19972021
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Research Output 1997 2019

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2019

Establishing a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia

Schneider, M. V., Griffin, P. C., Tyagi, S., Flannery, M., Dayalan, S., Gladman, S., Watson-Haigh, N., Bayer, P. E., Charleston, M., Cooke, I., Cook, R., Edwards, R. J., Edwards, D., Gorse, D., McConville, M., Powell, D., Wilkins, M. R. & Lonie, A., 22 Mar 2019, In : Briefings in Bioinformatics. 20, 2, p. 384-389 6 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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iLearn: an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data

Chen, Z., Zhao, P., Li, F., Marquez-Lago, T. T., Leier, A., Revote, J., Zhu, Y., Powell, D. R., Akutsu, T., Webb, G. I., Chou, K-C., Smith, A. I., Daly, R. J., Li, J. & Song, J., 24 Apr 2019, (Accepted/In press) In : Briefings in Bioinformatics. 11 p., bbz041.

Research output: Contribution to journalArticleResearchpeer-review

Topconfects: A package for confident effect sizes in differential expression analysis provides a more biologically useful ranked gene list

Harrison, P. F., Pattison, A. D., Powell, D. R. & Beilharz, T. H., 28 Mar 2019, In : Genome Biology. 20, 1, 12 p., 67.

Research output: Contribution to journalArticleOtherpeer-review

Open Access
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2018

Age-Related Decline in Primary CD8+ T Cell Responses Is Associated with the Development of Senescence in Virtual Memory CD8+ T Cells

Quinn, K. M., Fox, A., Harland, K. L., Russ, B. E., Li, J., Nguyen, T. H. O., Loh, L., Olshanksy, M., Naeem, H., Tsyganov, K., Wiede, F., Webster, R., Blyth, C., Sng, X. Y. X., Tiganis, T., Powell, D., Doherty, P. C., Turner, S. J., Kedzierska, K. & La Gruta, N. L., 19 Jun 2018, In : Cell Reports. 23, 12, p. 3512-3524 13 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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A Metabolic Checkpoint for the Yeast-to-Hyphae Developmental Switch Regulated by Endogenous Nitric Oxide Signaling

Koch, B., Barugahare, A. A., Lo, T. L., Huang, C., Schittenhelm, R. B., Powell, D. R., Beilharz, T. H. & Traven, A., 20 Nov 2018, In : Cell Reports. 25, 8, p. 2244-2258 15 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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A novel role for Lyl1 in primitive erythropoiesis

Chiu, S. K., Saw, J. M. Y., Huang, Y., Sonderegger, S. E., Wong, N. C. L., Powell, D. R., Beck, D., Pimanda, J., Tremblay, C. & Curtis, D. J., 11 Oct 2018, In : Development. 145, 19, 9 p., dev162990.

Research output: Contribution to journalArticleResearchpeer-review

Concurrent host-pathogen transcriptional responses in a clostridium perfringens murine myonecrosis infection

Low, L-Y., Harrison, P. F., Gould, J., Powell, D. R., Choo, J. M., Forster, S. C., Chapman, R., Gearing, L. J., Cheung, J. K., Hertzog, P. & Rood, J. I., 1 Mar 2018, In : mBio. 9, 2, 15 p., e00473-18.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Determination of the small RNA GcvB regulon in the Gram-negative bacterial pathogen Pasteurella multocida and identification of the GcvB seed binding region

Gulliver, E. L., Wright, A., Deveson, D., Megroz, M., Kleifeld, O., Schittenhelm, R. B., Powell, D. R., Seemann, T., Bulitta, J. B., Harper, M. & Boyce, J. D., 1 May 2018, In : Rna-A Publication of the Rna Society. 24, 5, p. 704-720 17 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Emergence of high-level colistin resistance in an acinetobacter baumannii clinical isolate mediated by inactivation of the global regulator H-NS

Lucas, D. D., Crane, B., Wright, A., Han, M-L., Moffatt, J., Bulach, D., Gladman, S. L., Powell, D., Aranda, J., Seemann, T., Machado, D., Pacheco, T., Marques, T., Viveiros, M., Nation, R., Li, J., Harper, M. & Boyce, J. D., 1 Jul 2018, In : Antimicrobial Agents and Chemotherapy. 62, 7, 17 p., e02442-17.

Research output: Contribution to journalArticleResearchpeer-review

Functional and genomic characterisation of a xenograft model system for the study of metastasis in triple-negative breast cancer

Johnstone, C. N., Pattison, A. D., Gorringe, K. L., Harrison, P. F., Powell, D. R., Lock, P., Baloyan, D., Ernst, M., Stewart, A. G., Beilharz, T. H. & Anderson, R. L., 29 May 2018, In : Disease Models and Mechanisms. 11, 5, 14 p., 032250.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Glucose Homeostasis Is Important for Immune Cell Viability during Candida Challenge and Host Survival of Systemic Fungal Infection

Tucey, T. M., Verma, J., Harrison, P. F., Snelgrove, S. L., Lo, T. L., Scherer, A. K., Barugahare, A. A., Powell, D. R., Wheeler, R. T., Hickey, M. J., Beilharz, T. H., Naderer, T. & Traven, A., 1 May 2018, In : Cell Metabolism. 27, 5, p. 988-1006.e7 27 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Identification of novel Acinetobacter baumannii type VI secretion system antibacterial effector and immunity pairs

Fitzsimons, T. C., Lewis, J. M., Wright, A., Kleifeld, O., Schittenhelm, R. B., Powell, D., Harper, M. & Boyce, J. D., 1 Aug 2018, In : Infection and Immunity. 86, 8, 23 p., e00297-18.

Research output: Contribution to journalArticleResearchpeer-review

Restricted cell cycle is essential for clonal evolution and therapeutic resistance of pre-leukemic stem cells

Tremblay, C., Saw, J., Chiu, S. K., Wong, N. C., Tsyganov, K., Ghotb, S., Graham, A. N., Yan, F., Guirguis, A., Sonderegger, S., Lee, N., Kalitsis, P., Reynolds, J., Ting, S., Powell, D., Jane, S. & Curtis, D., 1 Dec 2018, In : Nature Communications. 9, 1, 13 p., 3535.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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The use of targeted next generation sequencing to explore candidate regulators of TGF-β1's impact on kidney cells

Wang, B., Ji, G., Naeem, H., Wang, J., Kantharidis, P., Powell, D. & Ricardo, S. D., Dec 2018, In : Frontiers in Physiology. 9, 14 p., 1755.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Wolbachia enhances insect-specific flavivirus infection in Aedes aegypti mosquitoes

Amuzu, H. E., Tsyganov, K., Koh, C., Herbert, R. I., Powell, D. R. & McGraw, E. A., 1 Jun 2018, In : Ecology and Evolution. 8, 11, p. 5441-5454 14 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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2017

Cell Type of Origin Dictates the Route to Pluripotency

Nefzger, C. M., Rossello, F. J., Chen, J., Liu, X., Knaupp, A. S., Firas, J., Paynter, J. M., Pflueger, J., Buckberry, S., Lim, S. M., Williams, B., Alaei, S., Faye-Chauhan, K., Petretto, E., Nilsson, S. K., Lister, R., Ramialison, M., Powell, D. R., Rackham, O. J. L. & Polo, J. M., 5 Dec 2017, In : Cell Reports. 21, 10, p. 2649-2660 12 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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De novo transcriptome assembly for the spiny mouse (Acomys cahirinus)

Mamrot, J., Legaie, R., Ellery, S. J., Wilson, T., Seemann, T., Powell, D. R., Gardner, D. K., Walker, D. W., Temple-Smith, P., Papenfuss, A. T. & Dickinson, H., 1 Dec 2017, In : Scientific Reports. 7, 1, 15 p., 8996.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Global Gene Expression Profile of Acinetobacter baumannii During Bacteremia

Murray, G. L., Tsyganov, K., Kostoulias, X. P., Bulach, D. M., Powell, D., Creek, D. J., Boyce, J. D., Paulsen, I. T. & Peleg, A. Y., 15 Feb 2017, In : Journal of Infectious Diseases. 215, 1, p. S52-S57

Research output: Contribution to journalArticleResearchpeer-review

Impact of endurance exercise training on adipocyte microRNA expression in overweight men

Tsiloulis, T., Pike, J., Powell, D., Rossello, F. J., Canny, B. J., Meex, R. C. R. & Watt, M. J., Jan 2017, In : FASEB Journal. 31, 1, p. 161-171 11 p.

Research output: Contribution to journalArticleResearchpeer-review

Translation complex profile sequencing to study the in vivo dynamics of mRNA-ribosome interactions during translation initiation, elongation and termination

Shirokikh, N. E., Archer, S. K., Beilharz, T. H., Powell, D. & Preiss, T., 1 Apr 2017, In : Nature Protocols. 12, 4, p. 697-731 35 p.

Research output: Contribution to journalArticleResearchpeer-review

2016

A Versatile Strategy for Isolating a Highly Enriched Population of Intestinal Stem Cells

Nefzger, C. M., Jarde, T., Rossello, F. J., Horvay, K., Knaupp, A. S., Powell, D. R., Chen, J. Y., Abud, H. E. & Polo, J. M., 2016, In : Stem Cell Reports. 6, 3, p. 321 - 329 9 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Haplotyping the human leukocyte antigen system from single chromosomes

Murphy, N. M., Burton, M., Powell, D. R., Rossello, F. J., Cooper, D., Chopra, A., Hsieh, M. J., Sayer, D. C., Gordon, L., Pertile, M. D., Tait, B. D., Irving, H. R. & Pouton, C. W., 27 Jul 2016, In : Scientific Reports. 6, 9 p., 30381.

Research output: Contribution to journalArticleResearchpeer-review

Open Access

PUMA promotes apoptosis of hematopoietic progenitors driving leukemic progression in a mouse model of myelodysplasia

Guirguis, A., Slape, C. I., Failla, L. M., Saw, J. M. Y., Tremblay, C., Powell, D. R., Rossello, F. J., Wei, A., Strasser, A. & Curtis, D. J., 2016, In : Cell Death and Differentiation. 23, 6, p. 1049 - 1059 11 p.

Research output: Contribution to journalArticleResearchpeer-review

Segregation of naturally occurring mitochondrial DNA variants in a mini-pig model

Cagnone, G., Tsai, T-S., Srirattana, K., Rossello, F., Powell, D. R., Rohrer, G., Cree, L., Trounce, I. A. & St John, J. C., Mar 2016, In : Genetics. 202, 3, p. 931 - 944 14 p.

Research output: Contribution to journalArticleResearchpeer-review

2015

Convergent adaptation in the dominant global hospital clone ST239 of methicillin-resistant Staphylococcus aureus

Baines, S. L., Holt, K. E., Schultz, M. B., Seemann, T., Howden, B. O., Jensen, S. O., van Hal, S. J. M., Coombs, G. W., Firth, N., Powell, D. R., Stinear, T. P. & Howden, B. P., 2015, In : mBio. 6, 2, 9 p., e00080-15.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Integration of posttranscriptional gene networks into metabolic adaptation and biofilm maturation in candida albicans

Verma-Gaur, J., Qu, Y., Harrison, P. F., Lo, T. L., Quenault, T. L., Dagley, M. J., Belousoff, M. J., Powell, D. R., Beilharz, T. H. & Traven, A., 2015, In : PLoS Genetics. 11, 10, 28 p., e1005590.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Natural variation identifies ICARUS1, a universal gene required for cell proliferation and growth at high temperatures in Arabidopsis thaliana

Zhu, W., Ausin, I., Seleznev, A., Mendez-Vigo, B., Pico, F. X., Sureshkumar, S., Sundaramoorthi, V., Bulach, D. M., Powell, D. R., Seemann, T., Alonso-Blanco, C. & Balasubramanian, S., 2015, In : PLoS Genetics. 11, 5, 23 p., e1005085.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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PAT-seq: a method to study the integration of 3'-UTR dynamics with gene expression in the eukaryotic transcriptome

Harrison, P. F., Powell, D. R., Clancy, J. L., Preiss, T., Boag, P. R., Traven, A., Seemann, T. & Beilharz, T. H., 2015, In : Rna-A Publication of the Rna Society. 21, 8, p. 1502 - 1510 9 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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POS-1 promotes endo-mesoderm development by inhibiting the cytoplasmic polyadenylation of neg-1 mRNA

Elewa, A., Shirayama, M., Kaymak, E., Harrison, P. F., Powell, D. R., Du, Z., Chute, C. D., Woolf, H., Yi, D., Ishidate, T., Srinivasan, J., Bao, Z., Beilharz, T. H., Ryder, S. P. & Mello, C. C., 2015, In : Developmental Cell. 34, 1, p. 108 - 118 11 p.

Research output: Contribution to journalArticleResearchpeer-review

The role of antigen presenting cells in the induction of HIV-1 latency in resting CD4+ T-cells

Kumar, N. A., Cheong, K., Powell, D. R., da Fonseca Pereira, C., Anderson, J., Evans, V. A., Lewin, S. R. & Cameron, P. U., 11 Sep 2015, In : Retrovirology. 12, 76, p. 1-16 16 p., 76.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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The transcriptomic response of Acinetobacter baumannii to colistin and doripenem alone and in combination in an in vitro pharmacokinetics/pharmacodynamics model

Henry, R. M., Crane, B. A., Powell, D. R., Deveson-Lucas, D. S., Li, Z., Aranda, J., Harrison, P. F., Nation, R. L., Adler, B., Harper, M., Boyce, J. D. & Li, J., 2015, In : Journal of Antimicrobial Chemotherapy. 70, 5, p. 1303 - 1313 11 p.

Research output: Contribution to journalArticleResearchpeer-review

Transcriptional profile in afferent lymph cells following vaccination with liposomes incorporating CpG

Neeland, M. R., Elhay, M. J., Powell, D. R., Rossello, F. J., Meeusen, E. N. T. & de Veer, M. J., 2015, In : Immunology. 144, 3, p. 518-529 12 p.

Research output: Contribution to journalArticleResearchpeer-review

2014

Community-driven development for computational biology at Sprints, Hackathons and Codefests

Moller, S., Afgan, E., Banck, M., Bonnal, R. J. P., Booth, T., Chilton, J. M., Cock, P. J. A., Gumbel, M., Harris, N. L., Holland, R., Kalas, M., Kajan, L., Kibukawa, E., Powell, D. R., Prins, P., Quinn, J., Sallou, O., Strozzi, F., Seemann, T., Sloggett, C. & 8 othersSoiland-Reyes, S., Spooner, W., Steinbiss, S., Tille, A., Travis, A. J., Valls Guimera, R., Katayama, T. & Chapman, B. A., 2014, In : BMC Bioinformatics. 15, Suppl 14, p. 1 - 7 7 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access

Genomic evidence for a Globally distributed, Bimodal population in the Ovine footrot pathogen dichelobacter nodosus

Kennan, R. M., Gilhuus, M., Frosth, S., Seemann, T., Dhungyel, O. P., Whittington, R. J., Boyce, J. D., Powell, D. R., Aspan, A., Jorgensen, H. J., Bulach, D. M. & Rood, J. I., 2014, In : mBio. 5, 5, p. 1 - 11 11 p., e01821-14.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
2009

Global gene expression in skeletal muscle from well-trained strength and endurance athletes

Stepto, N. K., Coffey, V. G., Carey, A. L., Ponnampalam, A. P., Canny, B. J., Powell, D. R. & Hawley, J. A., 2009, In : Medicine and Science in Sports and Exercise. 41, 3, p. 546 - 565 20 p.

Research output: Contribution to journalArticleResearchpeer-review

2007

Comparative analysis of long DNA sequences by per element information content using different contexts

Dix, T. I., Powell, D. R., Allison, L., Bernal Melo, J. C., Jaeger, S. & Stern, L., 2007, In : BMC Bioinformatics. 8, Suppl 2, 8 p., S10.

Research output: Contribution to journalArticleResearchpeer-review

2006

Comparison of the RpoH-dependent regulon and general stress response in Neisseria gonorrhoeae

Gunesekere, I. C., Kahler, C. M., Powell, D. R., Snyder, L. A. S., Saunders, N. J., Rood, J. I. & Davies, J. K., 2006, In : Journal of Bacteriology. 188, 13, p. 4769 - 4776 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Construction and analysis of chromosomal Clostridium difficile mutants

O'Connor, J. R., Lyras, D., Farrow, K. A., Adams, V. M., Powell, D. R., Hinds, J., Cheung, K-L. J. & Rood, J. I., 2006, In : Molecular Microbiology. 61, 5, p. 1335 - 1351 17 p.

Research output: Contribution to journalArticleResearchpeer-review

Effects of temperature on gene expression patterns in Leptospira interrogans serovar Lai as assessed by whole-genome microarrays

Lo, M., Bulach, D. M., Powell, D. R., Haake, D. A., Matsunaga, J., Paustian, M. L., Zuerner, R. L. & Adler, B., 2006, In : Infection and Immunity. 74, 10, p. 5848 - 5859 12 p.

Research output: Contribution to journalArticleResearchpeer-review

EST-PAC a web package for EST annotation and protein sequence prediction

Strahm, Y., Powell, D. & Lefèvre, C., 12 Oct 2006, In : Source Code for Biology and Medicine. 1, 2.

Research output: Contribution to journalArticleResearchpeer-review

2005

Function of the cytochrome bc1-aa3 branch of the respiratory network in mycobacteria and network adaptation occurring in response to its disruption

Matsoso, L., Kana, B. D., Crellin, P., Lea-Smith, D. J., Pelosi, A., Powell, D. R., Dawes, S. S., Rubin, H., Coppel, R. L. & Mizrahi, V., 2005, In : Journal of Bacteriology. 187, 18, p. 6300 - 6308 9 p.

Research output: Contribution to journalArticleResearchpeer-review

2000

Fast, Optimal Alignment of Three Sequences Using Linear Gap Costs

Powell, D. R., Allison, L. & Dix, T. I., 2000, In : Journal of Theoretical Biology. p. 325 - 336 12 p.

Research output: Contribution to journalArticleResearchpeer-review

1999

A Versatile Divide and Conquer Technique for Optimal String Alignment

Powell, D. R., Allison, L. & Dix, T. I., 1999, In : Information Processing Letters. p. 127 - 139 13 p.

Research output: Contribution to journalArticleResearchpeer-review

Compression and Approximate Matching

Allison, L., Powell, D. R. & Dix, T. I., 1999, In : Computer Journal. p. 1 - 10 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Unsupervised Learning in Metagame

Farr, G. E. & Powell, D. R., 1999, In : Lecture Notes in Computer Science. p. 24 - 35 12 p.

Research output: Contribution to journalArticleResearchpeer-review