Ruslan I. Sadreyev - Publications

Affiliations: 
University of Texas, Austin, Texas 
Area:
bioinformatics

49 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Sykes DB, Kfoury YS, Mercier FE, Wawer MJ, Law JM, Haynes MK, Lewis TA, Schajnovitz A, Jain E, Lee D, Meyer H, Pierce KA, Tolliday NJ, Waller A, Ferrara SJ, ... ... Sadreyev RI, et al. Inhibition of Dihydroorotate Dehydrogenase Overcomes Differentiation Blockade in Acute Myeloid Leukemia. Cell. PMID 27641501 DOI: 10.1016/j.cell.2016.08.057  0.52
2016 Deaton AM, Gómez-Rodríguez M, Mieczkowski J, Tolstorukov MY, Kundu S, Sadreyev RI, Jansen LE, Kingston RE. Enhancer regions show high histone H3.3 turnover that changes during differentiation. Elife. 5. PMID 27304074 DOI: 10.7554/eLife.15316  0.52
2016 Kugel S, Sebastián C, Fitamant J, Ross KN, Saha SK, Jain E, Gladden A, Arora KS, Kato Y, Rivera MN, Ramaswamy S, Sadreyev RI, Goren A, Deshpande V, Bardeesy N, et al. SIRT6 Suppresses Pancreatic Cancer through Control of Lin28b. Cell. PMID 27180906 DOI: 10.1016/j.cell.2016.04.033  0.52
2016 Moore FE, Garcia EG, Lobbardi R, Jain E, Tang Q, Moore JC, Cortes M, Molodtsov A, Kasheta M, Luo CC, Garcia AJ, Mylvaganam R, Yoder JA, Blackburn JS, Sadreyev RI, et al. Single-cell transcriptional analysis of normal, aberrant, and malignant hematopoiesis in zebrafish. The Journal of Experimental Medicine. PMID 27139488 DOI: 10.1084/jem.20152013  0.52
2016 Bukhari SI, Truesdell SS, Lee S, Kollu S, Classon A, Boukhali M, Jain E, Mortensen RD, Yanagiya A, Sadreyev RI, Haas W, Vasudevan S. A Specialized Mechanism of Translation Mediated by FXR1a-Associated MicroRNP in Cellular Quiescence. Molecular Cell. 61: 760-773. PMID 26942679 DOI: 10.1016/j.molcel.2016.02.013  0.52
2016 Nishikawa JL, Boeszoermenyi A, Vale-Silva LA, Torelli R, Posteraro B, Sohn YJ, Ji F, Gelev V, Sanglard D, Sanguinetti M, Sadreyev RI, Mukherjee G, Bhyravabhotla J, Buhrlage SJ, Gray NS, et al. Inhibiting fungal multidrug resistance by disrupting an activator-Mediator interaction. Nature. PMID 26886795 DOI: 10.1038/nature16963  0.52
2016 Hata AN, Niederst MJ, Archibald HL, Gomez-Caraballo M, Siddiqui FM, Mulvey HE, Maruvka YE, Ji F, Bhang HC, Krishnamurthy Radhakrishna V, Siravegna G, Hu H, Raoof S, Lockerman E, Kalsy A, ... ... Sadreyev RI, et al. Tumor cells can follow distinct evolutionary paths to become resistant to epidermal growth factor receptor inhibition. Nature Medicine. PMID 26828195 DOI: 10.1038/nm.4040  0.52
2016 Wani AH, Boettiger AN, Schorderet P, Ergun A, Münger C, Sadreyev RI, Zhuang X, Kingston RE, Francis NJ. Chromatin topology is coupled to Polycomb group protein subnuclear organization. Nature Communications. 7: 10291. PMID 26759081 DOI: 10.1038/ncomms10291  0.52
2015 Varmeh S, Borre PV, Gunda V, Brauner E, Holm T, Wang Y, Sadreyev RI, Parangi S. Genome-wide analysis of differentially expressed miRNA in PLX4720-resistant and parental human thyroid cancer cell lines. Surgery. PMID 26456124 DOI: 10.1016/j.surg.2015.06.046  0.52
2015 Tong J, Sadreyev RI, Pei J, Kinch LN, Grishin NV. Using homology relations within a database markedly boosts protein sequence similarity search. Proceedings of the National Academy of Sciences of the United States of America. 112: 7003-8. PMID 26038555 DOI: 10.1073/pnas.1424324112  0.52
2015 Pinter SF, Colognori D, Beliveau BJ, Sadreyev RI, Payer B, Yildirim E, Wu CT, Lee JT. Allelic Imbalance Is a Prevalent and Tissue-Specific Feature of the Mouse Transcriptome. Genetics. 200: 537-49. PMID 25858912 DOI: 10.1534/genetics.115.176263  0.52
2015 Sarma K, Cifuentes-Rojas C, Ergun A, Del Rosario A, Jeon Y, White F, Sadreyev R, Lee JT. ATRX directs binding of PRC2 to Xist RNA and polycomb targets Cell. 160: 568-569. DOI: 10.1016/j.cell.2015.01.030  0.52
2014 Sarma K, Cifuentes-Rojas C, Ergun A, Del Rosario A, Jeon Y, White F, Sadreyev R, Lee JT. ATRX directs binding of PRC2 to Xist RNA and Polycomb targets. Cell. 159: 869-83. PMID 25417162 DOI: 10.1016/j.cell.2014.10.019  0.52
2014 Bowman SK, Deaton AM, Domingues H, Wang PI, Sadreyev RI, Kingston RE, Bender W. H3K27 modifications define segmental regulatory domains in the Drosophila bithorax complex. Elife. 3: e02833. PMID 25082344 DOI: 10.7554/eLife.02833  0.52
2014 Broering TJ, Alavattam KG, Sadreyev RI, Ichijima Y, Kato Y, Hasegawa K, Camerini-Otero RD, Lee JT, Andreassen PR, Namekawa SH. BRCA1 establishes DNA damage signaling and pericentric heterochromatin of the X chromosome in male meiosis. The Journal of Cell Biology. 205: 663-75. PMID 24914237 DOI: 10.1083/jcb.201311050  0.52
2013 Sadreyev RI, Yildirim E, Pinter SF, Lee JT. Bimodal quantitative relationships between histone modifications for X-linked and autosomal loci. Proceedings of the National Academy of Sciences of the United States of America. 110: 6949-54. PMID 23564346 DOI: 10.1073/pnas.1216449110  0.52
2013 Yildirim E, Kirby JE, Brown DE, Mercier FE, Sadreyev RI, Scadden DT, Lee JT. Xist RNA is a potent suppressor of hematologic cancer in mice. Cell. 152: 727-42. PMID 23415223 DOI: 10.1016/j.cell.2013.01.034  0.52
2012 Pinter SF, Sadreyev RI, Yildirim E, Jeon Y, Ohsumi TK, Borowsky M, Lee JT. Spreading of X chromosome inactivation via a hierarchy of defined Polycomb stations. Genome Research. 22: 1864-76. PMID 22948768 DOI: 10.1101/gr.133751.111  0.52
2012 Anguera MC, Sadreyev R, Zhang Z, Szanto A, Payer B, Sheridan SD, Kwok S, Haggarty SJ, Sur M, Alvarez J, Gimelbrant A, Mitalipova M, Kirby JE, Lee JT. Molecular signatures of human induced pluripotent stem cells highlight sex differences and cancer genes. Cell Stem Cell. 11: 75-90. PMID 22770242 DOI: 10.1016/j.stem.2012.03.008  0.52
2012 Yildirim E, Sadreyev RI, Pinter SF, Lee JT. X-chromosome hyperactivation in mammals via nonlinear relationships between chromatin states and transcription. Nature Structural & Molecular Biology. 19: 56-61. PMID 22139016 DOI: 10.1038/nsmb.2195  0.52
2011 Spencer RJ, del Rosario BC, Pinter SF, Lessing D, Sadreyev RI, Lee JT. A boundary element between Tsix and Xist binds the chromatin insulator Ctcf and contributes to initiation of X-chromosome inactivation. Genetics. 189: 441-54. PMID 21840866 DOI: 10.1534/genetics.111.132662  0.52
2010 Sun S, Fukue Y, Nolen L, Sadreyev R, Lee JT. Characterization of Xpr (Xpct) reveals instability but no effects on X-chromosome pairing or Xist expression. Transcription. 1: 46-56. PMID 21327163 DOI: 10.4161/trns.1.1.12401  0.52
2009 Shi S, Pei J, Sadreyev RI, Kinch LN, Majumdar I, Tong J, Cheng H, Kim BH, Grishin NV. Analysis of CASP8 targets, predictions and assessment methods. Database : the Journal of Biological Databases and Curation. 2009: bap003. PMID 20157476 DOI: 10.1093/database/bap003  0.52
2009 Sadreyev RI, Wang Y, Grishin NV. Considering scores between unrelated proteins in the search database improves profile comparison. Bmc Bioinformatics. 10: 399. PMID 19961610 DOI: 10.1186/1471-2105-10-399  0.52
2009 Sadreyev RI, Feramisco JD, Tsao H, Grishin NV. Phenotypic categorization of genetic skin diseases reveals new relations between phenotypes, genes and pathways. Bioinformatics (Oxford, England). 25: 2891-6. PMID 19744994 DOI: 10.1093/bioinformatics/btp538  0.52
2009 Raman S, Vernon R, Thompson J, Tyka M, Sadreyev R, Pei J, Kim D, Kellogg E, DiMaio F, Lange O, Kinch L, Sheffler W, Kim BH, Das R, Grishin NV, et al. Structure prediction for CASP8 with all-atom refinement using Rosetta. Proteins. 77: 89-99. PMID 19701941 DOI: 10.1002/prot.22540  0.52
2009 Feramisco JD, Sadreyev RI, Murray ML, Grishin NV, Tsao H. Phenotypic and genotypic analyses of genetic skin disease through the Online Mendelian Inheritance in Man (OMIM) database. The Journal of Investigative Dermatology. 129: 2628-36. PMID 19536140 DOI: 10.1038/jid.2009.108  0.52
2009 Wang Y, Sadreyev RI, Grishin NV. PROCAIN server for remote protein sequence similarity search. Bioinformatics (Oxford, England). 25: 2076-7. PMID 19497935 DOI: 10.1093/bioinformatics/btp346  0.52
2009 Sadreyev RI, Kim BH, Grishin NV. Discrete-continuous duality of protein structure space. Current Opinion in Structural Biology. 19: 321-8. PMID 19482467 DOI: 10.1016/j.sbi.2009.04.009  0.52
2009 Sadreyev RI, Tang M, Kim BH, Grishin NV. COMPASS server for homology detection: improved statistical accuracy, speed and functionality. Nucleic Acids Research. 37: W90-4. PMID 19435884 DOI: 10.1093/nar/gkp360  0.52
2009 Wang Y, Sadreyev RI, Grishin NV. PROCAIN: protein profile comparison with assisting information. Nucleic Acids Research. 37: 3522-30. PMID 19357092 DOI: 10.1093/nar/gkp212  0.52
2009 Sadreyev RI, Shi S, Baker D, Grishin NV. Structure similarity measure with penalty for close non-equivalent residues. Bioinformatics (Oxford, England). 25: 1259-63. PMID 19321733 DOI: 10.1093/bioinformatics/btp148  0.52
2008 Sadreyev RI, Grishin NV. Accurate statistical model of comparison between multiple sequence alignments. Nucleic Acids Research. 36: 2240-8. PMID 18285364 DOI: 10.1093/nar/gkn065  0.52
2007 Qi Y, Sadreyev RI, Wang Y, Kim BH, Grishin NV. A comprehensive system for evaluation of remote sequence similarity detection. Bmc Bioinformatics. 8: 314. PMID 17725841 DOI: 10.1186/1471-2105-8-314  0.52
2007 Sadreyev RI, Tang M, Kim BH, Grishin NV. COMPASS server for remote homology inference. Nucleic Acids Research. 35: W653-8. PMID 17517780 DOI: 10.1093/nar/gkm293  0.52
2006 Krishna SS, Sadreyev RI, Grishin NV. A tale of two ferredoxins: sequence similarity and structural differences. Bmc Structural Biology. 6: 8. PMID 16603087 DOI: 10.1186/1472-6807-6-8  0.52
2006 Sadreyev RI, Grishin NV. Exploring dynamics of protein structure determination and homology-based prediction to estimate the number of superfamilies and folds. Bmc Structural Biology. 6: 6. PMID 16549009 DOI: 10.1186/1472-6807-6-6  0.52
2005 Kim BH, Sadreyev R, Grishin NV. COG4849 is a novel family of nucleotidyltransferases Journal of Molecular Recognition. 18: 422-425. PMID 15983981 DOI: 10.1002/jmr.746  0.52
2004 Sadreyev RI, Grishin NV. Estimates of statistical significance for comparison of individual positions in multiple sequence alignments. Bmc Bioinformatics. 5: 106. PMID 15296518 DOI: 10.1186/1471-2105-5-106  0.52
2004 Sadreyev RI, Grishin NV. Quality of alignment comparison by COMPASS improves with inclusion of diverse confident homologs. Bioinformatics (Oxford, England). 20: 818-28. PMID 14751996 DOI: 10.1093/bioinformatics/btg485  0.52
2003 Kinch LN, Wrabl JO, Krishna SS, Majumdar I, Sadreyev RI, Qi Y, Pei J, Cheng H, Grishin NV. CASP5 assessment of fold recognition target predictions. Proteins. 53: 395-409. PMID 14579328 DOI: 10.1002/prot.10557  0.52
2003 Sadreyev RI, Baker D, Grishin NV. Profile-profile comparisons by COMPASS predict intricate homologies between protein families. Protein Science : a Publication of the Protein Society. 12: 2262-72. PMID 14500884 DOI: 10.1110/ps.03197403  0.52
2003 Mittelman D, Sadreyev R, Grishin N. Probabilistic scoring measures for profile-profile comparison yield more accurate short seed alignments Bioinformatics. 19: 1531-1539. PMID 12912834 DOI: 10.1093/bioinformatics/btg185  0.52
2003 Pei J, Sadreyev R, Grishin NV. PCMA: Fast and accurate multiple sequence alignment based on profile consistency Bioinformatics. 19: 427-428. PMID 12584134 DOI: 10.1093/bioinformatics/btg008  0.52
2003 Sadreyev R, Grishin N. COMPASS: A tool for comparison of multiple protein alignments with assessment of statistical significance Journal of Molecular Biology. 326: 317-336. PMID 12547212 DOI: 10.1016/S0022-2836(02)01371-2  0.52
2002 Sadreyev RI, Panchin YV. Effects of glutamate agonists on the isolated neurons from the locomotor network of the mollusc Clione limacina. Neuroreport. 13: 2235-9. PMID 12488803 DOI: 10.1097/01.wnr.000044214.09266.f6  0.52
2000 Sadreyev RI, Panchin YV. The role of putative glutamatergic neurons and their connections in the locomotor central pattern generator of the mollusk, Clione limacina. Comparative Biochemistry and Physiology. Part a, Molecular & Integrative Physiology. 126: 193-202. PMID 10936759 DOI: 10.1016/S1095-6433(00)00186-0  0.52
1998 Arshavsky YI, Deliagina TG, Orlovsky GN, Panchin YV, Popova LB, Sadreyev RI. Analysis of the central pattern generator for swimming in the mollusk Clione. Annals of the New York Academy of Sciences. 860: 51-69. PMID 9928301 DOI: 10.1111/j.1749-6632.1998.tb09038.x  0.52
1997 Panchin YV, Sadreyev RI. Effects of acetylcholine and glutamate on isolated neurons of locomotory network of Clione. Neuroreport. 8: 2897-901. PMID 9376527  0.52
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