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Institute for Clinical and Translational Research

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ALEKSANDAR MILOSAVLJEVIC

TitleProfessor
InstitutionBaylor College of Medicine
DepartmentDepartment of Molecular & Human Genetics
DivisionMolecular & Human Genetics
AddressOne Baylor Plaza, 400D
Houston TX 77030
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    Collapse Overview 

    Collapse Research 
    Collapse research activities and funding
    R01HG002583     (MILOSAVLJEVIC, ALEKSANDAR)Jul 19, 2002 - Mar 31, 2006
    NIH/NHGRI
    Clone-Array Pooled Shotgun Indexing
    Role: Principal Investigator
    U01RR018464     (MILOSAVLJEVIC, ALEKSANDAR)Sep 30, 2002 - Aug 31, 2005
    NIH/NCRR
    Clone Pooling Methods for Physical Mapping
    Role: Principal Investigator
    R01HG004009     (MILOSAVLJEVIC, ALEKSANDAR)Aug 15, 2006 - Mar 31, 2010
    NIH/NHGRI
    Genboree System for Translational Studies of Genome Variation
    Role: Principal Investigator
    R33CA114151     (MILOSAVLJEVIC, ALEKSANDAR)May 1, 2007 - Apr 30, 2011
    NIH/NCI
    Multiplexed Methods for the Study of Chromosomal Aberrations in Cancer
    Role: Principal Investigator
    R21HG004554     (MILOSAVLJEVIC, ALEKSANDAR)Jul 1, 2007 - Jun 30, 2010
    NIH/NHGRI
    Comprehensive High-throughput Mapping of Cancer Genomes
    Role: Principal Investigator
    U01DA025956     (MILOSAVLJEVIC, ALEKSANDAR)Sep 20, 2008 - Jul 31, 2014
    NIH/NIDA
    Epigenomics Data Analysis and Coordination Center at Baylor College of Medicine
    Role: Principal Investigator
    R01CA163849     (JUSTICE, MONICA J.)Jul 23, 2013 - May 31, 2018
    NIH/NCI
    The pluripotency regulator Prdm14 initiates cancer by epigenetic mechanisms
    Role: Co-Principal Investigator
    U54DA036134     (MILOSAVLJEVIC, ALEKSANDAR)Aug 1, 2013 - Jul 31, 2018
    NIH/NIDA
    DATA MANAGEMENT AND RESOURCE REPOSITORY FOR THE exRNA ATLAS
    Role: Principal Investigator
    R13ES025509     (STAMATOYANNOPOULOS, JOHN A)May 1, 2015 - Apr 30, 2016
    NIH/NIEHS
    Epigenomics 2015: A Roadmap to the Living Genome
    Role: Co-Principal Investigator

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Das S, Ansel KM, Bitzer M, Breakefield XO, Charest A, Galas DJ, Gerstein MB, Gupta M, Milosavljevic A, McManus MT, Patel T, Raffai RL, Rozowsky J, Roth ME, Saugstad JA, Van Keuren-Jensen K, Weaver AM, Laurent LC. The Extracellular RNA Communication Consortium: Establishing Foundational Knowledge and Technologies for Extracellular RNA Research. Cell. 2019 Apr 04; 177(2):231-242. PMID: 30951667.
      View in: PubMed
    2. Murillo OD, Thistlethwaite W, Rozowsky J, Subramanian SL, Lucero R, Shah N, Jackson AR, Srinivasan S, Chung A, Laurent CD, Kitchen RR, Galeev T, Warrell J, Diao JA, Welsh JA, Hanspers K, Riutta A, Burgstaller-Muehlbacher S, Shah RV, Yeri A, Jenkins LM, Ahsen ME, Cordon-Cardo C, Dogra N, Gifford SM, Smith JT, Stolovitzky G, Tewari AK, Wunsch BH, Yadav KK, Danielson KM, Filant J, Moeller C, Nejad P, Paul A, Simonson B, Wong DK, Zhang X, Balaj L, Gandhi R, Sood AK, Alexander RP, Wang L, Wu C, Wong DTW, Galas DJ, Van Keuren-Jensen K, Patel T, Jones JC, Das S, Cheung KH, Pico AR, Su AI, Raffai RL, Laurent LC, Roth ME, Gerstein MB, Milosavljevic A. exRNA Atlas Analysis Reveals Distinct Extracellular RNA Cargo Types and Their Carriers Present across Human Biofluids. Cell. 2019 Apr 04; 177(2):463-477.e15. PMID: 30951672.
      View in: PubMed
    3. Rozowsky J, Kitchen RR, Park JJ, Galeev TR, Diao J, Warrell J, Thistlethwaite W, Subramanian SL, Milosavljevic A, Gerstein M. exceRpt: A Comprehensive Analytic Platform for Extracellular RNA Profiling. Cell Syst. 2019 Mar 29. PMID: 30956140.
      View in: PubMed
    4. Vogel S, Ebel K, Schürmann RM, Heck C, Meiling T, Milosavljevic AR, Giuliani A, Bald I. Vacuum-UV and Low-Energy Electron-Induced DNA Strand Breaks - Influence of the DNA Sequence and Substrate. Chemphyschem. 2019 03 18; 20(6):823-830. PMID: 30719805.
      View in: PubMed
    5. Vogel S, Ebel K, Heck C, Schürmann RM, Milosavljevic AR, Giuliani A, Bald I. Vacuum-UV induced DNA strand breaks - influence of the radiosensitizers 5-bromouracil and 8-bromoadenine. Phys Chem Chem Phys. 2019 Jan 23; 21(4):1972-1979. PMID: 30633275.
      View in: PubMed
    6. Burrage LC, Thistlethwaite L, Stroup BM, Sun Q, Miller MJ, Nagamani SCS, Craigen W, Scaglia F, Sutton VR, Graham B, Kennedy AD, Milosavljevic A, Lee BH, Elsea SH. Untargeted metabolomic profiling reveals multiple pathway perturbations and new clinical biomarkers in urea cycle disorders. Genet Med. 2019 Jan 23. PMID: 30670878.
      View in: PubMed
    7. Carrero I, Liu HC, Sikora AG, Milosavljevic A. Histoepigenetic analysis of HPV- and tobacco-associated head and neck cancer identifies both subtype-specific and common therapeutic targets despite divergent microenvironments. Oncogene. 2019 Jan 17. PMID: 30655605.
      View in: PubMed
    8. Dolman L, Page A, Babb L, Freimuth RR, Arachchi H, Bizon C, Brush M, Fiume M, Haendel M, Hansen DP, Milosavljevic A, Patel RY, Pawliczek P, Yates AD, Rehm HL. ClinGen advancing genomic data-sharing standards as a GA4GH driver project. Hum Mutat. 2018 Nov; 39(11):1686-1689. PMID: 30311379.
      View in: PubMed
    9. Pawliczek P, Patel RY, Ashmore LR, Jackson AR, Bizon C, Nelson T, Powell B, Freimuth RR, Strande N, Shah N, Paithankar S, Wright MW, Dwight S, Zhen J, Landrum M, McGarvey P, Babb L, Plon SE, Milosavljevic A. ClinGen Allele Registry links information about genetic variants. Hum Mutat. 2018 Nov; 39(11):1690-1701. PMID: 30311374.
      View in: PubMed
    10. Webber EM, Hunter JE, Biesecker LG, Buchanan AH, Clarke EV, Currey E, Dagan-Rosenfeld O, Lee K, Lindor NM, Martin CL, Milosavljevic A, Mittendorf KF, Muessig KR, O'Daniel JM, Patel RY, Ramos EM, Rego S, Slavotinek AM, Sobriera NLM, Weaver MA, Williams MS, Evans JP, Goddard KAB. Evidence-based assessments of clinical actionability in the context of secondary findings: Updates from ClinGen's Actionability Working Group. Hum Mutat. 2018 Nov; 39(11):1677-1685. PMID: 30311382.
      View in: PubMed
    11. Forbes R, De Fanis A, Bomme C, Rolles D, Pratt ST, Powis I, Besley NA, Simon M, Nandi S, Milosavljevic AR, Nicolas C, Bozek JD, Underwood JG, Holland DMP. Photoionization of the iodine 3d, 4s, and 4p orbitals in methyl iodide. J Chem Phys. 2018 Oct 14; 149(14):144302. PMID: 30316287.
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    12. Forbes R, De Fanis A, Bomme C, Rolles D, Pratt ST, Powis I, Besley NA, Nandi S, Milosavljevic AR, Nicolas C, Bozek JD, Underwood JG, Holland DMP. Auger electron angular distributions following excitation or ionization of the I 3d level in methyl iodide. J Chem Phys. 2018 Sep 07; 149(9):094304. PMID: 30195315.
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    13. Onuchic V, Lurie E, Carrero I, Pawliczek P, Patel RY, Rozowsky J, Galeev T, Huang Z, Altshuler RC, Zhang Z, Harris RA, Coarfa C, Ashmore L, Bertol JW, Fakhouri WD, Yu F, Kellis M, Gerstein M, Milosavljevic A. Allele-specific epigenome maps reveal sequence-dependent stochastic switching at regulatory loci. Science. 2018 09 28; 361(6409). PMID: 30139913.
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    14. Milosavljevic AR, Božanic DK, Sadhu S, Vukmirovic N, Dojcilovic R, Sapkota P, Huang W, Bozek J, Nicolas C, Nahon L, Ptasinska S. Electronic Properties of Free-Standing Surfactant-Capped Lead Halide Perovskite Nanocrystals Isolated in Vacuo. J Phys Chem Lett. 2018 Jul 05; 9(13):3604-3611. PMID: 29902010.
      View in: PubMed
    15. Milosavljevic AR, Rousseau P, Domaracka A, Huber BA, Giuliani A. Multiple electron capture from isolated protein poly-anions in collision with slow highly charged ions. Phys Chem Chem Phys. 2017 Aug 02; 19(30):19691-19698. PMID: 28524199.
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    16. Patel RY, Shah N, Jackson AR, Ghosh R, Pawliczek P, Paithankar S, Baker A, Riehle K, Chen H, Milosavljevic S, Bizon C, Rynearson S, Nelson T, Jarvik GP, Rehm HL, Harrison SM, Azzariti D, Powell B, Babb L, Plon SE, Milosavljevic A. ClinGen Pathogenicity Calculator: a configurable system for assessing pathogenicity of genetic variants. Genome Med. 2017 01 12; 9(1):3. PMID: 28081714.
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    17. Onuchic V, Hartmaier RJ, Boone DN, Samuels ML, Patel RY, White WM, Garovic VD, Oesterreich S, Roth ME, Lee AV, Milosavljevic A. Epigenomic Deconvolution of Breast Tumors Reveals Metabolic Coupling between Constituent Cell Types. Cell Rep. 2016 11 15; 17(8):2075-2086. PMID: 27851969.
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    18. Heale BS, Overby CL, Del Fiol G, Rubinstein WS, Maglott DR, Nelson TH, Milosavljevic A, Martin CL, Goehringer SR, Freimuth R, Williams MS. Integrating Genomic Resources with Electronic Health Records using the HL7 Infobutton Standard. Appl Clin Inform. 2016 08 31; 7(3):817-31. PMID: 27579472.
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    19. Amendola LM, Jarvik GP, Leo MC, McLaughlin HM, Akkari Y, Amaral MD, Berg JS, Biswas S, Bowling KM, Conlin LK, Cooper GM, Dorschner MO, Dulik MC, Ghazani AA, Ghosh R, Green RC, Hart R, Horton C, Johnston JJ, Lebo MS, Milosavljevic A, Ou J, Pak CM, Patel RY, Punj S, Richards CS, Salama J, Strande NT, Yang Y, Plon SE, Biesecker LG, Rehm HL. Performance of ACMG-AMP Variant-Interpretation Guidelines among Nine Laboratories in the Clinical Sequencing Exploratory Research Consortium. Am J Hum Genet. 2016 07 07; 99(1):247. PMID: 27392081.
      View in: PubMed
    20. Amendola LM, Jarvik GP, Leo MC, McLaughlin HM, Akkari Y, Amaral MD, Berg JS, Biswas S, Bowling KM, Conlin LK, Cooper GM, Dorschner MO, Dulik MC, Ghazani AA, Ghosh R, Green RC, Hart R, Horton C, Johnston JJ, Lebo MS, Milosavljevic A, Ou J, Pak CM, Patel RY, Punj S, Richards CS, Salama J, Strande NT, Yang Y, Plon SE, Biesecker LG, Rehm HL. Performance of ACMG-AMP Variant-Interpretation Guidelines among Nine Laboratories in the Clinical Sequencing Exploratory Research Consortium. Am J Hum Genet. 2016 06 02; 98(6):1067-1076. PMID: 27181684.
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    21. Dojcilovic R, Pajovic JD, Božanic DK, Vodnik VV, Dimitrijevic-Brankovic S, Milosavljevic AR, Kašcàkovà S, Réfrégiers M, Djokovic V. A fluorescent nanoprobe for single bacterium tracking: functionalization of silver nanoparticles with tryptophan to probe the nanoparticle accumulation with single cell resolution. Analyst. 2016 Mar 21; 141(6):1988-96. PMID: 26858997.
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    22. Rankovic MLj, Canon F, Nahon L, Giuliani A, Milosavljevic AR. VUV action spectroscopy of protonated leucine-enkephalin peptide in the 6-14 eV range. J Chem Phys. 2015 Dec 28; 143(24):244311. PMID: 26723675.
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    23. Overby CL, Heale B, Aronson S, Cherry JM, Dwight S, Milosavljevic A, Nelson T, Niehaus A, Weaver MA, Ramos EM, Williams MS. Providing Access to Genomic Variant Knowledge in a Healthcare Setting: A Vision for the ClinGen Electronic Health Records Workgroup. Clin Pharmacol Ther. 2016 Feb; 99(2):157-60. PMID: 26418054.
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    24. Vogel S, Rackwitz J, Schürman R, Prinz J, Milosavljevic AR, Réfrégiers M, Giuliani A, Bald I. Using DNA origami nanostructures to determine absolute cross sections for UV photon-induced DNA strand breakage. J Phys Chem Lett. 2015 Nov 19; 6(22):4589-93. PMID: 26536162.
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    25. Canon F, Milosavljevic AR, Nahon L, Giuliani A. Action spectroscopy of a protonated peptide in the ultraviolet range. Phys Chem Chem Phys. 2015 Oct 21; 17(39):25725-33. PMID: 25586594.
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    26. Subramanian SL, Kitchen RR, Alexander R, Carter BS, Cheung KH, Laurent LC, Pico A, Roberts LR, Roth ME, Rozowsky JS, Su AI, Gerstein MB, Milosavljevic A. Integration of extracellular RNA profiling data using metadata, biomedical ontologies and Linked Data technologies. J Extracell Vesicles. 2015; 4:27497. PMID: 26320941.
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    27. Pajovic JD, Dojcilovic R, Božanic DK, Kašcáková S, Réfrégiers M, Dimitrijevic-Brankovic S, Vodnik VV, Milosavljevic AR, Piscopiello E, Luyt AS, Djokovic V. Tryptophan-functionalized gold nanoparticles for deep UV imaging of microbial cells. Colloids Surf B Biointerfaces. 2015 Nov 01; 135:742-50. PMID: 26340364.
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    28. Kannan K, Coarfa C, Chao PW, Luo L, Wang Y, Brinegar AE, Hawkins SM, Milosavljevic A, Matzuk MM, Yen L. 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 17; 112(11):E1272-7. PMID: 25733895.
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    29. Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, Sarkar A, Quon G, Sandstrom RS, Eaton ML, Wu YC, Pfenning AR, Wang X, Claussnitzer M, Liu Y, Coarfa C, Harris RA, Shoresh N, Epstein CB, Gjoneska E, Leung D, Xie W, Hawkins RD, Lister R, Hong C, Gascard P, Mungall AJ, Moore R, Chuah E, Tam A, Canfield TK, Hansen RS, Kaul R, Sabo PJ, Bansal MS, Carles A, Dixon JR, Farh KH, Feizi S, Karlic R, Kim AR, Kulkarni A, Li D, Lowdon R, Elliott G, Mercer TR, Neph SJ, Onuchic V, Polak P, Rajagopal N, Ray P, Sallari RC, Siebenthall KT, Sinnott-Armstrong NA, Stevens M, Thurman RE, Wu J, Zhang B, Zhou X, Beaudet AE, Boyer LA, De Jager PL, Farnham PJ, Fisher SJ, Haussler D, Jones SJ, Li W, Marra MA, McManus MT, Sunyaev S, Thomson JA, Tlsty TD, Tsai LH, Wang W, Waterland RA, Zhang MQ, Chadwick LH, Bernstein BE, Costello JF, Ecker JR, Hirst M, Meissner A, Milosavljevic A, Ren B, Stamatoyannopoulos JA, Wang T, Kellis M. Integrative analysis of 111 reference human epigenomes. Nature. 2015 Feb 19; 518(7539):317-30. PMID: 25693563.
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    30. Amin V, Harris RA, Onuchic V, Jackson AR, Charnecki T, Paithankar S, Lakshmi Subramanian S, Riehle K, Coarfa C, Milosavljevic A. Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs. Nat Commun. 2015 Feb 18; 6:6370. PMID: 25691256.
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    31. Elliott G, Hong C, Xing X, Zhou X, Li D, Coarfa C, Bell RJ, Maire CL, Ligon KL, Sigaroudinia M, Gascard P, Tlsty TD, Harris RA, Schalkwyk LC, Bilenky M, Mill J, Farnham PJ, Kellis M, Marra MA, Milosavljevic A, Hirst M, Stormo GD, Wang T, Costello JF. Intermediate DNA methylation is a conserved signature of genome regulation. Nat Commun. 2015 Feb 18; 6:6363. PMID: 25691127.
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    32. Coarfa C, Pichot C, Jackson A, Tandon A, Amin V, Raghuraman S, Paithankar S, Lee AV, McGuire SE, Milosavljevic A. Analysis of interactions between the epigenome and structural mutability of the genome using Genboree Workbench tools. BMC Bioinformatics. 2014; 15 Suppl 7:S2. PMID: 25080362.
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    33. Milosavljevic AR, Cerovski VZ, Canon F, Rankovic MLj, Škoro N, Nahon L, Giuliani A. Energy-Dependent UV Photodissociation of Gas-Phase Adenosine Monophosphate Nucleotide Ions: The Role of a Single Solvent Molecule. J Phys Chem Lett. 2014 Jun 05; 5(11):1994-9. PMID: 26273885.
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    34. Ma J, Coarfa C, Qin X, Bonnen PE, Milosavljevic A, Versalovic J, Aagaard K. mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities. BMC Genomics. 2014 Apr 03; 15:257. PMID: 24694284.
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    35. Kannan K, Coarfa C, Rajapakshe K, Hawkins SM, Matzuk MM, Milosavljevic A, Yen L. CDKN2D-WDFY2 is a cancer-specific fusion gene recurrent in high-grade serous ovarian carcinoma. PLoS Genet. 2014 Mar; 10(3):e1004216. PMID: 24675677.
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    36. Kunde-Ramamoorthy G, Coarfa C, Laritsky E, Kessler NJ, Harris RA, Xu M, Chen R, Shen L, Milosavljevic A, Waterland RA. Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing. Nucleic Acids Res. 2014 Apr; 42(6):e43. PMID: 24391148.
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    37. Giuliani A, Milosavljevic AR, Canon F, Nahon L. Contribution of synchrotron radiation to photoactivation studies of biomolecular ions in the gas phase. Mass Spectrom Rev. 2014 Nov-Dec; 33(6):424-41. PMID: 24375654.
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    38. Michels KB, Binder AM, Dedeurwaerder S, Epstein CB, Greally JM, Gut I, Houseman EA, Izzi B, Kelsey KT, Meissner A, Milosavljevic A, Siegmund KD, Bock C, Irizarry RA. Recommendations for the design and analysis of epigenome-wide association studies. Nat Methods. 2013 Oct; 10(10):949-55. PMID: 24076989.
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    39. Dittwald P, Gambin T, Szafranski P, Li J, Amato S, Divon MY, Rodríguez Rojas LX, Elton LE, Scott DA, Schaaf CP, Torres-Martinez W, Stevens AK, Rosenfeld JA, Agadi S, Francis D, Kang SH, Breman A, Lalani SR, Bacino CA, Bi W, Milosavljevic A, Beaudet AL, Patel A, Shaw CA, Lupski JR, Gambin A, Cheung SW, Stankiewicz P. NAHR-mediated copy-number variants in a clinical population: mechanistic insights into both genomic disorders and Mendelizing traits. Genome Res. 2013 Sep; 23(9):1395-409. PMID: 23657883.
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    40. Wu CC, Kannan K, Lin S, Yen L, Milosavljevic A. Identification of cancer fusion drivers using network fusion centrality. Bioinformatics. 2013 May 01; 29(9):1174-81. PMID: 23505294.
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    41. Harris RA, Shaw C, Li J, Cheung SW, Coarfa C, Jeong M, Goodell MA, White LD, Patel A, Kang SH, Chinault AC, Gambin T, Gambin A, Lupski JR, Milosavljevic A. Confounding by repetitive elements and CpG islands does not explain the association between hypomethylation and genomic instability. PLoS Genet. 2013; 9(2):e1003333. PMID: 23468659.
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    42. Evani US, Challis D, Yu J, Jackson AR, Paithankar S, Bainbridge MN, Jakkamsetti A, Pham P, Coarfa C, Milosavljevic A, Yu F. Atlas2 Cloud: a framework for personal genome analysis in the cloud. BMC Genomics. 2012; 13 Suppl 6:S19. PMID: 23134663.
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    43. Nielsen CB, Younesy H, O'Geen H, Xu X, Jackson AR, Milosavljevic A, Wang T, Costello JF, Hirst M, Farnham PJ, Jones SJ. Spark: a navigational paradigm for genomic data exploration. Genome Res. 2012 Nov; 22(11):2262-9. PMID: 22960372.
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    44. Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, Gerstein M, Gertz J, Hartemink AJ, Hoffman MM, Iyer VR, Jung YL, Karmakar S, Kellis M, Kharchenko PV, Li Q, Liu T, Liu XS, Ma L, Milosavljevic A, Myers RM, Park PJ, Pazin MJ, Perry MD, Raha D, Reddy TE, Rozowsky J, Shoresh N, Sidow A, Slattery M, Stamatoyannopoulos JA, Tolstorukov MY, White KP, Xi S, Farnham PJ, Lieb JD, Wold BJ, Snyder M. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res. 2012 Sep; 22(9):1813-31. PMID: 22955991.
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    45. Riehle K, Coarfa C, Jackson A, Ma J, Tandon A, Paithankar S, Raghuraman S, Mistretta TA, Saulnier D, Raza S, Diaz MA, Shulman R, Aagaard K, Versalovic J, Milosavljevic A. The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences. BMC Bioinformatics. 2012; 13 Suppl 13:S11. PMID: 23320832.
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    46. Davies MN, Volta M, Pidsley R, Lunnon K, Dixit A, Lovestone S, Coarfa C, Harris RA, Milosavljevic A, Troakes C, Al-Sarraj S, Dobson R, Schalkwyk LC, Mill J. Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood. Genome Biol. 2012 Jun 15; 13(6):R43. PMID: 22703893.
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    47. Aagaard K, Riehle K, Ma J, Segata N, Mistretta TA, Coarfa C, Raza S, Rosenbaum S, Van den Veyver I, Milosavljevic A, Gevers D, Huttenhower C, Petrosino J, Versalovic J. A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy. PLoS One. 2012; 7(6):e36466. PMID: 22719832.
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    48. Li J, Harris RA, Cheung SW, Coarfa C, Jeong M, Goodell MA, White LD, Patel A, Kang SH, Shaw C, Chinault AC, Gambin T, Gambin A, Lupski JR, Milosavljevic A. Genomic hypomethylation in the human germline associates with selective structural mutability in the human genome. PLoS Genet. 2012; 8(5):e1002692. PMID: 22615578.
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    49. Carbone L, Harris RA, Mootnick AR, Milosavljevic A, Martin DI, Rocchi M, Capozzi O, Archidiacono N, Konkel MK, Walker JA, Batzer MA, de Jong PJ. Centromere remodeling in Hoolock leuconedys (Hylobatidae) by a new transposable element unique to the gibbons. Genome Biol Evol. 2012; 4(7):648-58. PMID: 22593550.
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    50. Milosavljevic AR, Canon F, Nicolas C, Miron C, Nahon L, Giuliani A. Gas-Phase Protein Inner-Shell Spectroscopy by Coupling an Ion Trap with a Soft X-ray Beamline. J Phys Chem Lett. 2012 May 03; 3(9):1191-6. PMID: 26288054.
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    51. Challis D, Yu J, Evani US, Jackson AR, Paithankar S, Coarfa C, Milosavljevic A, Gibbs RA, Yu F. An integrative variant analysis suite for whole exome next-generation sequencing data. BMC Bioinformatics. 2012 Jan 12; 13:8. PMID: 22239737.
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    52. Celestino-Soper PB, Shaw CA, Sanders SJ, Li J, Murtha MT, Ercan-Sencicek AG, Davis L, Thomson S, Gambin T, Chinault AC, Ou Z, German JR, Milosavljevic A, Sutcliffe JS, Cook EH, Stankiewicz P, State MW, Beaudet AL. Use of array CGH to detect exonic copy number variants throughout the genome in autism families detects a novel deletion in TMLHE. Hum Mol Genet. 2011 Nov 15; 20(22):4360-70. PMID: 21865298.
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    53. Hampton OA, Koriabine M, Miller CA, Coarfa C, Li J, Den Hollander P, Schoenherr C, Carbone L, Nefedov M, Ten Hallers BF, Lee AV, De Jong PJ, Milosavljevic A. Long-range massively parallel mate pair sequencing detects distinct mutations and similar patterns of structural mutability in two breast cancer cell lines. Cancer Genet. 2011 Aug; 204(8):447-57. PMID: 21962895.
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    54. Milosavljevic AR, Nicolas C, Lemaire J, Dehon C, Thissen R, Bizau JM, Réfrégiers M, Nahon L, Giuliani A. Photoionization of a protein isolated in vacuo. Phys Chem Chem Phys. 2011 Sep 14; 13(34):15432-6. PMID: 21766124.
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    55. Saulnier DM, Riehle K, Mistretta TA, Diaz MA, Mandal D, Raza S, Weidler EM, Qin X, Coarfa C, Milosavljevic A, Petrosino JF, Highlander S, Gibbs R, Lynch SV, Shulman RJ, Versalovic J. Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome. Gastroenterology. 2011 Nov; 141(5):1782-91. PMID: 21741921.
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    56. Fawcett GL, Raveendran M, Deiros DR, Chen D, Yu F, Harris RA, Ren Y, Muzny DM, Reid JG, Wheeler DA, Worley KC, Shelton SE, Kalin NH, Milosavljevic A, Gibbs R, Rogers J. Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta). BMC Genomics. 2011 Jun 13; 12:311. PMID: 21668978.
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    57. Gunaratne PH, Lin YC, Benham AL, Drnevich J, Coarfa C, Tennakoon JB, Creighton CJ, Kim JH, Milosavljevic A, Watson M, Griffiths-Jones S, Clayton DF. Song exposure regulates known and novel microRNAs in the zebra finch auditory forebrain. BMC Genomics. 2011 May 31; 12(1):277. PMID: 21627805.
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    58. Milosavljevic A. Emerging patterns of epigenomic variation. Trends Genet. 2011 Jun; 27(6):242-50. PMID: 21507501.
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    67. Shao L, Kang SH, Li J, Hixson P, Taylor J, Yatsenko SA, Shaw CA, Milosavljevic A, Chang CC, Cheung SW, Patel A. Array comparative genomic hybridization detects chromosomal abnormalities in hematological cancers that are not detected by conventional cytogenetics. J Mol Diagn. 2010 Sep; 12(5):670-9. PMID: 20724749.
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    87. Csurös M, Milosavljevic A. Pooled Genomic Indexing (PGI): analysis and design of experiments. J Comput Biol. 2004; 11(5):1001-21. PMID: 15700414.
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    89. Milosavljevic A. The economic value of bioinformation. Bioinformatics. 2000 Jul; 16(7):571-2. PMID: 11038327.
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    91. Milosavljevic A, Savkovic S, Crkvenjakov R, Salbego D, Serrato H, Kreuzer H, Gemmell A, Batus S, Grujic D, Carnahan S, Paunesku T, Tepavcevic J. DNA sequence recognition by hybridization to short oligomers: experimental verification of the method on the E. coli genome. Genomics. 1996 Oct 01; 37(1):77-86. PMID: 8921373.
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    95. Milosavljevic A. DNA sequence recognition by hybridization to short oligomers. J Comput Biol. 1995; 2(2):355-70. PMID: 7497133.
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    97. Milosavljevic A, Jurka J. Discovering simple DNA sequences by the algorithmic significance method. Comput Appl Biosci. 1993 Aug; 9(4):407-11. PMID: 8402207.
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    98. Jurka J, Kaplan DJ, Duncan CH, Walichiewicz J, Milosavljevic A, Murali G, Solus JF. Identification and characterization of new human medium reiteration frequency repeats. Nucleic Acids Res. 1993 Mar 11; 21(5):1273-9. PMID: 8464711.
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    99. Milosavljevic A. Discovering sequence similarity by the algorithmic significance method. Proc Int Conf Intell Syst Mol Biol. 1993; 1:284-91. PMID: 7584347.
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