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Stefan Bekiranov

Research Profile

Devices

Oligonucleotide Array Sequence Analysis

Anatomy

Procedures

Physiology

Chemicals & Drugs

Living Beings

Genes & Molecular Sequences

Genome, Human

Occupations

Computational Biology

Co-author Network

Publications

TOP 3
J T Wolstenholme; Emilie F Rissman; Stefan Bekiranov
Sexual differentiation in the developing mouse brain: contributions of sex chromosome genes.
Shaun D McCullough; Robert G Roeder; Xiaojiang Xu; Stefan Bekiranov; Sharon Y R Dent; Patrick A Grant
Reelin is a target of polyglutamine expanded ataxin-7 in human spinocerebellar ataxia type 7 (SCA7) astrocytes.
Daniel Gioeli; Emanuel F Petricoin; Judith Sebolt-Leopold; Stefan Bekiranov; Mark Conaway; Julia D Wulfkuhle; Winfried Wunderlich; Michael J Weber
Compensatory pathways induced by MEK inhibition are effective drug targets for combination therapy against castration-resistant prostate cancer.

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All Publications

2013: J T Wolstenholme; Emilie F Rissman; Stefan Bekiranov
Sexual differentiation in the developing mouse brain: contributions of sex chromosome genes.
Genes, brain, and behavior 2013;12(2):166-80.
2012: Shaun D McCullough; Robert G Roeder; Xiaojiang Xu; Stefan Bekiranov; Sharon Y R Dent; Patrick A Grant
Reelin is a target of polyglutamine expanded ataxin-7 in human spinocerebellar ataxia type 7 (SCA7) astrocytes.
Proceedings of the National Academy of Sciences of the United States of America 2012;109(52):21319-24.
2011: Daniel Gioeli; Emanuel F Petricoin; Judith Sebolt-Leopold; Stefan Bekiranov; Mark Conaway; Julia D Wulfkuhle; Winfried Wunderlich; Michael J Weber
Compensatory pathways induced by MEK inhibition are effective drug targets for combination therapy against castration-resistant prostate cancer.
Molecular cancer therapeutics 2011;10(9):1581-90.
2011: Edel M Hyland; Chunfa Jie; Henrik Molina; Akhilesh Pandey; Kunal Poorey; Jiang Qian; Zhi Xie; David T Auble; Stefan Bekiranov; Junbiao Dai; Jef Boeke
An evolutionarily 'young' lysine residue in histone H3 attenuates transcriptional output in Saccharomyces cerevisiae.
Genes & development 2011;25(12):1306-19.
2011: Larry D Mesner; Veena Valsakumar; Neerja Karnani; Anindya Dutta; Joyce L Hamlin; Stefan Bekiranov
Bubble-chip analysis of human origin distributions demonstrates on a genomic scale significant clustering into zones and significant association with transcription.
Genome research 2011;21(3):377-89.
2011: Danielle S Stolzenberg; Patrick A Grant; Stefan Bekiranov
Epigenetic methodologies for behavioral scientists.
Hormones and behavior 2011;59(3):407-16.
2011: Stephen A Hoang; Xiaojiang Xu; Stefan Bekiranov
Quantification of histone modification ChIP-seq enrichment for data mining and machine learning applications.
BMC research notes 2011;4():288.
2011: Steven C Smith; Dmytro M Havaleshko; Kihyuck Moon; Alexander S Baras; Jae Lee; Stefan Bekiranov; Daniel J Burke; Dan Theodorescu
Use of yeast chemigenomics and COXEN informatics in preclinical evaluation of anticancer agents.
Neoplasia (New York, N.Y.) 2011;13(1):72-80.
2010: Kunal Poorey; Rebekka O Sprouse; Melissa N Wells; Ramya Viswanathan; Stefan Bekiranov; David T Auble
RNA synthesis precision is regulated by preinitiation complex turnover.
Genome research 2010;20(12):1679-88.
2010: Jin Ho Park; Paul J Bonthius; Houng-Wei Tsai; Stefan Bekiranov; Emilie F Rissman
Amyloid beta precursor protein regulates male sexual behavior.
The Journal of neuroscience : the official journal of the Society for Neuroscience 2010;30(30):9967-72.
2010: Mingguang Li; Brian J Petteys; Julie M McClure; Veena Valsakumar; Stefan Bekiranov; Elizabeth L Frank; Jeffrey S Smith
Thiamine biosynthesis in Saccharomyces cerevisiae is regulated by the NAD+-dependent histone deacetylase Hst1.
Molecular and cellular biology 2010;30(13):3329-41.
2010: Peter J Amos; Sahil K Kapur; Peter C Stapor; Hulan Shang; Stefan Bekiranov; Moshe Khurgel; George T Rodeheaver; Shayn M Peirce; Adam J Katz
Human adipose-derived stromal cells accelerate diabetic wound healing: impact of cell formulation and delivery.
Tissue engineering. Part A 2010;16(5):1595-606.
2010: Mirela Matecic; Daniel L Smith; Xuewen Pan; Nazif Maqani; Stefan Bekiranov; Jef Boeke; Jeffrey S Smith
A microarray-based genetic screen for yeast chronological aging factors.
PLoS genetics 2010;6(4):e1000921.
2010: Xiaojiang Xu; Stephen Hoang; Marty W Mayo; Stefan Bekiranov
Application of machine learning methods to histone methylation ChIP-Seq data reveals H4R3me2 globally represses gene expression.
BMC bioinformatics 2010;11():396.
2009: Staton L Wade; Kunal Poorey; Stefan Bekiranov; David T Auble
The Snf1 kinase and proteasome-associated Rad23 regulate UV-responsive gene expression.
The EMBO journal 2009;28(19):2919-31.
2009: Yoshiyuki Shibata; Ankit Malhotra; Stefan Bekiranov; Anindya Dutta
Yeast genome analysis identifies chromosomal translocation, gene conversion events and several sites of Ty element insertion.
Nucleic acids research 2009;37(19):6454-65.
2009: Youngchul Kim; Stefan Bekiranov; Jae K Lee; Taesung Park
Double error shrinkage method for identifying protein binding sites observed by tiling arrays with limited replication.
Bioinformatics (Oxford, England) 2009;25(19):2486-91.
2007: Sarah E Aiyar; Ashley L Blair; D A Hopkinson; Stefan Bekiranov; Rong Li
Regulation of clustered gene expression by cofactor of BRCA1 (COBRA1) in breast cancer cells.
Oncogene 2007;26(18):2543-53.
2007: Taesung Park; Youngchul Kim; Stefan Bekiranov; Jae K Lee
Error-pooling-based statistical methods for identifying novel temporal replication profiles of human chromosomes observed by DNA tiling arrays.
Nucleic acids research 2007;35(9):e69.
2006: Jason S Carroll; Clifford A Meyer; Jun Song; Wei Li; Timothy Geistlinger; Jérôme Eeckhoute; Alexander S Brodsky; Erika Krasnickas Keeton; Kirsten C Fertuck; Giles F Hall; Qianben Wang; Stefan Bekiranov; Victor Sementchenko; Edward A Fox; Pamela A Silver; Thomas Gingeras; Xiaole (Shirley) Liu; Myles Brown
Genome-wide analysis of estrogen receptor binding sites.
Nature genetics 2006;38(11):1289-97.
2005: Jill Cheng; Philipp Kapranov; Jorg Drenkow; Sujit Dike; Shane Brubaker; Sandeep Patel; Jeffrey Long; David Stern; Hari Tammana; Gregg Helt; Victor Sementchenko; Antonio Piccolboni; Stefan Bekiranov; Dione K Bailey; Madhavan Ganesh; Srinka Ghosh; Ian Bell; Daniela S Gerhard; Thomas Gingeras
Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution.
Science (New York, N.Y.) 2005;308(5725):1149-54.
2005: Yesu Jeon; Stefan Bekiranov; Neerja Karnani; Philipp Kapranov; Srinka Ghosh; David MacAlpine; Charles Lee; Deog Su Hwang; Thomas Gingeras; Anindya Dutta
Temporal profile of replication of human chromosomes.
Proceedings of the National Academy of Sciences of the United States of America 2005;102(18):6419-24.
2005: Bradley E Bernstein; Michael Kamal; Kerstin Lindblad-Toh; Stefan Bekiranov; Dione K Bailey; Dana J Huebert; Scott McMahon; Elinor K. Karlsson; Edward J Kulbokas; Thomas Gingeras; Stuart L Schreiber; Eric S Lander
Genomic maps and comparative analysis of histone modifications in human and mouse.
Cell 2005;120(2):169-81.
2004: Dione Kampa; Jill Cheng; Philipp Kapranov; Mark Yamanaka; Shane Brubaker; Simon Cawley; Jorg Drenkow; Antonio Piccolboni; Stefan Bekiranov; Gregg Helt; Hari Tammana; Thomas Gingeras
Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22.
Genome research 2004;14(3):331-42.
2004: Simon Cawley; Stefan Bekiranov; Huck-Hui Ng; Philipp Kapranov; Edward A Sekinger; Dione Kampa; Antonio Piccolboni; Victor Sementchenko; Jill Cheng; Alan J Williams; Raymond Wheeler; Brant Wong; Jorg Drenkow; Mark Yamanaka; Sandeep Patel; Shane Brubaker; Hari Tammana; Gregg Helt; Kevin Struhl; Thomas Gingeras
Unbiased mapping of transcription factor binding sites along human chromosomes 21 and 22 points to widespread regulation of noncoding RNAs.
Cell 2004;116(4):499-509.
2003: Rui Mei; Earl Hubbell; Stefan Bekiranov; Mike Mittmann; Fred C Christians; Mei-Mei Shen; Gang Lu; Joy Fang; Wei-Min Liu; Thomas B Ryder; Paul Kaplan; David Kulp; Teresa A Webster
Probe selection for high-density oligonucleotide arrays.
Proceedings of the National Academy of Sciences of the United States of America 2003;100(20):11237-42.
2002: Philipp Kapranov; Simon Cawley; Jorg Drenkow; Stefan Bekiranov; Robert L Strausberg; Stephen P A Fodor; Thomas Gingeras
Large-scale transcriptional activity in chromosomes 21 and 22.
Science (New York, N.Y.) 2002;296(5569):916-9.
2001: Sabine Ehrt; Dirk Schnappinger; Stefan Bekiranov; Jorg Drenkow; S Shi; Thomas Gingeras; Terry Gaasterland; Gary K Schoolnik; Carl Nathan
Reprogramming of the macrophage transcriptome in response to interferon-gamma and Mycobacterium tuberculosis: signaling roles of nitric oxide synthase-2 and phagocyte oxidase.
The Journal of experimental medicine 2001;194(8):1123-40.
2001: Curtis R Altmann; Esther Bell; Alexander Sczyrba; J Pun; Stefan Bekiranov; Terry Gaasterland; Ali H Brivanlou
Microarray-based analysis of early development in Xenopus laevis.
Developmental biology 2001;236(1):64-75.
2001: Shuba Gopal; M Schroeder; Ursula Pieper; Alexander Sczyrba; G Aytekin-Kurban; Stefan Bekiranov; Jorge Fajardo; Narayanan Eswar; R Sanchez; Andrej Sali; Terry Gaasterland
Homology-based annotation yields 1,042 new candidate genes in the Drosophila melanogaster genome.
Nature genetics 2001;27(3):337-40.
2000: Eric D Siggia; Jennifer Lippincott-Schwartz; Stefan Bekiranov
Diffusion in inhomogeneous media: theory and simulations applied to whole cell photobleach recovery.
Biophysical journal 2000;79(4):1761-70.
2000: Terry Gaasterland; Stefan Bekiranov
Making the most of microarray data.
Nature genetics 2000;24(3):204-6.