Aleksandar Milosavljevic

Aleksandar Milosavljevic

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Aleksandar Milosavljevic

Aleksandar Milosavljevic

Publications by authors named "Aleksandar Milosavljevic"

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Role of Valence Band States and Plasmonic Enhancement in Electron-Transfer-Induced Transformation of Nitrothiophenol.

J Phys Chem Lett 2019 Jun 28;10(11):3153-3158. Epub 2019 May 28.

Physical Chemistry, Institute of Chemistry , University of Potsdam , Karl-Liebknecht-Str. 24-25 , 14476 Potsdam-Golm , Germany.

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http://dx.doi.org/10.1021/acs.jpclett.9b00848DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6569622PMC
June 2019

Histoepigenetic analysis of HPV- and tobacco-associated head and neck cancer identifies both subtype-specific and common therapeutic targets despite divergent microenvironments.

Oncogene 2019 May 17;38(19):3551-3568. Epub 2019 Jan 17.

Molecular and Human Genetics Department, Baylor College of Medicine, Houston, TX, USA.

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http://dx.doi.org/10.1038/s41388-018-0659-4DOI Listing
May 2019

exceRpt: A Comprehensive Analytic Platform for Extracellular RNA Profiling.

Cell Syst 2019 Apr 4;8(4):352-357.e3. Epub 2019 Apr 4.

Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA; Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA; Department of Computer Science, Yale University, New Haven, CT, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cels.2019.03.004DOI Listing
April 2019

Vacuum-UV and Low-Energy Electron-Induced DNA Strand Breaks - Influence of the DNA Sequence and Substrate.

Chemphyschem 2019 03 26;20(6):823-830. Epub 2019 Feb 26.

Institute of Chemistry - Physical Chemistry, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476, Potsdam, Germany.

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http://dx.doi.org/10.1002/cphc.201801152DOI Listing
March 2019

Vacuum-UV induced DNA strand breaks - influence of the radiosensitizers 5-bromouracil and 8-bromoadenine.

Phys Chem Chem Phys 2019 Jan;21(4):1972-1979

Institute of Chemistry - Physical Chemistry, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476 Potsdam, Germany.

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http://xlink.rsc.org/?DOI=C8CP06813E
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http://dx.doi.org/10.1039/c8cp06813eDOI Listing
January 2019

Tricuspid valve avulsion 3 years after blunt chest trauma.

J Card Surg 2018 Dec 11;33(12):787-788. Epub 2018 Dec 11.

Institute for Cardiovascular Diseases of Vojvodina, Clinic of Cardiovascular Surgery, Sremska Kamenica, Serbia.

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http://dx.doi.org/10.1111/jocs.13939DOI Listing
December 2018

Electronic Properties of Free-Standing Surfactant-Capped Lead Halide Perovskite Nanocrystals Isolated in Vacuo.

J Phys Chem Lett 2018 Jul 18;9(13):3604-3611. Epub 2018 Jun 18.

Radiation Laboratory , University of Notre Dame , Notre Dame , Indiana 46556 , United States.

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http://dx.doi.org/10.1021/acs.jpclett.8b01466DOI Listing
July 2018

Characterization of Neutral Radicals from a Dissociative Electron Attachment Process.

Phys Rev Lett 2017 Aug 1;119(5):053402. Epub 2017 Aug 1.

Radiation Laboratory, University of Notre Dame, Notre Dame, Indiana 46556, USA.

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http://dx.doi.org/10.1103/PhysRevLett.119.053402DOI Listing
August 2017

Epigenomic Deconvolution of Breast Tumors Reveals Metabolic Coupling between Constituent Cell Types.

Cell Rep 2016 11;17(8):2075-2086

Molecular and Human Genetics Department, Baylor College of Medicine, 1 Baylor Plaza, Houston, TX 77030, USA; Program in Structural and Computational Biology and Molecular Biophysics, Baylor College of Medicine, 1 Baylor Plaza, Houston, TX 77030, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2016.10.057DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5115176PMC
November 2016

Low-Energy Electron-Induced Transformations in Organolead Halide Perovskite.

Angew Chem Int Ed Engl 2016 08 29;55(34):10083-7. Epub 2016 Jun 29.

Radiation Laboratory, University of Notre Dame, Notre Dame, IN, 46556, USA.

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http://dx.doi.org/10.1002/anie.201605013DOI Listing
August 2016

Sensitizing DNA Towards Low-Energy Electrons with 2-Fluoroadenine.

Angew Chem Int Ed Engl 2016 08 2;55(35):10248-52. Epub 2016 Aug 2.

Institute of Chemistry-Physical Chemistry, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476, Potsdam, Germany.

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http://dx.doi.org/10.1002/anie.201603464DOI Listing
August 2016

Tryptophan-functionalized gold nanoparticles for deep UV imaging of microbial cells.

Colloids Surf B Biointerfaces 2015 Nov 28;135:742-50. Epub 2015 Aug 28.

University of Belgrade, Vinča Institute of Nuclear Sciences, P.O. Box 522, 11001 Belgrade, Serbia. Electronic address:

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http://dx.doi.org/10.1016/j.colsurfb.2015.08.050DOI Listing
November 2015

Using DNA origami nanostructures to determine absolute cross sections for UV photon-induced DNA strand breakage.

J Phys Chem Lett 2015 Nov 6;6(22):4589-93. Epub 2015 Nov 6.

Institute of Chemistry, University of Potsdam , Karl-Liebknecht-Str. 24-25, 14469 Potsdam, Germany.

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http://dx.doi.org/10.1021/acs.jpclett.5b02238DOI Listing
November 2015

Action spectroscopy of a protonated peptide in the ultraviolet range.

Phys Chem Chem Phys 2015 Oct;17(39):25725-33

Synchrotron Soleil, l'Orme des Merisiers, St Aubin, Bp48, 91192 Gif sur Yvette Cedex, France.

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http://dx.doi.org/10.1039/c4cp04762aDOI Listing
October 2015

Contribution of synchrotron radiation to photoactivation studies of biomolecular ions in the gas phase.

Mass Spectrom Rev 2014 Nov-Dec;33(6):424-41. Epub 2013 Dec 17.

Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, 91192, Gif-sur-Yvette, France; UAR1008 CEPIA, INRA, 44316, Nantes, France.

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http://dx.doi.org/10.1002/mas.21398DOI Listing
June 2015

Recurrent BCAM-AKT2 fusion gene leads to a constitutively activated AKT2 fusion kinase in high-grade serous ovarian carcinoma.

Proc Natl Acad Sci U S A 2015 Mar 2;112(11):E1272-7. Epub 2015 Mar 2.

Departments of Pathology & Immunology, Molecular and Cellular Biology, Dan L. Duncan Cancer Center, and Center for Drug Discovery, Baylor College of Medicine, Houston, TX 77030

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http://dx.doi.org/10.1073/pnas.1501735112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4371965PMC
March 2015

Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs.

Nat Commun 2015 Feb 18;6:6370. Epub 2015 Feb 18.

Epigenome Center, Bioinformatics Research Laboratory, Department of Molecular &Human, Genetics, Baylor College of Medicine, One Baylor Plaza, BCMD 400D, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/ncomms7370DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4335353PMC
February 2015

Integrative analysis of 111 reference human epigenomes.

Nature 2015 Feb;518(7539):317-30

1] Computer Science and Artificial Intelligence Lab, Massachusetts Institute of Technology, 32 Vassar St, Cambridge, Massachusetts 02139, USA. [2] The Broad Institute of Harvard and MIT, 415 Main Street, Cambridge, Massachusetts 02142, USA.

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http://dx.doi.org/10.1038/nature14248DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4530010PMC
February 2015

Energy-Dependent UV Photodissociation of Gas-Phase Adenosine Monophosphate Nucleotide Ions: The Role of a Single Solvent Molecule.

J Phys Chem Lett 2014 Jun 23;5(11):1994-9. Epub 2014 May 23.

§Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, 91192 Gif-sur-Yvette, France.

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http://dx.doi.org/10.1021/jz500696bDOI Listing
June 2014

Different treatment strategies are applied to patients with the same periodontal status in general dentistry.

Acta Odontol Scand 2014 May 23;72(4):290-7. Epub 2013 Sep 23.

Department of Oral and Maxillofacial Radiology.

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http://dx.doi.org/10.3109/00016357.2013.824605DOI Listing
May 2014

Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing.

Nucleic Acids Res 2014 Apr 3;42(6):e43. Epub 2014 Jan 3.

Department of Pediatrics, Baylor College of Medicine, USDA/ARS Children's Nutrition Research Center, Houston, TX 77030, USA, Department of Molecular & Cell Biology, Baylor College of Medicine, Houston, TX 77030, USA, Department of Biology and Biochemistry, University of Houston, Houston, TX 77204, USA and Department of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1093/nar/gkt1325DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3973287PMC
April 2014

mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities.

BMC Genomics 2014 Apr 3;15:257. Epub 2014 Apr 3.

Departments of Obstetrics & Gynecology, Baylor College of Medicine and Texas Children's Hospital, Houston, TX, USA.

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http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2164-15-257DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4234434PMC
April 2014

CDKN2D-WDFY2 is a cancer-specific fusion gene recurrent in high-grade serous ovarian carcinoma.

PLoS Genet 2014 Mar 27;10(3):e1004216. Epub 2014 Mar 27.

Department of Pathology & Immunology, Baylor College of Medicine, Houston, Texas, United States of America; Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, Texas, United States of America; Duncan Cancer Center, Baylor College of Medicine, Houston, Texas, United States of America.

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http://dx.doi.org/10.1371/journal.pgen.1004216DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3967933PMC
March 2014

Recommendations for the design and analysis of epigenome-wide association studies.

Nat Methods 2013 Oct;10(10):949-55

1] Obstetrics and Gynecology Epidemiology Center, Department of Obstetrics and Gynecology, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts, USA. [2] Department of Epidemiology, Harvard School of Public Health, Boston, Massachusetts, USA.

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http://search.proquest.com/openview/9eb6080ebfd0ecdda97a57d6
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http://dx.doi.org/10.1038/nmeth.2632DOI Listing
October 2013

Photodissociation and dissociative photoionization mass spectrometry of proteins and noncovalent protein-ligand complexes.

Angew Chem Int Ed Engl 2013 Aug 19;52(32):8377-81. Epub 2013 Jul 19.

Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, 91192 Gif-sur-Yvette, France.

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http://dx.doi.org/10.1002/anie.201304046DOI Listing
August 2013

Nanosolvation-induced stabilization of a protonated peptide dimer isolated in the gas phase.

Angew Chem Int Ed Engl 2013 Jul 6;52(28):7286-90. Epub 2013 Jun 6.

Institute of Physics Belgrade, University of Belgrade, Pregrevica 118, 11080 Belgrade, Serbia.

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http://dx.doi.org/10.1002/anie.201301667DOI Listing
July 2013

A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy.

PLoS One 2012 13;7(6):e36466. Epub 2012 Jun 13.

Department of Obstetrics & Gynecology, Division of Maternal-Fetal Medicine, Baylor College of Medicine and Texas Children's Hospital, Houston, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0036466PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3374618PMC
December 2012

Spark: a navigational paradigm for genomic data exploration.

Genome Res 2012 Nov 7;22(11):2262-9. Epub 2012 Sep 7.

Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, British Columbia, V5Z 4S6, Canada.

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http://genome.cshlp.org/cgi/doi/10.1101/gr.140665.112
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http://dx.doi.org/10.1101/gr.140665.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3483555PMC
November 2012

Structure and charge-state dependence of the gas-phase ionization energy of proteins.

Angew Chem Int Ed Engl 2012 Sep 21;51(38):9552-6. Epub 2012 Aug 21.

Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, 91192 Gif-sur-Yvette, France.

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http://dx.doi.org/10.1002/anie.201204435DOI Listing
September 2012

Gas-Phase Protein Inner-Shell Spectroscopy by Coupling an Ion Trap with a Soft X-ray Beamline.

J Phys Chem Lett 2012 May 22;3(9):1191-6. Epub 2012 Apr 22.

‡Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, BP 48, 91192 Gif-sur-Yvette, France.

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http://dx.doi.org/10.1021/jz300324zDOI Listing
May 2012

VUV synchrotron radiation: a new activation technique for tandem mass spectrometry.

J Synchrotron Radiat 2012 Mar 31;19(Pt 2):174-8. Epub 2012 Jan 31.

Synchrotron SOLEIL, L'Orme des Merisiers, 91192 Gif sur Yvette Cedex, France.

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http://dx.doi.org/10.1107/S0909049512001057DOI Listing
March 2012

Photoionization of a protein isolated in vacuo.

Phys Chem Chem Phys 2011 Sep 18;13(34):15432-6. Epub 2011 Jul 18.

Synchrotron SOLEIL, L'Orme des Merisiers, Saint Aubin, B.P. 48, 91192 Gif-sur-Yvette, France.

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http://dx.doi.org/10.1039/c1cp21211gDOI Listing
September 2011

Emerging patterns of epigenomic variation.

Trends Genet 2011 Jun 18;27(6):242-50. Epub 2011 Apr 18.

Molecular and Human Genetics Department, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1016/j.tig.2011.03.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3104125PMC
June 2011

Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors.

BMC Med Genomics 2011 Apr 14;4:34. Epub 2011 Apr 14.

Graduate Program in Structural and Computational Biology and Molecular Biophysics, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA.

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http://dx.doi.org/10.1186/1755-8794-4-34DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3102606PMC
April 2011

ReadDepth: a parallel R package for detecting copy number alterations from short sequencing reads.

PLoS One 2011 Jan 31;6(1):e16327. Epub 2011 Jan 31.

Graduate Program in Structural and Computational Biology and Molecular Biophysics, Baylor College of Medicine, Houston, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0016327PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3031566PMC
January 2011

Analysis of microRNA expression in the prepubertal testis.

PLoS One 2010 Dec 29;5(12):e15317. Epub 2010 Dec 29.

Department of Pathology, Baylor College of Medicine, Houston, Texas, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0015317PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3012074PMC
December 2010

Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing.

BMC Bioinformatics 2010 Nov 23;11:572. Epub 2010 Nov 23.

Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza Houston, TX 77030, USA.

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http://dx.doi.org/10.1186/1471-2105-11-572DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3001746PMC
November 2010

Putting epigenome comparison into practice.

Nat Biotechnol 2010 Oct;28(10):1053-6

NIH Epigenomics Roadmap Data Analysis and Coordination Center, Molecular and Human Genetics Department, Baylor College of Medicine, Houston, Texas, USA.

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http://dx.doi.org/10.1038/nbt1010-1053DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4144442PMC
October 2010

MicroRNA transcriptome in the newborn mouse ovaries determined by massive parallel sequencing.

Mol Hum Reprod 2010 Jul 9;16(7):463-71. Epub 2010 Mar 9.

Department of Obstetrics, Gynecology and Reproductive Sciences, Magee-Womens Research Institute, University of Pittsburgh, Pittsburgh, PA, USA.

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http://dx.doi.org/10.1093/molehr/gaq017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2882868PMC
July 2010

Postpartal right ventricular thrombosis.

Herz 2008 Nov;33(7):532-4

Clinic of Cardiosurgery, Institute of Cardiovascular Diseases, Sremska Kamenica, Novi Sad, Serbia and Montenegro.

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http://dx.doi.org/10.1007/s00059-008-3127-zDOI Listing
November 2008

Abundance and length of simple repeats in vertebrate genomes are determined by their structural properties.

Genome Res 2008 Oct 7;18(10):1545-53. Epub 2008 Aug 7.

Institute of Biosciences and Technology, Center for Genome Research, Texas A&M University Health Science Center, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1101/gr.078303.108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2556271PMC
October 2008

Somatic mutations affect key pathways in lung adenocarcinoma.

Nature 2008 Oct;455(7216):1069-75

The Genome Center at Washington University, Department of Genetics, Washington University School of Medicine, St Louis, Missouri 63108, USA.

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http://dx.doi.org/10.1038/nature07423DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2694412PMC
October 2008

Pash 2.0: scaleable sequence anchoring for next-generation sequencing technologies.

Pac Symp Biocomput 2008 :102-13

Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA.

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March 2008

Evolutionary and biomedical insights from the rhesus macaque genome.

Authors:
Richard A Gibbs Jeffrey Rogers Michael G Katze Roger Bumgarner George M Weinstock Elaine R Mardis Karin A Remington Robert L Strausberg J Craig Venter Richard K Wilson Mark A Batzer Carlos D Bustamante Evan E Eichler Matthew W Hahn Ross C Hardison Kateryna D Makova Webb Miller Aleksandar Milosavljevic Robert E Palermo Adam Siepel James M Sikela Tony Attaway Stephanie Bell Kelly E Bernard Christian J Buhay Mimi N Chandrabose Marvin Dao Clay Davis Kimberly D Delehaunty Yan Ding Huyen H Dinh Shannon Dugan-Rocha Lucinda A Fulton Ramatu Ayiesha Gabisi Toni T Garner Jennifer Godfrey Alicia C Hawes Judith Hernandez Sandra Hines Michael Holder Jennifer Hume Shalini N Jhangiani Vandita Joshi Ziad Mohid Khan Ewen F Kirkness Andrew Cree R Gerald Fowler Sandra Lee Lora R Lewis Zhangwan Li Yih-Shin Liu Stephanie M Moore Donna Muzny Lynne V Nazareth Dinh Ngoc Ngo Geoffrey O Okwuonu Grace Pai David Parker Heidie A Paul Cynthia Pfannkoch Craig S Pohl Yu-Hui Rogers San Juana Ruiz Aniko Sabo Jireh Santibanez Brian W Schneider Scott M Smith Erica Sodergren Amanda F Svatek Teresa R Utterback Selina Vattathil Wesley Warren Courtney Sherell White Asif T Chinwalla Yucheng Feng Aaron L Halpern Ladeana W Hillier Xiaoqiu Huang Pat Minx Joanne O Nelson Kymberlie H Pepin Xiang Qin Granger G Sutton Eli Venter Brian P Walenz John W Wallis Kim C Worley Shiaw-Pyng Yang Steven M Jones Marco A Marra Mariano Rocchi Jacqueline E Schein Robert Baertsch Laura Clarke Miklós Csürös Jarret Glasscock R Alan Harris Paul Havlak Andrew R Jackson Huaiyang Jiang Yue Liu David N Messina Yufeng Shen Henry Xing-Zhi Song Todd Wylie Lan Zhang Ewan Birney Kyudong Han Miriam K Konkel Jungnam Lee Arian F A Smit Brygg Ullmer Hui Wang Jinchuan Xing Richard Burhans Ze Cheng John E Karro Jian Ma Brian Raney Xinwei She Michael J Cox Jeffery P Demuth Laura J Dumas Sang-Gook Han Janet Hopkins Anis Karimpour-Fard Young H Kim Jonathan R Pollack Tomas Vinar Charles Addo-Quaye Jeremiah Degenhardt Alexandra Denby Melissa J Hubisz Amit Indap Carolin Kosiol Bruce T Lahn Heather A Lawson Alison Marklein Rasmus Nielsen Eric J Vallender Andrew G Clark Betsy Ferguson Ryan D Hernandez Kashif Hirani Hildegard Kehrer-Sawatzki Jessica Kolb Shobha Patil Ling-Ling Pu Yanru Ren David Glenn Smith David A Wheeler Ian Schenck Edward V Ball Rui Chen David N Cooper Belinda Giardine Fan Hsu W James Kent Arthur Lesk David L Nelson William E O'brien Kay Prüfer Peter D Stenson James C Wallace Hui Ke Xiao-Ming Liu Peng Wang Andy Peng Xiang Fan Yang Galt P Barber David Haussler Donna Karolchik Andy D Kern Robert M Kuhn Kayla E Smith Ann S Zwieg

Science 2007 Apr;316(5822):222-34

Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1126/science.1139247DOI Listing
April 2007

Designing new microsatellite markers for linkage and population genetic analyses in rhesus macaques and other nonhuman primates.

Genomics 2006 Dec 28;88(6):706-710. Epub 2006 Sep 28.

Department of Genetics, Southwest Foundation for Biomedical Research, P.O. Box 760549, San Antonio, TX 78227, USA; Southwest National Primate Research Center, San Antonio, TX 78227, USA. Electronic address:

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http://dx.doi.org/10.1016/j.ygeno.2006.08.009DOI Listing
December 2006

The genome of the sea urchin Strongylocentrotus purpuratus.

Authors:
Erica Sodergren George M Weinstock Eric H Davidson R Andrew Cameron Richard A Gibbs Robert C Angerer Lynne M Angerer Maria Ina Arnone David R Burgess Robert D Burke James A Coffman Michael Dean Maurice R Elphick Charles A Ettensohn Kathy R Foltz Amro Hamdoun Richard O Hynes William H Klein William Marzluff David R McClay Robert L Morris Arcady Mushegian Jonathan P Rast L Courtney Smith Michael C Thorndyke Victor D Vacquier Gary M Wessel Greg Wray Lan Zhang Christine G Elsik Olga Ermolaeva Wratko Hlavina Gretchen Hofmann Paul Kitts Melissa J Landrum Aaron J Mackey Donna Maglott Georgia Panopoulou Albert J Poustka Kim Pruitt Victor Sapojnikov Xingzhi Song Alexandre Souvorov Victor Solovyev Zheng Wei Charles A Whittaker Kim Worley K James Durbin Yufeng Shen Olivier Fedrigo David Garfield Ralph Haygood Alexander Primus Rahul Satija Tonya Severson Manuel L Gonzalez-Garay Andrew R Jackson Aleksandar Milosavljevic Mark Tong Christopher E Killian Brian T Livingston Fred H Wilt Nikki Adams Robert Bellé Seth Carbonneau Rocky Cheung Patrick Cormier Bertrand Cosson Jenifer Croce Antonio Fernandez-Guerra Anne-Marie Genevière Manisha Goel Hemant Kelkar Julia Morales Odile Mulner-Lorillon Anthony J Robertson Jared V Goldstone Bryan Cole David Epel Bert Gold Mark E Hahn Meredith Howard-Ashby Mark Scally John J Stegeman Erin L Allgood Jonah Cool Kyle M Judkins Shawn S McCafferty Ashlan M Musante Robert A Obar Amanda P Rawson Blair J Rossetti Ian R Gibbons Matthew P Hoffman Andrew Leone Sorin Istrail Stefan C Materna Manoj P Samanta Viktor Stolc Waraporn Tongprasit Qiang Tu Karl-Frederik Bergeron Bruce P Brandhorst James Whittle Kevin Berney David J Bottjer Cristina Calestani Kevin Peterson Elly Chow Qiu Autumn Yuan Eran Elhaik Dan Graur Justin T Reese Ian Bosdet Shin Heesun Marco A Marra Jacqueline Schein Michele K Anderson Virginia Brockton Katherine M Buckley Avis H Cohen Sebastian D Fugmann Taku Hibino Mariano Loza-Coll Audrey J Majeske Cynthia Messier Sham V Nair Zeev Pancer David P Terwilliger Cavit Agca Enrique Arboleda Nansheng Chen Allison M Churcher F Hallböök Glen W Humphrey Mohammed M Idris Takae Kiyama Shuguang Liang Dan Mellott Xiuqian Mu Greg Murray Robert P Olinski Florian Raible Matthew Rowe John S Taylor Kristin Tessmar-Raible D Wang Karen H Wilson Shunsuke Yaguchi Terry Gaasterland Blanca E Galindo Herath J Gunaratne Celina Juliano Masashi Kinukawa Gary W Moy Anna T Neill Mamoru Nomura Michael Raisch Anna Reade Michelle M Roux Jia L Song Yi-Hsien Su Ian K Townley Ekaterina Voronina Julian L Wong Gabriele Amore Margherita Branno Euan R Brown Vincenzo Cavalieri Véronique Duboc Louise Duloquin Constantin Flytzanis Christian Gache François Lapraz Thierry Lepage Annamaria Locascio Pedro Martinez Giorgio Matassi Valeria Matranga Ryan Range Francesca Rizzo Eric Röttinger Wendy Beane Cynthia Bradham Christine Byrum Tom Glenn Sofia Hussain Gerard Manning Esther Miranda Rebecca Thomason Katherine Walton Athula Wikramanayke Shu-Yu Wu Ronghui Xu C Titus Brown Lili Chen Rachel F Gray Pei Yun Lee Jongmin Nam Paola Oliveri Joel Smith Donna Muzny Stephanie Bell Joseph Chacko Andrew Cree Stacey Curry Clay Davis Huyen Dinh Shannon Dugan-Rocha Jerry Fowler Rachel Gill Cerrissa Hamilton Judith Hernandez Sandra Hines Jennifer Hume Laronda Jackson Angela Jolivet Christie Kovar Sandra Lee Lora Lewis George Miner Margaret Morgan Lynne V Nazareth Geoffrey Okwuonu David Parker Ling-Ling Pu Rachel Thorn Rita Wright

Science 2006 Nov;314(5801):941-52

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http://dx.doi.org/10.1126/science.1133609DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3159423PMC
November 2006

The DNA sequence, annotation and analysis of human chromosome 3.

Authors:
Donna M Muzny Steven E Scherer Rajinder Kaul Jing Wang Jun Yu Ralf Sudbrak Christian J Buhay Rui Chen Andrew Cree Yan Ding Shannon Dugan-Rocha Rachel Gill Preethi Gunaratne R Alan Harris Alicia C Hawes Judith Hernandez Anne V Hodgson Jennifer Hume Andrew Jackson Ziad Mohid Khan Christie Kovar-Smith Lora R Lewis Ryan J Lozado Michael L Metzker Aleksandar Milosavljevic George R Miner Margaret B Morgan Lynne V Nazareth Graham Scott Erica Sodergren Xing-Zhi Song David Steffen Sharon Wei David A Wheeler Mathew W Wright Kim C Worley Ye Yuan Zhengdong Zhang Charles Q Adams M Ali Ansari-Lari Mulu Ayele Mary J Brown Guan Chen Zhijian Chen James Clendenning Kerstin P Clerc-Blankenburg Runsheng Chen Zhu Chen Clay Davis Oliver Delgado Huyen H Dinh Wei Dong Heather Draper Stephen Ernst Gang Fu Manuel L Gonzalez-Garay Dawn K Garcia Will Gillett Jun Gu Bailin Hao Eric Haugen Paul Havlak Xin He Steffen Hennig Songnian Hu Wei Huang Laronda R Jackson Leni S Jacob Susan H Kelly Michael Kube Ruth Levy Zhangwan Li Bin Liu Jing Liu Wen Liu Jing Lu Manjula Maheshwari Bao-Viet Nguyen Geoffrey O Okwuonu Anthony Palmeiri Shiran Pasternak Lesette M Perez Karen A Phelps Farah J H Plopper Boqin Qiang Christopher Raymond Ruben Rodriguez Channakhone Saenphimmachak Jireh Santibanez Hua Shen Yan Shen Sandhya Subramanian Paul E Tabor Daniel Verduzco Lenee Waldron Jian Wang Jun Wang Qiaoyan Wang Gabrielle A Williams Gane K-S Wong Zhijian Yao JingKun Zhang Xiuqing Zhang Guoping Zhao Jianling Zhou Yang Zhou David Nelson Hans Lehrach Richard Reinhardt Susan L Naylor Huanming Yang Maynard Olson George Weinstock Richard A Gibbs

Nature 2006 Apr;440(7088):1194-8

Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/nature04728DOI Listing
April 2006

The finished DNA sequence of human chromosome 12.

Authors:
Steven E Scherer Donna M Muzny Christian J Buhay Rui Chen Andrew Cree Yan Ding Shannon Dugan-Rocha Rachel Gill Preethi Gunaratne R Alan Harris Alicia C Hawes Judith Hernandez Anne V Hodgson Jennifer Hume Andrew Jackson Ziad Mohid Khan Christie Kovar-Smith Lora R Lewis Ryan J Lozado Michael L Metzker Aleksandar Milosavljevic George R Miner Kate T Montgomery Margaret B Morgan Lynne V Nazareth Graham Scott Erica Sodergren Xing-Zhi Song David Steffen Ruth C Lovering David A Wheeler Kim C Worley Yi Yuan Zhengdong Zhang Charles Q Adams M Ali Ansari-Lari Mulu Ayele Mary J Brown Guan Chen Zhijian Chen Kerstin P Clerc-Blankenburg Clay Davis Oliver Delgado Huyen H Dinh Heather Draper Manuel L Gonzalez-Garay Paul Havlak Laronda R Jackson Leni S Jacob Susan H Kelly Li Li Zhangwan Li Jing Liu Wen Liu Jing Lu Manjula Maheshwari Bao-Viet Nguyen Geoffrey O Okwuonu Shiran Pasternak Lesette M Perez Farah J H Plopper Jireh Santibanez Hua Shen Paul E Tabor Daniel Verduzco Lenee Waldron Qiaoyan Wang Gabrielle A Williams Jingkun Zhang Jianling Zhou Carlana C Allen Anita G Amin Vivian Anyalebechi Michael Bailey Joseph A Barbaria Kesha E Bimage Nathaniel P Bryant Paula E Burch Carrie E Burkett Kevin L Burrell Eliana Calderon Veronica Cardenas Kelvin Carter Kristal Casias Iracema Cavazos Sandra R Cavazos Heather Ceasar Joseph Chacko Sheryl N Chan Dean Chavez Constantine Christopoulos Joseph Chu Raynard Cockrell Caroline D Cox Michelle Dang Stephanie R Dathorne Robert David Candi Mon'Et Davis Latarsha Davy-Carroll Denise R Deshazo Jeremy E Donlin Lisa D'Souza Kristy A Eaves Amy Egan Alexandra J Emery-Cohen Michael Escotto Nicole Flagg Lisa D Forbes Abdul M Gabisi Melissa Garza Cerissa Hamilton Nicholas Henderson Omar Hernandez Sandra Hines Marilyn E Hogues Mei Huang DeVincent G Idlebird Rudy Johnson Angela Jolivet Sally Jones Ryan Kagan Laquisha M King Belita Leal Heather Lebow Sandra Lee Jaclyn M LeVan Lakeshia C Lewis Pamela London Lorna M Lorensuhewa Hermela Loulseged Demetria A Lovett Alice Lucier Raymond L Lucier Jie Ma Renita C Madu Patricia Mapua Ashley D Martindale Evangelina Martinez Elizabeth Massey Samantha Mawhiney Michael G Meador Sylvia Mendez Christian Mercado Iracema C Mercado Christina E Merritt Zachary L Miner Emmanuel Minja Teresa Mitchell Farida Mohabbat Khatera Mohabbat Baize Montgomery Niki Moore Sidney Morris Mala Munidasa Robin N Ngo Ngoc B Nguyen Elizabeth Nickerson Ogechi O Nwaokelemeh Stanley Nwokenkwo Melissa Obregon Maryann Oguh Njideka Oragunye Rodolfo J Oviedo Bridgette J Parish David N Parker Julia Parrish Kenya L Parks Heidie A Paul Brett A Payton Agapito Perez William Perrin Adam Pickens Eltrick L Primus Ling-Ling Pu Maria Puazo Miyo M Quiles Juana B Quiroz Dina Rabata Kacy Reeves San Juana Ruiz Hongmei Shao Ida Sisson Titilola Sonaike Richard P Sorelle Angelica E Sutton Amanda F Svatek Leah Anne Svetz Kavitha S Tamerisa Tineace R Taylor Brian Teague Nicole Thomas Rachel D Thorn Zulma Y Trejos Brenda K Trevino Ogechi N Ukegbu Jeremy B Urban Lydia I Vasquez Virginia A Vera Donna M Villasana Ling Wang Stephanie Ward-Moore James T Warren Xuehong Wei Flower White Angela L Williamson Regina Wleczyk Hailey S Wooden Steven H Wooden Jennifer Yen Lillienne Yoon Vivienne Yoon Sara E Zorrilla David Nelson Raju Kucherlapati George Weinstock Richard A Gibbs

Nature 2006 Mar;440(7082):346-51

Human Genome Sequencing Center, Baylor College of Medicine, One Baylor Plaza, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1038/nature04569DOI Listing
March 2006

Successful repair of coronary artery-pulmonary artery fistula with coronary artery disease and atrial septal defect in an adult.

J Thorac Cardiovasc Surg 2005 Sep;130(3):890-1

University in Novi Sad, Institute of Cardiovascular Diseases, University Clinic of Cardiovascular Surgery, Novi Sad, Serbia and Montenegro.

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http://dx.doi.org/10.1016/j.jtcvs.2005.02.021DOI Listing
September 2005

Pooled Genomic Indexing (PGI): analysis and design of experiments.

J Comput Biol 2004 ;11(5):1001-21

Département d'informatique et de recherche opérationnelle, Université de Montréal, CP 6128 succ. Centre-Ville, Montréal, QC H3C 3J7, Canada.

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http://dx.doi.org/10.1089/cmb.2004.11.1001DOI Listing
March 2005

Clone-array pooled shotgun mapping and sequencing: design and analysis of experiments.

Genome Inform 2003 ;14:186-95

Département d'informatique et de recherche opérationnelle, Université de Montréal, CP 6128 succ. Centre-Ville, Montréal, Québec H3C 3J7, Canada.

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March 2005

Pooled genomic indexing of rhesus macaque.

Genome Res 2005 Feb;15(2):292-301

Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas 77030, USA.

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http://dx.doi.org/10.1101/gr.3162505DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC546531PMC
February 2005

Genome sequence of the Brown Norway rat yields insights into mammalian evolution.

Authors:
Richard A Gibbs George M Weinstock Michael L Metzker Donna M Muzny Erica J Sodergren Steven Scherer Graham Scott David Steffen Kim C Worley Paula E Burch Geoffrey Okwuonu Sandra Hines Lora Lewis Christine DeRamo Oliver Delgado Shannon Dugan-Rocha George Miner Margaret Morgan Alicia Hawes Rachel Gill Celera Robert A Holt Mark D Adams Peter G Amanatides Holly Baden-Tillson Mary Barnstead Soo Chin Cheryl A Evans Steve Ferriera Carl Fosler Anna Glodek Zhiping Gu Don Jennings Cheryl L Kraft Trixie Nguyen Cynthia M Pfannkoch Cynthia Sitter Granger G Sutton J Craig Venter Trevor Woodage Douglas Smith Hong-Mei Lee Erik Gustafson Patrick Cahill Arnold Kana Lynn Doucette-Stamm Keith Weinstock Kim Fechtel Robert B Weiss Diane M Dunn Eric D Green Robert W Blakesley Gerard G Bouffard Pieter J De Jong Kazutoyo Osoegawa Baoli Zhu Marco Marra Jacqueline Schein Ian Bosdet Chris Fjell Steven Jones Martin Krzywinski Carrie Mathewson Asim Siddiqui Natasja Wye John McPherson Shaying Zhao Claire M Fraser Jyoti Shetty Sofiya Shatsman Keita Geer Yixin Chen Sofyia Abramzon William C Nierman Paul H Havlak Rui Chen K James Durbin Amy Egan Yanru Ren Xing-Zhi Song Bingshan Li Yue Liu Xiang Qin Simon Cawley Kim C Worley A J Cooney Lisa M D'Souza Kirt Martin Jia Qian Wu Manuel L Gonzalez-Garay Andrew R Jackson Kenneth J Kalafus Michael P McLeod Aleksandar Milosavljevic Davinder Virk Andrei Volkov David A Wheeler Zhengdong Zhang Jeffrey A Bailey Evan E Eichler Eray Tuzun Ewan Birney Emmanuel Mongin Abel Ureta-Vidal Cara Woodwark Evgeny Zdobnov Peer Bork Mikita Suyama David Torrents Marina Alexandersson Barbara J Trask Janet M Young Hui Huang Huajun Wang Heming Xing Sue Daniels Darryl Gietzen Jeanette Schmidt Kristian Stevens Ursula Vitt Jim Wingrove Francisco Camara M Mar Albà Josep F Abril Roderic Guigo Arian Smit Inna Dubchak Edward M Rubin Olivier Couronne Alexander Poliakov Norbert Hübner Detlev Ganten Claudia Goesele Oliver Hummel Thomas Kreitler Young-Ae Lee Jan Monti Herbert Schulz Heike Zimdahl Heinz Himmelbauer Hans Lehrach Howard J Jacob Susan Bromberg Jo Gullings-Handley Michael I Jensen-Seaman Anne E Kwitek Jozef Lazar Dean Pasko Peter J Tonellato Simon Twigger Chris P Ponting Jose M Duarte Stephen Rice Leo Goodstadt Scott A Beatson Richard D Emes Eitan E Winter Caleb Webber Petra Brandt Gerald Nyakatura Margaret Adetobi Francesca Chiaromonte Laura Elnitski Pallavi Eswara Ross C Hardison Minmei Hou Diana Kolbe Kateryna Makova Webb Miller Anton Nekrutenko Cathy Riemer Scott Schwartz James Taylor Shan Yang Yi Zhang Klaus Lindpaintner T Dan Andrews Mario Caccamo Michele Clamp Laura Clarke Valerie Curwen Richard Durbin Eduardo Eyras Stephen M Searle Gregory M Cooper Serafim Batzoglou Michael Brudno Arend Sidow Eric A Stone J Craig Venter Bret A Payseur Guillaume Bourque Carlos López-Otín Xose S Puente Kushal Chakrabarti Sourav Chatterji Colin Dewey Lior Pachter Nicolas Bray Von Bing Yap Anat Caspi Glenn Tesler Pavel A Pevzner David Haussler Krishna M Roskin Robert Baertsch Hiram Clawson Terrence S Furey Angie S Hinrichs Donna Karolchik William J Kent Kate R Rosenbloom Heather Trumbower Matt Weirauch David N Cooper Peter D Stenson Bin Ma Michael Brent Manimozhiyan Arumugam David Shteynberg Richard R Copley Martin S Taylor Harold Riethman Uma Mudunuri Jane Peterson Mark Guyer Adam Felsenfeld Susan Old Stephen Mockrin Francis Collins

Nature 2004 Apr;428(6982):493-521

Human Genome Sequencing Center, Department of Molecular and Human Genetics, Baylor College of Medicine, MS BCM226, One Baylor Plaza, Houston, Texas 77030, USA. http://www.hgsc.bcm.tmc.edu

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http://dx.doi.org/10.1038/nature02426DOI Listing
April 2004

Pash: efficient genome-scale sequence anchoring by Positional Hashing.

Genome Res 2004 Apr;14(4):672-8

Program in Structural and Computational Biology and Molecular Biophysics, Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, 77030, USA.

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http://dx.doi.org/10.1101/gr.1963804DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC383312PMC
April 2004