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Aleksandar Milosavljevic

Research Profile

Genes & Molecular Sequences

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Bacterial Artificial Chromosomes

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Publications

TOP 3
Ronald Harris; Mira Jeong; Sung-Hae Kang; Jian Li; James R Lupski; Sau Wai Cheung; A Craig Chinault; Cristian Coarfa; Anna Gambin; Tomasz Gambin; Margaret A Goodell; Ankita Patel; Chad Shaw; Lisa D White; Aleksandar Milosavljevic
Confounding by repetitive elements and CpG islands does not explain the association between hypomethylation and genomic instability.
Cydney B Nielsen; Henriette O'Geen; Ting Wang; Xiaoqin Xu; Hamid Younesy; Joseph F Costello; Peggy J Farnham; Martin Hirst; Andrew R Jackson; Aleksandar Milosavljevic; Steven J M Jones
Spark: a navigational paradigm for genomic data exploration.
Kevin Riehle; Delphine Saulnier; Robert Shulman; Arpit Tandon; James Versalovic; Kjersti Aagaard; Cristian Coarfa; Maria Alejandra Diaz; Andrew Jackson; Jun Ma; Toni-Ann Mistretta; Sameer Paithankar; Sriram Raghuraman; Sabeen Raza; Aleksandar Milosavljevic
The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences.

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All Publications

2013: Ronald Harris; Mira Jeong; Sung-Hae Kang; Jian Li; James R Lupski; Sau Wai Cheung; A Craig Chinault; Cristian Coarfa; Anna Gambin; Tomasz Gambin; Margaret A Goodell; Ankita Patel; Chad Shaw; Lisa D White; Aleksandar Milosavljevic
Confounding by repetitive elements and CpG islands does not explain the association between hypomethylation and genomic instability.
PLoS genetics 2013;9(2):e1003333.
2012: Cydney B Nielsen; Henriette O'Geen; Ting Wang; Xiaoqin Xu; Hamid Younesy; Joseph F Costello; Peggy J Farnham; Martin Hirst; Andrew R Jackson; Aleksandar Milosavljevic; Steven J M Jones
Spark: a navigational paradigm for genomic data exploration.
Genome research 2012;22(11):2262-9.
2012: Kevin Riehle; Delphine Saulnier; Robert Shulman; Arpit Tandon; James Versalovic; Kjersti Aagaard; Cristian Coarfa; Maria Alejandra Diaz; Andrew Jackson; Jun Ma; Toni-Ann Mistretta; Sameer Paithankar; Sriram Raghuraman; Sabeen Raza; Aleksandar Milosavljevic
The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences.
BMC bioinformatics 2012;13 Suppl 13():S11.
2012: Uday S Evani; Andrew R Jackson; Adinarayana Jakkamsetti; Aleksandar Milosavljevic; Sameer Paithankar; Peter Pham; Matthew N Bainbridge; Danny Challis; Cristian Coarfa; Jin Yu; Fuli Yu
Atlas2 Cloud: a framework for personal genome analysis in the cloud.
BMC genomics 2012;13 Suppl 6():S19.
2012: Kjersti Aagaard; Cristian Coarfa; Dirk Gevers; Curtis Huttenhower; Jun Ma; Aleksandar Milosavljevic; Toni-Ann Mistretta; Joseph F Petrosino; Sabeen Raza; Kevin Riehle; Sean Rosenbaum; Nicola Segata; Ignatia Van den Veyver; James Versalovic
A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy.
PloS one 2012;7(6):e36466.
2012: Matthew N Davies; Abhishek Dixit; Richard Dobson; Ronald Harris; Simon Lovestone; Katie Lunnon; Aleksandar Milosavljevic; Ruth Pidsley; Leonard C Schalkwyk; Claire Troakes; Manuela Volta; Safa Al-Sarraj; Cristian Coarfa; Jonathan Mill
Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood.
Genome biology 2012;13(6):R43.
2012: Jian Li; James R Lupski; Ankita Patel; Chad Shaw; Lisa D White; Sau Wai Cheung; A Craig Chinault; Cristian Coarfa; Anna Gambin; Tomasz Gambin; Margaret A Goodell; Ronald Harris; Mira Jeong; Sung-Hae Kang; Aleksandar Milosavljevic
Genomic hypomethylation in the human germline associates with selective structural mutability in the human genome.
PLoS genetics 2012;8(5):e1002692.
2012: Lucia Carbone; Nicoletta Archidiacono; Mark A Batzer; Oronzo Capozzi; Ronald Harris; Miriam K Konkel; David I K Martin; Aleksandar Milosavljevic; Alan R Mootnick; Mariano Rocchi; Jerilyn A Walker; Pieter J de Jong
Centromere remodeling in Hoolock leuconedys (Hylobatidae) by a new transposable element unique to the gibbons.
Genome biology and evolution 2012;4(7):648-58.
2012: Danny Challis; Cristian Coarfa; Uday S Evani; Richard A Gibbs; Andrew R Jackson; Aleksandar Milosavljevic; Sameer Paithankar; Jin Yu; Fuli Yu
An integrative variant analysis suite for whole exome next-generation sequencing data.
BMC bioinformatics 2012;13():8.
2011: Delphine M Saulnier; Robert J Shulman; Erica M Weidler; Cristian Coarfa; Maria-Alejandra Diaz; Richard Gibbs; Sarah Katherine Highlander; Susan V Lynch; Debasmita Mandal; Aleksandar Milosavljevic; Toni-Ann Mistretta; Joseph F Petrosino; Xiang Qin; Sabeen Raza; Kevin Riehle; James Versalovic
Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome.
Gastroenterology 2011;141(5):1782-91.
2011: Oliver A Hampton; Maxim Koriabine; Adrian V Lee; Jian Li; Christopher A Miller; Mikhail Nefedov; Boudewijn F H Ten Hallers; Cristian Coarfa; Caroline Schoenherr; Lucia Carbone; Pieter J de Jong; Petra Den Hollander; Aleksandar Milosavljevic
Long-range massively parallel mate pair sequencing detects distinct mutations and similar patterns of structural mutability in two breast cancer cell lines.
Cancer genetics 2011;204(8):447-57.
2011: Aleksandar Milosavljevic
Emerging patterns of epigenomic variation.
Trends in genetics : TIG 2011;27(6):242-50.
2011: Gloria Fawcett; Richard Gibbs; Ronald Harris; Ned H Kalin; Aleksandar Milosavljevic; Donna M Muzny; Muthuswamy Raveendran; Jeffrey G Reid; Yanru Ren; Steven E Shelton; David A Wheeler; Kim C Worley; Fuli Yu; David Chen; David Rio Deiros; Jeffrey Rogers
Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta).
BMC genomics 2011;12():311.
2011: Preethi H Gunaratne; Jong H Kim; Ya-Chi Lin; Aleksandar Milosavljevic; Jayantha B Tennakoon; Michael Watson; Cristian Coarfa; Chad J Creighton; Jenny Drnevich; Sam Griffiths-Jones; Ashley L Benham; David F Clayton
Song exposure regulates known and novel microRNAs in the zebra finch auditory forebrain.
BMC genomics 2011;12(1):277.
2011: Christopher Miller; Stephen H Settle; Erik P Sulman; Kenneth D Aldape; Aleksandar Milosavljevic
Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors.
BMC medical genomics 2011;4():34.
2010: Aleksandar Milosavljevic
Putting epigenome comparison into practice.
Nature biotechnology 2010;28(10):1053-6.
2010: Lina Shao; Sung-Hae L Kang; Jian Li; Patricia Hixson; Jesalyn Taylor; Svetlana A Yatsenko; Chad A Shaw; Aleksandar Milosavljevic; Chung-Che Chang; Sau Wai Cheung; Ankita Patel
Array comparative genomic hybridization detects chromosomal abnormalities in hematological cancers that are not detected by conventional cytogenetics.
The Journal of molecular diagnostics : JMD 2010;12(5):670-9.
2010: Gregory M Buchold; Cristian Coarfa; Jong Kim; Aleksandar Milosavljevic; Preethi H Gunaratne; Martin M Matzuk
Analysis of microRNA expression in the prepubertal testis.
PloS one 2010;5(12):e15317.
2010: Cristian Coarfa; Fuli Yu; Christopher Miller; Zuozhou Chen; Ronald Harris; Aleksandar Milosavljevic
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;11():572.
2009: Oliver A Hampton; Petra Den Hollander; Christopher Miller; David A Delgado; Jian Li; Cristian Coarfa; Ronald Harris; Stephen Richards; Steven E Scherer; Donna M Muzny; Richard A Gibbs; Adrian V Lee; Aleksandar Milosavljevic
A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome.
Genome research 2009;19(2):167-77.
2008: Cristian Coarfa; Aleksandar Milosavljevic
Pash 2.0: scaleable sequence anchoring for next-generation sequencing technologies.
Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing 2008;():102-13.
2007: Ronald Harris; J Rogers; Aleksandar Milosavljevic
Human-specific changes of genome structure detected by genomic triangulation.
Science (New York, N.Y.) 2007;316(5822):235-7.
2006: Lucia Carbone; Gery M Vessere; Boudewijn F H ten Hallers; Baoli Zhu; Kazutoyo Osoegawa; Alan Mootnick; Andrea Kofler; Johannes Wienberg; Jane Rogers; Sean Humphray; Carol Scott; Ronald Harris; Aleksandar Milosavljevic; Pieter J de Jong
A high-resolution map of synteny disruptions in gibbon and human genomes.
PLoS genetics 2006;2(12):e223.
2005: Aleksandar Milosavljevic; Ronald Harris; Erica Sodergren; Andrew R Jackson; Ken J Kalafus; Anne Hodgson; Andrew Cree; Weilie Dai; Miklos Csuros; Baoli Zhu; Pieter J de Jong; George Weinstock; Richard A Gibbs
Pooled genomic indexing of rhesus macaque.
Genome research 2005;15(2):292-301.
2004: Ken J Kalafus; Andrew R Jackson; Aleksandar Milosavljevic
Pash: efficient genome-scale sequence anchoring by Positional Hashing.
Genome research 2004;14(4):672-8.