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Publications List

  1. Jiang Y, Xie M, Chen W, Talbot R, Maddox JF, Faraut T, Wu C, Muzny DM, Li Y, Zhang W, Stanton JA, Brauning R, Barris WC, Hourlier T, Aken BL, Searle SM, Adelson DL, Bian C, Cam GR, Chen Y, Cheng S, DeSilva U, Dixen K, Dong Y, Fan G, Franklin IR, Fu S, Fuentes-Utrilla P, Guan R, Highland MA, Holder ME, Huang G, Ingham AB, Jhangiani SN, Kalra D, Kovar CL, Lee SL, Liu W, Liu X, Lu C, Lv T, Mathew T, McWilliam S, Menzies M, Pan S, Robelin D, Servin B, Townley D, Wang W, Wei B, White SN, Yang X, Ye C, Yue Y, Zeng P, Zhou Q, Hansen JB, Kristiansen K, Gibbs RA, Flicek P, Warkup CC, Jones HE, Oddy VH, Nicholas FW, McEwan JC, Kijas JW, Wang J, Worley KC, Archibald AL, Cockett N, Xu X, Wang W, Dalrymple BP. (2014) The sheep genome illuminates biology of the rumen and lipid metabolism. Science. 2014 Jun 6;344(6188):1168-73. doi: 10.1126/science.1252806.
  2. Gagliardi L, Schreiber AW, Hahn CN, Feng J, Cranston T, Boon H, Hotu C, Oftedal BE, Cutfield R, Adelson DL, Braund WJ, Gordon RD, Rees DA, Grossman AB, Torpy DJ, Scott HS.(2014) ARMC5 mutations are common in familial bilateral macronodular adrenal hyperplasia. J Clin Endocrinol Metab. 2014 Jun 6:jc20141265.
  3. Wang D, Qu ZAdelson DL, Zhu JK, Timmis JN. (2014) Transcription of nuclear organellar DNA in a model plant system. Genome Biol Evol. 2014 May 27;6(6):1327-34. doi: 10.1093/gbe/evu111.
  4. Buckley RM, Adelson DL (2014) Mammalian genome evolution as a result of epigenetic regulation of transposable elements. Biomolecular Concepts. 5(3):183–194, DOI: 10.1515/bmc-2014-0013
  5. Fruzangohar M, Ebrahimie E, Adelson DL (2014) Application of Global Transcriptome Data in Gene Ontology Classification and Construction of a Gene Ontology Interaction Network. bioRxiv doi: http://dx.doi.org/10.1101/004911
  6. Kortschak RD, Adelson DL (2014) biogo: a simple high-performance bioinformatics toolkit for the Go language. bioRxiv doi: http://dx.doi.org/10.1101/005033
  7. Ghosh S, Qu Z, Das PJ, Fang E, Juras R, Cothran EG, McDonell S, Kenney DG, Lear T, Adelson DL, Chowdhary BP, Raudsepp T (2014) Genomic copy number variation in normal equine populations and in horses with XY disorders of sexual development. PLoS Genetics, 10(10): e1004712. doi:10.1371/journal. pgen.1004712
  8. Mahdi LK, Deihimi T, Zamansani F, Fruzangohar M, Adelson DL, Paton JC, Ogunniyi AD, Ebrahimie E. (2014). A functional genomics catalogue of activated transcription factors during pathogenesis of pneumococcal disease. BMC Genomics 15:769.
  9. Lim, Sl, Kortschak, RD and Adelson, DL (2014) Discovery of a novel long terminal repeat (LTR2i_SS) in Sus Scrofa.  Animal Genetics 45(3):367-372. doi: 10.1111/age.12138. Epub 2014 Mar 12.
  10. Ebrahimi M, Aghagolzadeh P, Shamabadi N, Tahmasebi A, Alsharifi M, Adelson DL, Hemmatzadeh F, Ebrahimie E. (2014) Understanding the underlying mechanism of HA-subtyping in the level of physic-chemical characteristics of protein. PLoS One. 2014 May 8;9(5):e96984. doi: 10.1371/journal.pone.0096984.
  11. Bellone, RR, Holl, H, Setaluri, V, Devi, S, Maddodi, N, Archer, S, Sandmeyer, L, Ludwig, A, Foerster, D, Pruvost, M, Reissmann, M, Bortfeldt, R, Adelson, DL, Lim, SL, Nelson, J, Haase, B, Engensteiner, M, Leeb, T, Forsyth, G, Mienaltowski, MJ, Hofreiter, M, Paijmans, JLA, Gonzalez-Fortes, G, Grahn, B, Brooks, SA (2013) LTR Driven Premature Poly-adenylation in TRPM1 Causes Congenital Stationary Night Blindness and Leopard Complex Spotting in Horse: An Ancient Example of Balancing Selection. PLoS ONE 8(10):e78280. doi: 10.1371/journal.pone.0078280.
  12. Fruzangohar, M, Kroeger, T, Adelson DL. (2013) Improved Part-of-Speech Tagging for Biological Articles using a Novel Suffix Analysis Method. PloS ONE 8(10):e76042. doi: 10.1371/journal.pone.0076042.
  13. Mahdi, LK, Ebrahimie, E, Adelson, DL, Paton, JC, Ogunniyi, AD (2013) A Transcriptional Factor Contributes to Pathogenesis and Virulence in Streptococcus pneumonia. PLoS ONE 8(8):e70862. doi: 10.1371/journal.pone.0070862.
  14. Alanazi, I, Ebrahimie, E, Hoffmann, P, Adelson, DL. (2013) Combined gene expression and proteomic analysis of EGF induced apoptosis in A431 cells suggests multiple pathways trigger apoptosis. Apoptosis, (DOI) 10.1007/s10495-013-0887-6
  15. Alanazi, I, Ebrahimie, E, Hoffmann, P, Adelson, DL. (2013) Combined gene expression and proteomic analysis of EGF induced apoptosis in A431 cells suggests multiple pathways trigger apoptosis. Apoptosis, (DOI) 10.1007/s10495-013-0887-6
  16. Fruzangohar M, Ebrahimie E, Ogunniyi AD, Mahdi LK, Paton JC, Adelson DL (2013) Comparative GO: a web application for comparative gene ontology and gene ontology-based gene selection in bacteria. PLoS ONE 8(3):e58759. doi: 10.1371/journal.pone.0058759.
  17. Walsh, A Kortschak RD, Gardner MG, Bertozzi T, Adelson DL (2013), Widespread horizontal transfer of Retrotransposons, Proc Natl Acad Sci published ahead of print December 31, 2012,doi:10.1073/pnas.1205856110.
  18. Qu Z, Adelson DL (2012) Identification And Comparative Analysis Of ncRNAs In Human, Mouse And Zebrafish Indicate A Conserved Role In Regulation Of Genes Expressed In Brain. PLoS ONE 7(12): e52275. doi:10.1371/journal.pone.0052275
  19. Qu Z, Adelson DL (2012) Evolutionary conservation and functional roles of ncRNA. Front. Gene., doi: 10.3389/fgene.2012.00205
  20. Qu Z, Adelson DL (2012) Bovine ncRNAs Are Abundant, Primarily Intergenic, Conserved and Associated with Regulatory Genes. PLoS ONE 7(8): e42638. doi:10.1371/journal.pone.0042638
  21. Vidale P, Piras FM, Nergadze FG, Bertoni L, Verini-Supplizi A, Adelson D, Guerin G and Giulotto E (2011) Chromosomal Assignment of Six Genes (EIF4G3, HSP90, RBBP6, IL8, TERT, and TERC) in Four Species of the Genus Equus. Animal Biotechnology, 22: 119–123.
  22. Ling, KH, Brautigan, PJ, Hahn, CH, Daish, T, Rayner, JR, Cheah, PS, Raison, JM, Piltz, S, Mann, JR, Mattiske, DM, Thomas, PQ, Adelson, DL and Scott, HS (2011) Deep sequencing analysis of the developing mouse brain reveals a novel microRNA BMC Genomics, 12:176.
  23. Appels, R, Adelson, DL, Moolhuijzen, P, Webster, R, Barrero, R, and Bellgard, M (2011) Genome studies at the PAG 2011 conference Funct Integr Genomics, 11:1-11.
  24. Childers, C, Reese, J, Jaideep, S, Vile, D, Dickens, C, Childs, K, Salih, H, Bennett, A, Hagen D, Adelson, D, Elsik, C. (2010) Bovine Genome Database: Integrated Tools for Genome Annotation and Discovery. Nucleic Acids Research 39(1): 830-834.
  25. Adelson DL, Rayson JM, Edgar RC (2010) Characterization and Distribution of Retrotransposons and Simple Sequence Repeats In The Equine Genome. Animal Genetics 41 (Suppl. 2):91–99. doi:10.1111/j.1365-2052.2010.02115.x
  26. Rios JJ, Fleming JG, Bryant UK, Carter CN, Huber JC, Long MT, Spencer TE, Adelson DL (2010) OAS1 and RNASEL Polymorphisms Are Associated With Susceptibility To West Nile Encephalitis In Horses. PLoS ONE 5(5): e10537. doi:10.1371/journal.pone.0010537.
  27. Wade CM, Giulotto E, Sigurdsson S, Zoli M, Gnerre S, Imsland F, Lear T, Adelson DL, Penedo MCT , Bellone RR, Bailey E, Mauceli E, Garber M, MacLeod JN, Sharpe T, Vogel J, Andersson L, Antczak DF, Biagi T, Binns MM, Blöcker H, Chowdhary BP, Coleman SJ, Della Valle G, Distl O, Edgar RC, Fryc S, Guérin G, Hasegawa T, Hill EW, Jurka J, Kiialainen A, Leeb T, Lindgren G, Liu J, Magnani E, Mickelson JR, Murray J, Nergadze SG, Onofrio R, Pedroni S, Piras MF, Raison J, Raudsepp T, Rocchi M, Røed KH, Ryder O, Searle S, Skow L, Swinburne JE, Syvänen AC, Tozaki T, Valberg SJ, Vaudin M, White JS, Zody MC, Broad Institute Genome Sequencing Platform, Broad Institute Whole Genome Assembly Team, Lander ES, and Lindblad-Toh K (2009) Genome sequence, comparative analysis and population genetics of the domestic horse. Science 326(5954):865-7.
  28. Adelson DL, Raison JM, Edgar RC (2009) Characterization and Distribution of Retro-transposons and Simple Sequence Repeats in the Bovine Genome. Proc Natl Acad Sci 106(31), pp.12855-60.
  29. Bovine Genome Sequencing Consortium (2009) The Genome Sequence of Taurine Cattle: A window to ruminant biology and evolution. Science 324(5926):522-8
  30. Salih H, Adelson DL (2009) QTL Global Meta-Analysis: Are Trait Determining Genes Clustered? BMC Genomics 10(1):184.
  31. Satterfield C, Song G, Kochan K, Riggs P, Simmons R, Elsik C, Adelson DL, Bazer FW, Zhou H, and Spencer TE (2009) Discovery of candidate genes in the endometrium regulating ovine blastocyst growth and conceptus elongat. Physiol. Genomics 39(2):85-99.
  32. Adelson DL (2008) Insights and applications from sequencing the bovine genome. Reprod Fertil Dev. 20(1):54-60.
  33. Brooks SA, Lear TL, Adelson DL, Bailey E. (2007) A chromosome inversion near the KIT gene and the Tobiano spotting pattern in horses. Cytogent. Genome. Res. 119(3-4):225-30.
  34. Seabury CM, Womack JE, Gill CA, Dyar JB, Templeton JW, Adelson DL, Owens KE, Derr JN, Kraemer DC (2007) Detection of Single Nucleotide Polymorphisms and Evidence for Linkage Disequilibrium Within the Putative Rocky Mountain Elk (Cervus elaphus nelson) PRNP Promoter. J. Hered. 98(7):-67886
  35. Lewis, S.K., Farmer, J. L., Burghardt, R. C., Newton, G. R., Johnson, G. A., Adelson,D. L., Bazer, F. W. and Spencer, T. E. (2007). Galectin 15 (LGALS15): A Gene Uniquely Expressed in the Uteri of Sheep and Goats that Functions in Trophoblast Attachment. Biol Reprod. 77(6):1027-36.
  36. Rios, J.J., Perelygin, A.A., Long, M.T., Lear, T.L., Zharkihkh, A.A., Brinton, M.A. and D.L. Adelson (2007) Characterization of the equine 2’-5’ oligoadenylate synthetase 1 (OAS1) and ribonuclease L (RNASEL)innate immunity genes. BMC Genomics, 8(1):313.
  37. Snelling WM, Chiu R, Schein JE, Hobbs M, Abbey CA, Adelson D.L., Aerts J, Bennett GL, Bosdet IE, Boussaha M, Brauning R, Caetano AR, Costa MM, Crawford AM, Dalyrmple BP, Eggen A, Everts-van der Wind A, Floriot S, Gautier M, Gill CA, Green RD, Holt R, Jann O, Jones SJ, de Jong PJ, Kappes SM, Keele JW, Larkin DM, Lewin HA, McEwan JC, McKay S, Marra MA, Mathewson CA, Matukumalli LK, Moore SS, Murdoch B, Nicholas F, Osoegawa K, Roy A, Salih H, Schibler L, Schnabel R, Silveri L, Skow LC, Smith TP, Sonstegard TS, Taylor J, Tellam R, Van Tassell CP, Williams JL, Womack JE, Wye NH, Yang G, Zhao S (2007) A physical map of the bovine genome. Genome Biol., 8(8):R165.
  38. Wunderlich KR, Abbey CA, Clayton DR, Song Y, Schein JE, Georges M, Coppieters W, Adelson D.L., Taylor JF, Davis SL, Gill CA. A 2.5-Mb contig constructed from Angus, Longhorn and horned Hereford DNA spanning the polled interval on bovine chromosome 1. Anim Genet. 2006 37, 592-4.
  39. Murphy, B.A., Lear, T.L., Adelson, D.L. and Fitzgerald, B.P. (2007) Chromosomal assignments and sequence data for the equine core circadian clock genes. Anim Genet. 38, 84-5.
  40. Polineni, P., Aragonda, P., Xavier, S.R., Furuta, R. and Adelson, D.L. (2006) The Bovine QTL Viewer: a Web Accessible Database of Bovine Quantitative Trait Loci. BMC Bioinformatics 7, 283.
  41. Bellone, R., Lear, T., Adelson, D.L. and Bailey, E. (2006) Comparative mapping of oculocutaneous albinism type II (OCA2), transient receptor potential cation channel, subfamily M member 1 (TRPM1 ) and two equine microsatellites, ASB08 and 1CA43 , among four equid species by fluorescence in situ hybridization. Cytogenet. Genome Res. 114:93A.
  42. Gray, C.A., Abbey, C.A., Beremand, P.D., Choi, Y., Farmer, J.L., Adelson, D.L., Thomas, T.L., Bazer, F.W. and Spencer, T.E. (2006) Identification of Endometrial Genes Regulated by Early Pregnancy, Progesterone and Interferon Tau in the Ovine Uterus1. Biol Reprod. 74(2): pp. 383-394.
  43. Nergadze, S.G., Magnani, E., Attolini, C., Bertoni, L., Adelson, D.L., Capelli, K., Verini Supplizi, A. and Giulotto, E. (2006) Assignment of the Equus caballus interleukin 8 gene to chromosome 3q14.2-14.3 by in situ hybridization. Cytogenet Genome Res 112:p341B.
  44. Wang, J., Adelson, D.L., Yilmaz, A., Sze, S.H., Jin, Y. and Zhu, J.J. (2005) Genomic Organization, Annotation, and Ligand-Receptor Inferences of Chicken Chemokines and Chemokine Receptor Genes Based on Comparative Genomics. BMG Genomics 6, p.45.
  45. Dunlap, K.A., Palmarini, M., Adelson, D.L. and Spencer, T.E. (2005) Sheep Endogenous Betaretroviruses (enJSRVs) and the Hyaluronidase 2 (Hyal2) Receptor in the Ovine Uterus and Conceptus During Pregnancy. Biol. Reprod. 73, pp.271-9.
  46. Yilmaz, A., Shen, S., Adelson, D.L., Xavier, S, and Zhu, J.J. (2005) Annotation of chicken IL-10 gene cluster and effects of lipopolysaccharide stimulation on IL-10 gene expression. Animal Genetics 36,pp.263-5.
  47.  

    Centre for Bioinformatics and Computational Genetics
    Address

    Room 2.10, The Braggs Building
    The University of Adelaide

    SA 5005
    AUSTRALIA
    North Terrace Campus

    Contact

    Prof. David Adelson
    Room 2.10, The Braggs Building
    T: +61 8 8313 7555
    F: +61 8 8313 4362
    email