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What’s New at the LMT

News

We are now located at the Advanced Technology Research Facility at NCI Riverside Research Park (8560 Progress Drive, Frederick, MD, 21701).  For shipping instructions, please click here.  If you would like to visit us, driving directions are here and there is also a shuttle service from Frederick National Lab to ATRF that runs several times a day.

The Illumina MiSeq: The Sequencing Facility and LMT have obtained a shared MiSeq for pilot, resequencing, and small genomics projects. For more information please contact Jennifer Troyer (301-312-9306) or Bao Tran (301-360-3460).
The Ion Torrent Personal Genome Machine (PGM): This benchtop instrument is now available for sequencing at the LMT. Applications include Ion AmpliSeq Cancer Hotspot Panel v2 and shotgun sequencing of small genomes.  For more information please contact Jennifer Troyer (301-312-9306).
HLA Typing NGS-based HLA typing is now available at the LMT.  This is a high resolution HLA typing panel using Roche 454 sequencing to produce reads compatible with Conexio Assign software.  Multiplexing of up to 40 samples is possible.  For more information please contact Jennifer Troyer (301-846-7478).
Target Enrichment and Library Preparation for Next Generation Sequencing Target Enrichment and Library Preparation for Next-Generation Sequencing are now available at the LMT.  Target enrichment assays are based the Agilent SureSelect whole-exome or targeted capture platforms.  Library preparation Illumina Hi-Seq and GAII sequencers with paired-end and multiplexed formats available. For more information please contact Kristen Pike (301-846-6897).

Recent Publications

Prabakaran P, Chen W, Singarayan MG, Stewart CC, Streaker E, Feng Y, Dimitrov DS: Expressed antibody repertoires in human cord blood cells: 454 sequencing and IMGT/HighV-QUEST analysis of germline gene usage, junctional diversity, and somatic mutations. Immunogenetics,2011.

Li M, He Y, Dubois W, Wu X, Shi J, Huang J: Distinct Regulatory Mechanisms and Functions for p53-Activated and p53-Repressed DNA Damage Response Genes in Embryonic Stem Cells. Mol Cell,2012.

An P, Li R, Wang JM, Yoshimura T, Takahashi M, Samudralal R, O’Brien SJ, Phair J, Goedert JJ, Kirk GD, Troyer JL, Sezgin E, Buchbinder SP, Donfield S, Nelson GW, Winkler CA: Role of exonic variation in chemokine receptor genes on AIDS: CCRL2 F167Y association with pneumocystis pneumonia. PLoS Genet, 7(10):e1002328, 2011.

Limou S, Delaneau O, van Manen D, An P, Sezgin E, Le Clerc S, Coulonges C, Troyer JL, Veldink JH, van den Berg LH, Spadoni JL, Taing L, Labib T, Montes M, Delfraissy JF, Schachter F, O’Brien SJ, Buchbinder S, van Natta ML, Jabs DA, Froguel P, Schuitemaker H, Winkler CA, Zagury JF: Multicohort genomewide association study reveals a new signal of protection against HIV-1 acquisition. J Infect Dis,2012.

Xiong Y, Zhang L, Holloway AK, Wu X, Su L, Kebebew E: MiR-886-3p regulates cell proliferation and migration, and is dysregulated in familial non-medullary thyroid cancer. PLoS One, 6(10):e24717, 2011.
Bradford PT, Goldstein AM, Tamura D, Khan SG, Ueda T, Boyle J, Oh KS, Imoto K, Inui H, Moriwaki SI, Emmert S, Pike KM, Raziuddin A, Plona TM, DiGiovanna JJ, Tucker MA, Kraemer KH: Cancer and neurologic degeneration in xeroderma pigmentosum: long term follow-up characterises the role of DNA repair. J Med Genet, 48(3):168-76, 2011.

Savage SA, Giri N, Jessop L, Pike K, Plona T, Burdett L, Alter BP: Sequence analysis of the shelterin telomere protection complex genes in dyskeratosis congenita. J Med Genet, 48(4):285-288, 2011.

Kuhns DB, Alvord WG, Heller T, Feld JJ, Pike KM, Marciano BE, Uzel G, DeRavin SS, Priel DA, Soule BP, Zarember KA, Malech HL, Holland SM, Gallin JI: Residual NADPH oxidase and survival in chronic granulomatous disease. N Engl J Med, 363(27):2600-2610, 2010.

Ferris AL, Wu X, Hughes CM, Stewart C, Smith SJ, Milne TA, Wang GG, Shun MC, Allis CD, Engelman A, Hughes SH: Lens epithelium-derived growth factor fusion proteins redirect HIV-1 DNA integration. Proc Natl Acad Sci USA, 16;107(7):3135-40, 2010.

Lee KH, Li M, Michalowski AM, Zhang X, Liao H, Chen L, Xu Y, Wu X, Huang J: A genomewide study identifies the Wnt signaling pathway as a major target of p53 in murine embryonic stem cells. Proc Natl Acad Sci USA, 107(1):69-74, 2010.

Sotelo J, Esposito D, Duhagon MA, Banfield K, Mehalko J, Liao H, Stephens RM, Harris TJ, Munroe DJ, Wu X: Long-range enhancers on 8q24 regulate c-Myc. Proc Natl Acad Sci U S A, 2010.

Huang X, Guo H, Tammana S, Jung YC, Mellgren E, Bassi P, Cao Q, Tu ZJ, Kim YC, Ekker SC, Wu X, Wang SM, Zhou X: Gene Transfer Efficiency and Genome-Wide Integration Profiling of Sleeping Beauty, Tol2, and PiggyBac Transposons in Human Primary T Cells. Mol Ther, 18(10):1803-1813, 2010.

Page last updated May 21, 2013 @ 11:18 am