Chair of Bioinformatics & Computational Genet
School of Biological Sciences
Faculty of Sciences
Eligible to supervise Masters and PhD - email supervisor to discuss availability.
David Adelson is Professor and Chair of Bioinformatics and Computational Genetics, Zhendong Chair of Molecular Traditional Chinese Medicine in the School of Biological Sciences at the University of Adelaide and is also a Xinglin Scholar Professor at Guangzhou University of TCM. Prof. Adelson’s current research also focuses on the non-coding portions of animal genomes, such as regions used to transcribe ncRNAs (piRNAs and lncRNAs) and the computational analysis of repetitive, so called “Junk DNA”, in order to understand large scale evolutionary/structural changes in animal genomes. Prof. Adelson has led the analysis of repetitive DNA for the cow, horse and elephant genome sequencing consortia and his lab has recently finished working on the Tuatara repetitive DNA analysis for that international genome sequencing consortium. In addition to characterising repeat content in genomes, his lab continues to develop a set of tools to identify and annotate transposable elements and segmental duplications “from scratch” and to use long read sequencing technology to identify somatic structural variants.. Additional aspects of the genome evolution work include understanding the impact of horizontal transfer of repetitive elements in higher organisms.
Prof. Adelson is currently Director of the Zhendong Centre of Molecular Traditional Chinese Medicine. The philosophy of the Zhendong Centre is that complex molecular effects of TCM preparations will provide a molecular basis for understanding the mode of action of TCM and support integration into Western medicine. A major approach to this work uses transcriptome analysis to identify entire pathways or co-expression sub-networks in cancer cells that are altered as a result of a particular TCM preparation, Compound Kushen Injection.
Prof. Adelson is also Co-Director (with Prof Gary Glonek) of the Bioinformatics Hub, a core facility for bioinformatics training and analysis that serves the research community of The University of Adelaide.
Prior to moving to Adelaide in 2007, Prof Adelson worked at Texas A&M University from 2001, and before that worked for CSIRO from 1988. Prof Adelson obtained his PhD in Biomedical Sciences (Biochemistry), from the John A Burns School of Medicine at the University of Hawaii at Manoa in 1985 and carried out postdoctoral research at Duke University.
- My Research
- Grants and Funding
- Professional Activities
My research has two main themes: 1)understanding how transposable elements affect genome structure and function at both the individual and species level and 2)using systems biology and network based methods to understand the molecular mode of action of complex mixtures of bioactives such as Traditional Chinese Medicines.
Date Position Institution name 2012 Board Member South Australian Museum
Date Institution name Country Title — University of Hawaii at Manoa - John A Burns School of Medicine USA PhD
Date Title Institution Country — Postdoctoral researcher Duke University United States
Year Citation 2015 Adelson, D., Qu, Z., Raison, J., & Lim, S. (2015). Bovine Genomics. In D. Garrick, & A. Ruvinsky (Eds.), The Genetics of Cattle (2nd Edition ed., pp. 130-152). Wallingford, Oxfordshire, UK: CAB International. 2015 Adelson, D., Buckley, R., Ivancevic, A., Qu, Z., & Zeng, L. (2015). Retrotransposons: Genomic and trans-genomic agents of change. In Evolutionary Biology: Biodiversification from Genotype to Phenotype (pp. 55-75).
2012 Adelson, D. (2012). Bovine genome architecture. In J. Womack (Ed.), Bovine Genomics (1 ed., pp. 123-140). United Kingdom: Wiley.
Year Citation 2015 Bharadwaj, V., Lifshitz, J., Adelson, D., Kodibagkar, V. D., & Stabenfeldt, S. E. (2015). EVALUATING THE POTENTIAL FOR NANOPARTICLE DELIVERY AFTER TRAUMATIC BRAIN INJURY. In JOURNAL OF NEUROTRAUMA Vol. 32 (pp. A25). Santa Fe, NM: MARY ANN LIEBERT, INC. 2014 Spaite, D., Stolz, U., Bobrow, B., Chikani, V., Sherrill, D., Sotelo, M., . . . Denninghoff, K. (2014). Association between lowest pre-hospital systolic blood pressure and mortality in major traumatic brain injury: Is there a 'hypotension' threshold?. In BRAIN INJURY Vol. 28 (pp. 566-567). INFORMA HEALTHCARE. 2014 Ling, K., Lee, H., Brautigan, P., Moore, S., Fraser, R., Cheah, P., . . . Scott, H. (2014). Deciphering the secret role of Sox4 gene locus during mouse cerebral corticogenesis. In Journal of Neurochemistry Vol. 130 (pp. 8). Kaohsiung, Taiwan: Wiley. 2008 Satterfield, M., Song, G., Kochan, K., Riggs, P., Zhou, H., Elsik, C., . . . Spencer, T. (2008). Identification of progesterone-regulated genes governing pre-implantation conceptus growth and development. In BIOLOGY OF REPRODUCTION Vol. 78 (pp. 173). Kona, HI: SOC STUDY REPRODUCTION.
2007 Lewis, S., Farmer, J., Burghardt, R., Newton, G., Adelson, D., Bazer, F., & Spencer, T. (2007). Galectin-15 (LGALS15): A gene unique to sheep and goats?. In BIOLOGY OF REPRODUCTION Vol. 77 (pp. 155). San Antonio, TX: SOC STUDY REPRODUCTION.
2006 Lee, K. -H., Kim, S. -Y., Whang, E., & Lee, J. -G. (2006). A practitioner's approach to normalizing XQuery expressions. In M. Lee, K. Tan, & V. Wuwongse (Eds.), DATABASE SYSTEMS FOR ADVANCED APPLICATIONS, PROCEEDINGS Vol. 3882 (pp. 437-453). Singapore, SINGAPORE: SPRINGER-VERLAG BERLIN.
2005 Dunlap, K., Hayashi, K., Adelson, D., Palmarini, M., & Spencer, T. (2005). Ovine endogenous betaretroviruses (enJSRVs) regulate conceptus growth and development.. In BIOLOGY OF REPRODUCTION (pp. 82). Ctr Rech Biol Reproduct, Quebec City, CANADA: SOC STUDY REPRODUCTION. 2004 Meyer, J., Gray, A., Millimaki, R., Adelson, D., Thomas, T., & Spencer, T. (2004). Identification of a signal peptidase expressed exclusively by the uterine glands throughout pregnancy in the ewe. In BIOLOGY OF REPRODUCTION (pp. 149-150). Univ British Columbia, Vancouver, CANADA: SOC STUDY REPRODUCTION. 2004 Gray, A., Meyer, J., Adelson, D., Bazer, F., Burghardt, R., & Spencer, T. (2004). Galectin-15 is the novel 14K progesterone-modulated protein from the uterus of sheep that forms crystalline inclusion bodies in endometrial epithelium and conceptus trophectoderm.. In BIOLOGY OF REPRODUCTION (pp. 93). Univ British Columbia, Vancouver, CANADA: SOC STUDY REPRODUCTION. 2003 Gray, C., Abbey, C., Adelson, D., Thomas, T., & Spencer, T. (2003). Identification of endometrial factors regulating peri-implantation conceptus in the ewe.. In BIOLOGY OF REPRODUCTION Vol. 68 (pp. 333). CINCINNATI, OHIO: SOC STUDY REPRODUCTION. 2003 Cam, G., Adelson, D., De Silva, U., & Franklin, I. (2003). Functional genomics of wool follicle initiation and development in merino sheep. In EXPERIMENTAL DERMATOLOGY Vol. 12 (pp. 227). MELBOURNE, AUSTRALIA: BLACKWELL MUNKSGAARD. 2000 Franklin, I., Adelson, D., Cam, G., Sutton, R., & Van Hest, B. (2000). Discovering quality related genes. In ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES Vol. 13 (pp. 43). UNIV NEW S WALES, SYDNEY, AUSTRALIA: ASIAN-AUSTRALASIAN ASSOC ANIMAL PRODUCTION SOCIETIES.
1999 Davidson, B., & Adelson, D. (1999). Growth factors and control of the hair cycle. In D. DyallSmith, & R. Marks (Eds.), DERMATOLOGY AT THE MILLENNIUM (pp. 699-705). SYDNEY, AUSTRALIA: PARTHENON PUBLISHING GROUP LTD. 1999 Nishimura, H., Nishimura, N., Tohyama, C., Cam, G., & Adelson, D. (1999). Metallothionein expression during wool follicle development in foetal sheep. In C. Klaassen (Ed.), METALLOTHIONEIN IV (pp. 321-324). KANSAS CITY, MO: BIRKHAUSER VERLAG AG. 1993 NAGORCKA, B., ADELSON, D., MOONEY, J., & KELLEY, B. (1993). PREDICTED AND OBSERVED SPATIAL PREPATTERNS IN (HAIR) WOOL FOLLICLE BULBS. In H. Othmer, P. Maini, & J. Murray (Eds.), EXPERIMENTAL AND THEORETICAL ADVANCES IN BIOLOGICAL PATTERN FORMATION Vol. 259 (pp. 255-266). UNIV OXFORD, MERTON COLL, OXFORD, ENGLAND: PLENUM PRESS DIV PLENUM PUBLISHING CORP. 1992 LEVY, J., & ADELSON, D. (1992). EFFECTS OF VECURONIUM-INDUCED HISTAMINE N-METHYLTRANSFERASE INHIBITION ON CUTANEOUS RESPONSES TO HISTAMINE. In AGENTS AND ACTIONS (pp. C211-C212). MARBURG, GERMANY: BIRKHAUSER VERLAG AG. 1992 NAGORCKA, B., & ADELSON, D. (1992). THE REACTION-DIFFUSION SYSTEM AS A DETERMINANT OF WOOL FIBER DIAMETER, FOLLICLE DENSITY AND FIBER DIAMETER DISTRIBUTION. In WOOL TECHNOLOGY AND SHEEP BREEDING Vol. 40 (pp. 47-51). GEELONG, AUSTRALIA: UNIV NEW SOUTH WALES.
1981 HIMORI, T., OHNUMA, T., ADELSON, D., HOLLAND, J., & GOLDBERG, A. (1981). DIFFERENTIAL CELL KILLING AND TERMINAL DIFFERENTIATION (TD) OF A HUMAN ACUTE MYELOGENOUS LEUKEMIA-CELL LINE (HL-60) INVITRO. In PROCEEDINGS OF THE AMERICAN ASSOCIATION FOR CANCER RESEARCH Vol. 22 (pp. 262). AMER ASSOC CANCER RESEARCH.
Year Citation 2017 Nourmohammadi, S., Pie, V. J., Kourghi, M., De leso, M. L., Pak, C., Adelson, D. L., & Yool, A. J. (2017). (Oral presentation) Analysis of effective compounds and mechanisms of action of a Chinese traditional herbal medicine (Compound Kushen Injection) on aquaporins involved in cancer cell migration and metastasis.. Poster session presented at the meeting of Gage Ion Channels and Transporters Conference. Canberra, Australia. 2017 Cui, J., Qu, Z., Harata-Lee, Y., Shen, H., & Adelson, D. (2017). West meets east: A systems biology approach to the mechanistic understanding of traditional medicines. Poster session presented at the meeting of BIOCHEMICAL PHARMACOLOGY. Aberdeen, SCOTLAND: PERGAMON-ELSEVIER SCIENCE LTD.
2012 Ghosh, S., Das, P., Qu, Z., Fang, E., Arnold, C., Adelson, D., . . . Raudsepp, T. (2012). Array CGH Studies in Equine Disorders of Sexual Development - SRY-Positive Sex Reversal and Cryptorchidism. Poster session presented at the meeting of CYTOGENETIC AND GENOME RESEARCH. San Antonio, TX: KARGER.
Year Citation 2017 Zeng, L., Pederson, S. M., Cao, D., Qu, Z., Adelson, D., & Wei, C. (2017). Genome-Wide Analysis Of Repetitive Elements Associated With Gene Regulation. biorXiv.
Research Support: (Ongoing Research support)
NHMRC Project Grant 1123341 Scott (CIA) 2017-2019
Genetic autopsy of perinatal death: diagnosis and discovery by Genome Sequencing
Role: Co-CI (CIF) A$989,332
NHMRC Project Grant 1144966 Western(CIA) 2018-2020
Defining the epigenetic origins of maternally inherited disease. A$731,162
Role: Co-CI (CID)
NHMRC Project Grant 1144887 Western(CIA) 2018-2020
Determining the impacts of epigenetic modifying drugs on germline programming and offspring health
Role: Co-CI (CIC) A$863,918
Completed Project Funding (since 2001).
USDA-CSREES NRI Chowdhary (PI) 2003-2006
High resolution integrated genetic and physical map of the equine genome. US$870,892
Kleberg Foundation Gift Womack (PI) 2005-2007
Bovine Genomics Bioinformatics US$1,000,000
Texas Equine Research Fund Adelson (PI) 2005-2007
Bioinformatics Support for Equine Genomics US$26,000
NSF Young(PI) 2005-2008
Phages of Agronomic Bacteria: A Student Based Genomics Approach. US$261,329
USDA CSREES NRI Elsik (PI) 2007-2010
Bovine Genome Database: A Community Informatics Resource US$999,595
ARC LIEF Grant Leinweber (CI) 2011
Enhancement of South Australian high-performance computing facilities A$430,000
ANDS Project Adelson(CI) 2011-2012
Genomics Data Capture A$250,000
Role: Sole CI
ARC Linkage Project Cooper(CI) 2009-2011
Environmental Genomics: Mining, climate change, water, crime and health A$500,000
USDA AFRI Elsik (PI) 2010-2013
Next Generation Bovine Genome Database US$970,000
NHMRC Project Grant 1011334 Scott (CIA) 2011-2013
Dnmt3L haploinsufficent retrotransposition leads to genetic hypermutation A$593,390
NHMRC Project Grant Scott (CIA) 2012-2014
Identification of genes responsible for familial predispositions to haematological malignancies
Role: CI A$689,754
NHMRC Project Grant Branford (CIA) 2012-2014
Assessment of markers of genomic instability for the prediction of treatment response in chronic myeloid leukaemia. A$570,093
NHMRC Project Grant MacLennan (CIA) 2012-2014
Copy number variations in cerebral palsy A$639,877
NHMRC Project Grant Jensen (CIA) 2012-2014
Understanding the post- transcriptional regulatory roles of the Hu family of RNA-binding proteins using HITS-CLIP
Role: CI A$568,660
ARC Discovery Project O’Bryan (CIA) 2012-2014
HEN1 is a regulator of piRNA metabolism, transcriptional regulation and mammalian male fertility
Role: CI A$344,000
Zhendong Pharmaceutical Co Ltd Adelson(CI) 2012-2017
Zhendong Centre A$2,250,000
The Australian Cancer Research Foundation Lopez(CI) 2010-2017
The ACRF Cancer Genome Facility
A$3,500,000 (ACRF), A$1,050,000 (SA Dept of Health), A$500,000 (Cancer Council SA), A$250,000 (DIISR SuperScience Project, Australian National Data Service), A$400,000 (RAH research funds), A$1,500,000 (5 salaries for 3 years, Medvet PTY LTD (2), SA Pathology RIBG (1), Adelaide University (1 RIBG, 1 IGS) = CI with 11 others.(Lopez, Kumar, Hughes, Scott, Goodall, Tilley, McColl, Paton, Adelson, Gécz, Melo, To)
I teach into second and third year genetics and second year biomedical science. At postgraduate level, I teach into the Masters of Bioinformatics program.
Current Higher Degree by Research Supervision (University of Adelaide)
Date Role Research Topic Program Degree Type Student Load Student Name 2019 Principal Supervisor Computational analysis of genome sequencing to understand structural variation Master of Philosophy Master Part Time Mr Joseph McConnell 2019 Co-Supervisor The role of RNA modifications on RNA Processing in Arabidopsis thaliana Doctor of Philosophy Doctorate Full Time Miss Pei Qin Ng 2019 Principal Supervisor Identification of Structural Variation with Long Reads Doctor of Philosophy Doctorate Full Time Carey Samuel Dessaix 2018 Principal Supervisor Structural variation in complex genomes Doctor of Philosophy Doctorate Part Time Dr Mani Ghani Poor Samami 2018 Co-Supervisor Understanding of the Molecular Mechanisms of Aquaporins in Human Cancer Doctor of Philosophy Doctorate Full Time Mr Saeed Nourmohammadi 2018 Co-Supervisor Transcriptome analysis of genetic zebrafish models of familial Alzheimer's disease and human sporadic Alzheimer's disease Doctor of Philosophy Doctorate Full Time Miss Nhi Hin 2017 Principal Supervisor Evolutionary Impact of Transposable Elements on Higher Organisms Doctor of Philosophy Doctorate Full Time Mr James Douglas Galbraith 2016 Co-Supervisor The role of RNA modifications in plants Doctor of Philosophy Doctorate Full Time Miss Jun Li 2016 Co-Supervisor Functional analysis of the regulating factors controlling gene expression in cattle Doctor of Philosophy Doctorate Full Time Ms Cynthia Liu
Past Higher Degree by Research Supervision (University of Adelaide)
Date Role Research Topic Program Degree Type Student Load Student Name 2017 - 2019 Principal Supervisor Measuring genome wide changes in chromatin state using ChIP-seq Master of Philosophy Master Full Time Miss Catisha Leigh Coburn 2015 - 2018 Principal Supervisor Personalized Medicine Support System for Chronic Myeloid Leukaemia Patients Doctor of Philosophy Doctorate Full Time Mrs Haneen Reda M Banjar 2015 - 2019 Principal Supervisor Bioinformatics in Traditional Chinese Medicine (TCM): Potential Anti-Cancer Mechanisms of Compound Kushen Injection (CKI) Doctor of Philosophy Doctorate Full Time Mr Hanyuan Shen 2015 - 2019 Principal Supervisor Molecular Mechanisms of Natural Compounds: Compound Kushen Injection (CKI) in Cancer Doctor of Philosophy Doctorate Full Time Mrs Thazin Nwe Aung 2014 - 2018 Principal Supervisor Research on Compound Kushen Injection (CKI): Anti-cancer Mechanism Pathway/Network structure Doctor of Philosophy Doctorate Full Time Mr Jian Cui 2014 - 2018 Principal Supervisor The Impact of Transposable Elements on Amniote Evolution Doctor of Philosophy Doctorate Full Time Miss Lu Zeng 2014 - 2017 Principal Supervisor Jumping the Fine LINE Between Species: Horizontal Transfer and Evolution of Repetitive Elements in Eukaryotic Species Doctor of Philosophy Doctorate Full Time Dr Atma Maria Ivancevic 2013 - 2017 Principal Supervisor Evolution of mammalian genome architecture through retrotransposition Doctor of Philosophy Doctorate Full Time Reuben Mackenzie Buckley 2012 - 2014 Principal Supervisor Functional analysis of repeat regions in the eukaryotic genomes Master of Philosophy under a Jointly-awarded Degree Agreement with Master Full Time Miss Lu Zeng 2011 - 2015 Co-Supervisor Investigation and Application of Methods for Ancient DNA Research Doctor of Philosophy Doctorate Full Time Dr Steve Richards 2010 - 2014 Principal Supervisor Identification and Annotation of Recombinant Repeats In Mammals Indicates They Are Experimental Products For Creating Novel Transposable Element Families Doctor of Philosophy Doctorate Full Time Mr Sim Lin Lim 2010 - 2014 Principal Supervisor Biomedical Literature Mining Doctor of Philosophy Doctorate Full Time Mr Mario Fruzangohar 2009 - 2015 Co-Supervisor Investigating the evolution of replication timing and monoallelic expression in mammals and birds Doctor of Philosophy Doctorate Full Time Miss Megan Wright 2009 - 2013 Co-Supervisor Imprinted Gene Expression and Phenotype of Bovine Concepti with Bos taurus and Bos indicus Genetics Doctor of Philosophy Doctorate Full Time Dr Mani Ghani Poor Samami 2009 - 2013 Co-Supervisor Chloroplast DNAs Diversify Nuclear and Mitochondrial Genomes in Plants Doctor of Philosophy Doctorate Full Time Mr Dong Wang 2008 - 2014 Principal Supervisor "Understanding the Apoptotic Signaling Pathway that Involve In Breast Cancer Using Microarray, Proteomics and Bioinformatics Doctor of Philosophy Doctorate Full Time Mr Ibrahim Oqla Alanazi 2008 - 2013 Principal Supervisor Comprehensive Identification and Annotation of Non-Protein-Coding Transcriptomes from Vertebrates Indicates Most ncRNAs are Regulatory Doctor of Philosophy Doctorate Full Time Dr Zhipeng Qu
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