology Direct 6: 8
Müller L., Hutter S., Stamboliyska** R., Saminadin-Peter S.S., Stephan W., and Parsch**J., 2011
Population transcriptomics of Drosophila melanogaster females.
BMC Genomics 12: 81
Naeem**H., Zimmer**R., Tavakkolkhah**P., Küffner R.
Rigorous assessment of gene set enrichment tests.
submitted to Bioinformatics
Naletova I.N., Popva K.M., Eldarov M.A., Kuravsky**M.L., Schmalhausen E.V., Sevostyanova I.A., Muronetz**V.I., 2011
Chaperonin TRiC assists the refolding of sperm-specific glyceraldehyde-3-phosphate dehydrogenase.
Arch. Biochem. Biophys. 516: 75 - 83
Pervouchine D.D., Khrameeva*E.E., Pichugina M.Yu., Nikolaenko O.V., Gelfand**M.S., Rubtsov P.M., Mironov** A.A., 2011
Evidence for widespread association of mammalian splicing and conserved long-renge RNA structures.
RNA (in press)
Stamboliyska**R., and Parsch** J., 2011
Dissecting gene expression in mosquito.
BMC Genomics 12: 297.
Suhre**K., Shin S.Y., Petersen A.K., Mohney R.P., Meredith D., Wägele B., Altmaier E., CARDIoGRAM, Deloukas P. Erdmann J., Grundberg E., Hammond C.J., deAngelis M.H., Kastenmüller G., Köttgen A., Kronenberg F., Mangino M., Meisinger C., Meitinger T., Mewes*H.W., Milburn M.V., Raffler**J., Ried J.S., Römisch-Margl W., Samani N.J., Small K.S. Wichmann H.E., Zhai G., Illig T., Spector T.D., Adamski J., Soranzo N., Gieger C., 2011
Human metabolic individuality in biomedical and pharmaceutical research.
Nature 477 (7362): 54 - 60
Suhre**K., Wallaschifski H., Raffler**J., Friedrich N., Haring R., Michael K., Wasner C., Krebs A., Kronenberg F., Chang D., Meisinger C., Wichmann H.E., Hoffmann W., Völzke H., Völker U., Teumer A., Biffar R., Kocher T., Felix S.B., Illig T., Kroemer H.K., Gieger C., Römisch-Margl W., Nauck M., 2011
A genome-wide association study of metabolic traits in human urine.
Nature Genetics 43: 565 - 569
Suvorova**I., Tutukina M.N., Ravcheev D.A., Rodinov D.A., Ozoline O.N., Gelfand**M.S., 2011
Comparative genomic analysis of the hexuronate metabolism genes and their regulation in gamma-proteobacteria.
J. Bacteriology 193: 3956 - 3963
Жаров*И.А., Гельфанд**М.С., Казаков А.Е., 2011
Регуляция генов множественной лекарственной устойчивости транскрипционными факторами подсемейства BltR.
Молекулярная биология, 45: 715-723
Виноградов Д.В., Цой**О.В., Заика А.В., Лобанов А.В., Туранов**А.А., Гладышев В.Н., Гельфанд**М.C., 2011
Предварительная
версия генома макронуклеуса инфузории Euplotes crassus.
Молекулярная биология (в печати/ in press)
Publications in 2010
Fedonin*G.G., Gelfand**M.S., 2010
Machine Learning
Study of DNA Binding by Transcription Factors from the LacI family. .
Lecture Notes in Computer Science / Lecture Notes in Bioinformatics 6282: 15-26
Mazin*P.V., Gelfand**M.S., Mironov**A.A., Rakhmaninova A.B., Rubinov A.R., Russell R.B., Kalinina O.V., 2010
An automated
stochastic approach to the identification of the protein specificity. .
Algorithms for Molecular Biology. 5: 29
Medvedeva J.A., Fridman M.V., Oparina N.Ju., Malko D.B., Ermakova**E.O., Kulakovsky I.V., Heinzel A., V.J.Makeev , 2010
Intergenic,
gene terminal, and intragenic CpG islands in the human genome. .
BMC Genomics 11: 48
Novichkov P.S., Rodionov D.A., Stavrovskaya**E.D., Novichkova E.S., Kazakov A.E., Gelfand**M.S., Arkin A.P., Mironov**A.A., Dubchak I., 2010
RegPredict: an integrated system for regulon inference in prokaryotes by comparative genomics approach.
Nucleic Acids Res. 38: W299-307
Novichkov P.S., Laikova O.N., Novichkova E.S., Gelfand M.S.**, Arkin A.P., Dubchak I., Rodionov D.A., 2010
RegPrecise: a database of curated
genomic inferences of transcriptional regulatory interactions in prokaryotes.
.
Nucleic Acids Res. 38: D111-D118
