Dr Mark Ziemann

STAFF PROFILE

Position

Honorary Fellow

Faculty

Faculty of Sci Eng & Built Env

Department

School of Life & Env Sciences

Campus

Geelong Waurn Ponds Campus

Contact

m.ziemann@deakin.edu.au
+61 3 522 78965

Publications

Filter by

2024

Amyloid beta 42 alters cardiac metabolism and impairs cardiac function in male mice with obesity

L Hall, J Czeczor, T Connor, J Botella, K De Jong, M Renton, A Genders, K Venardos, S Martin, S Bond, K Aston-Mourney, K Howlett, J Campbell, G Collier, K Walder, M McKenzie, M Ziemann, S McGee

(2024), Vol. 15, pp. 1-13, Nature Communications, London, Eng., C1

journal article

Viable protoplast isolation, organelle visualization and transformation of the globally distributed plant pathogen Phytophthora cinnamomi

Aayushree Kharel, James Rookes, Mark Ziemann, David Cahill

(2024), pp. 1-20, Protoplasma, Berlin, Germany, C1

journal article
2023

Genomic Characterization of Salmonella enterica serovar Weltevreden Associated with Human Diarrhea

J Zhang, Z Peng, K Chen, Z Zhan, H Shen, S Feng, H Gou, X Qu, M Ziemann, D Layton, X Wang, H Chen, B Wu, X Xu, M Liao

(2023), Vol. 11, pp. 1-14, Microbiology Spectrum, Washington, D.C., C1

journal article

Reduced methylation corresponds with diabetic nephropathy risk in type 1 diabetes reduced methylation corresponds with diabetic nephropathy risk

Ishant Khurana, Harikrishnan Kaipananickal, Scott Maxwell, Sørine Birkelund, Anna Syreeni, Carol Forsblom, Jun Okabe, Mark Ziemann, Antony Kaspi, Haloom Rafehi, Anne Jørgensen, Keith Al-Hasani, Merlin Thomas, Guozhi Jiang, Andrea Luk, Heung Lee, Yu Huang, Yotsapon Thewjitcharoen, Soontaree Nakasatien, Thep Himathongkam, Christopher Fogarty, Rachel Njeim, Assaad Eid, Tine Hansen, Nete Tofte, Evy Ottesen, Ronald Ma, Juliana Chan, Mark Cooper, Peter Rossing, Per-Henrik Groop, Assam El-Osta

(2023), Vol. 133, pp. 1-18, Journal of Clinical Investigation, United States, C1-1

journal article

The five pillars of computational reproducibility: bioinformatics and beyond

M Ziemann, P Poulain, A Bora

(2023), Vol. 24, pp. 1-13, Briefings in Bioinformatics, Oxford, Eng., C1

journal article
2022

MicroRNA-101-3p Modulates Mitochondrial Metabolism via the Regulation of Complex II Assembly

Mark Ziemann, Sze Lim, Yilin Kang, Sona Samuel, Isabel Sanchez, Michael Gantier, Diana Stojanovski, Matthew McKenzie

(2022), Vol. 434, pp. 1-16, Journal of Molecular Biology, Amsterdam, The Netherlands, C1

journal article

Urgent need for consistent standards in functional enrichment analysis

K Wijesooriya, S Jadaan, K Perera, T Kaur, M Ziemann

(2022), Vol. 18, pp. 1-14, PLoS Computational Biology, San Francisco, Calif., C1

journal article

Methylomic and transcriptomic characterization of postoperative systemic inflammatory dysregulation

C Bain, P Myles, R Taylor, H Trahair, Y Lee, L Croft, P Peyton, T Painter, M Chan, S Wallace, T Corcoran, A Shaw, E Paul, M Ziemann, K Bozaoglu

(2022), Vol. 247, pp. 79-98, Translational Research: the journal of laboratory and clinical medicine, Amsterdam, The Netherlands, C1

journal article

Transcriptomic Analysis of Dysregulated Genes of the nDNA-mtDNA Axis in a Mouse Model of Dilated Cardiomyopathy

M Ziemann, W Wu, X Deng, X Du

(2022), Vol. 13, Frontiers in Genetics, Switzerland, C1

journal article

Loss of mitochondrial fatty acid β-oxidation protein short-chain Enoyl-CoA hydratase disrupts oxidative phosphorylation protein complex stability and function

H Burgin, A Sharpe, S Nie, M Ziemann, J Crameri, D Stojanovski, J Pitt, A Ohtake, K Murayama, M McKenzie

(2022), pp. 1-22, FEBS Journal, London, Eng., C1

journal article

Stimulating Mitochondrial Biogenesis with Deoxyribonucleosides Increases Functional Capacity in ECHS1-Deficient Cells

Harrison Burgin, Jordan Crameri, Diana Stojanovski, M Sanchez, Mark Ziemann, Matthew McKenzie

(2022), Vol. 23, pp. 1-19, International Journal of Molecular Sciences, Basel, Switzerland, C1

journal article

Sulforaphane prevents and reverses allergic airways disease in mice via anti-inflammatory, antioxidant, and epigenetic mechanisms

Simon Royce, Paul Licciardi, Raymond Beh, Jane Bourke, Chantal Donovan, Andrew Hung, Ishant Khurana, Julia Liang, Scott Maxwell, Nadia Mazarakis, Eleni Pitsillou, Ya Siow, Kenneth Snibson, Mark Tobin, Katherine Ververis, Jitraporn Vongsvivut, Mark Ziemann, Chrishan Samuel, Mimi Tang, Assam El-Osta, Tom Karagiannis

(2022), Vol. 79, pp. 579-, Cellular and Molecular Life Sciences, Switzerland, C1

journal article

Valproic acid attenuates cellular senescence in diabetic kidney disease through the inhibition of complement C5a receptors

M Coughlan, M Ziemann, A Laskowski, T Woodruff, S Tan

(2022), Vol. 12, pp. 20278-, Scientific Reports, England, C1

journal article
2021

Valproic acid influences the expression of genes implicated with hyperglycaemia-induced complement and coagulation pathways

M Felisbino, M Ziemann, I Khurana, J Okabe, K Al-Hasani, S Maxwell, K Harikrishnan, C de Oliveira, M Mello, A El-Osta

(2021), Vol. 11, Scientific Reports, England, C1-1

journal article

Sex-Specific Control of Human Heart Maturation by the Progesterone Receptor

C Sim, B Phipson, M Ziemann, H Rafehi, R Mills, K Watt, K Abu-Bonsrah, R Kalathur, H Voges, D Dinh, M Ter Huurne, C Vivien, A Kaspi, H Kaipananickal, A Hidalgo, L Delbridge, R Robker, P Gregorevic, C Dos Remedios, S Lal, A Piers, I Konstantinov, D Elliott, A El-Osta, A Oshlack, J Hudson, E Porrello

(2021), Vol. 143, pp. 1614-1628, Circulation, United States, C1

journal article

Processed foods drive intestinal barrier permeability and microvascular diseases

M Snelson, S Tan, R Clarke, C De Pasquale, V Thallas-Bonke, T Nguyen, S Penfold, B Harcourt, K Sourris, R Lindblom, M Ziemann, D Steer, A El-Osta, M Davies, L Donnellan, P Deo, N Kellow, M Cooper, T Woodruff, C Mackay, J Forbes, M Coughlan

(2021), Vol. 7, Science Advances, United States, C1

journal article

Targeting methylglyoxal in diabetic kidney disease using the mitochondria-targeted compound mitogamide

S Tan, R Lindblom, M Ziemann, A Laskowski, C Granata, M Snelson, V Thallas-Bonke, A El-Osta, C Baeza-Garza, S Caldwell, R Hartley, T Krieg, M Cooper, M Murphy, M Coughlan

(2021), Vol. 13, Nutrients, Switzerland, C1-1

journal article

Yap regulates skeletal muscle fatty acid oxidation and adiposity in metabolic disease

K Watt, D Henstridge, M Ziemann, C Sim, M Montgomery, D Samocha-Bonet, B Parker, G Dodd, S Bond, T Salmi, R Lee, R Thomson, A Hagg, J Davey, H Qian, R Koopman, A El-Osta, J Greenfield, M Watt, M Febbraio, B Drew, A Cox, E Porrello, K Harvey, P Gregorevic

(2021), Vol. 12, Nature Communications, England, C1

journal article

Gene name errors: Lessons not learned

M Abeysooriya, M Soria, M Kasu, M Ziemann

(2021), Vol. 17, PLoS Computational Biology, United States, C1

journal article

Activation of Hippo signaling pathway mediates mitochondria dysfunction and dilated cardiomyopathy in mice

W Wu, M Ziemann, K Huynh, G She, Z Pang, Y Zhang, T Duong, H Kiriazis, T Pu, R Bai, J Li, Y Zhang, M Chen, J Sadoshima, X Deng, P Meikle, X Du

(2021), Vol. 11, pp. 8993-9008, Theranostics, Sydney, N.S.W., C1

journal article

Deletion of GPR21 improves glucose homeostasis and inhibits the CCL2-CCR2 axis by divergent mechanisms

D Riddy, H Kammoun, A Murphy, S Bosnyak-Gladovic, R De La Fuente Gonzalez, J Merlin, M Ziemann, S Fabb, T Pierce, N Diepenhorst, P Rueda, A El-Osta, J Gautier, N Venteclef, W Charman, A Christopoulos, P Sexton, R Summers, M Febbraio, P Delerive, C Langmead

(2021), Vol. 9, BMJ Open Diabetes Research and Care, England, C1-1

journal article
2020

Complement C5a induces renal injury in diabetic kidney disease by disrupting mitochondrial metabolic agility

Sih Tan, Mark Ziemann, Vicki Thallas-Bonke, Matthew Snelson, Vinod Kumar, Adrienne Laskowski, Tuong-Vi Nguyen, Kevin Huynh, Michele Clarke, Renata Libianto, Scott Baker, Alison Skene, David Power, Richard MacIsaac, Darren Henstridge, Rick Wetsel, Assam El-Osta, Peter Meikle, Scott Wilson, Josephine Forbes, Mark Cooper, Elif Ekinci, Trent Woodruff, Melinda Coughlan

(2020), Vol. 69, pp. 83-98, Diabetes, New York, N.Y., C1

journal article

Mitch: Multi-contrast pathway enrichment for multi-omics and single-cell profiling data

A Kaspi, M Ziemann

(2020), Vol. 21, BMC Genomics, England, C1

journal article

DNA methylation patterns from peripheral blood separate coronary artery disease patients with and without heart failure

C Bain, M Ziemann, A Kaspi, A Khan, R Taylor, H Trahair, I Khurana, H Kaipananickal, S Wallace, A El-Osta, P Myles, K Bozaoglu

(2020), Vol. 7, pp. 2468-2478, ESC Heart Failure, England, C1

journal article

OXPHOS bioenergetic compensation does not explain disease penetrance in Leber hereditary optic neuropathy

M Lopez Sanchez, N Van Bergen, L Kearns, M Ziemann, H Liang, A Hewitt, D Mackey, I Trounce

(2020), Vol. 54, pp. 113-121, Mitochondrion, Netherlands, C1

journal article

Phaeophyceaean (Brown Algal) Extracts Activate Plant Defense Systems in Arabidopsis thaliana Challenged With Phytophthora cinnamomi

M Islam, H Gan, M Ziemann, H Hussain, T Arioli, D Cahill

(2020), Vol. 11, Frontiers in Plant Science, Switzerland, C1

journal article

Assessment of the web-based audience response system socrative for biomedical science revision classes

Matthew McKenzie, Mark Ziemann

(2020), pp. 1-6, International Journal of Educational Research Open, Amsterdam, The Netherlands, C1

journal article

Nuclear response to divergent mitochondrial DNA genotypes modulates the interferon immune response

M Lopez Sanchez, M Ziemann, A Bachem, R Makam, J Crowston, C Pinkert, M McKenzie, S Bedoui, I Trounce

(2020), Vol. 15, pp. e0239804-, PloS one, United States, C1

journal article
2019

Galectin-3 deficiency ameliorates fibrosis and remodeling in dilated cardiomyopathy mice with enhanced mst1 signaling

M Nguyen, M Ziemann, H Kiriazis, Y Su, Z Thomas, Q Lu, D Donner, W Zhao, H Rafehi, J Sadoshima, J McMullen, A El-Osta, X Du

(2019), Vol. 316, pp. H45-H60, American Journal of Physiology - Heart and Circulatory Physiology, United States, C1-1

journal article

Stimulation of β-adrenoceptors up-regulates cardiac expression of galectin-3 and BIM through the Hippo signalling pathway

W Zhao, Q Lu, M Nguyen, Y Su, M Ziemann, L Wang, H Kiriazis, H Puthalakath, J Sadoshima, H Hu, X Du

(2019), Vol. 176, pp. 2465-2481, British Journal of Pharmacology, England, C1

journal article

Digital expression explorer 2: A repository of uniformly processed RNA sequencing data

M Ziemann, A Kaspi, A El-Osta

(2019), Vol. 8, GigaScience, United States, C1

journal article

Genomic DNA methylation distinguishes subtypes of human focal cortical dysplasia

K Kobow, M Ziemann, H Kaipananickal, I Khurana, A Mühlebner, M Feucht, J Hainfellner, T Czech, E Aronica, T Pieper, H Holthausen, M Kudernatsch, H Hamer, B Kasper, K Rössler, V Conti, R Guerrini, R Coras, I Blümcke, A El-Osta, A Kaspi

(2019), Vol. 60, pp. 1091-1103, Epilepsia, United States, C1-1

journal article

Sex-Based Mhrt Methylation Chromatinizes MeCP2 in the Heart

K Harikrishnan, J Okabe, P Mathiyalagan, A Khan, S Jadaan, G Sarila, M Ziemann, I Khurana, S Maxwell, X Du, A El-Osta

(2019), Vol. 17, pp. 288-301, iScience, United States, C1-1

journal article

RNA-seq-based identification of Star upregulation by islet amyloid formation

M Hogan, M Ziemann, H K N, H Rodriguez, A Kaspi, N Esser, A Templin, A El-Osta, S Kahn

(2019), Vol. 32, pp. 67-76, Protein Engineering, Design and Selection, England, C1-1

journal article
2018

Lipoxins regulate the early growth response-1 network and reverse diabetic kidney disease

E Brennan, M Mohan, A McClelland, C Tikellis, M Ziemann, A Kaspi, S Gray, R Pickering, S Tan, S Tasadaque Ali-Shah, P Guiry, A El-Osta, K Jandeleit-Dahm, M Cooper, C Godson, P Kantharidis

(2018), Vol. 29, pp. 1437-1448, Journal of the American Society of Nephrology, United States, C1-1

journal article

RAGE deletion confers renoprotection by reducing responsiveness to transforming growth factor-β and increasing resistance to apoptosis

S Hagiwara, K Sourris, M Ziemann, W Tieqiao, M Mohan, A McClelland, E Brennan, J Forbes, M Coughlan, B Harcourt, S Penfold, B Wang, G Higgins, R Pickering, A El-Osta, M Thomas, M Cooper, P Kantharidis

(2018), Vol. 67, pp. 960-973, Diabetes, United States, C1-1

journal article

Diet during Pregnancy is Implicated in the Regulation of Hypothalamic RNA Methylation and Risk of Obesity in Offspring

A Kaspi, I Khurana, M Ziemann, T Connor, B Spolding, P Zimmet, K Walder, A El-Osta

(2018), Vol. 62, Molecular Nutrition and Food Research, Germany, C1

journal article

Transcription factors Tp73, Cebpd, Pax6, and Spi1 rather than DNA methylation regulate chronic transcriptomics changes after experimental traumatic brain injury

A Lipponen, A El-Osta, A Kaspi, M Ziemann, I Khurana, H Kn, V Navarro-Ferrandis, N Puhakka, J Paananen, A Pitkänen

(2018), Vol. 6, pp. 17-, Acta neuropathologica communications, England, C1-1

journal article

Age-related differential structural and transcriptomic responses in the hypertensive heart

F Marques, P Chu, M Ziemann, A Kaspi, H Kiriazis, X Du, A El-Osta, D Kaye

(2018), Vol. 9, Frontiers in Physiology, Switzerland, C1-1

journal article
2017

Multicellular transcriptional analysis of mammalian heart regeneration

G Quaife-Ryan, C Sim, M Ziemann, A Kaspi, H Rafehi, M Ramialison, A El-Osta, J Hudson, E Porrello

(2017), Vol. 136, pp. 1123-1139, Circulation, United States, C1-1

journal article

Systems approach to the pharmacological actions of HDAC inhibitors reveals EP300 activities and convergent mechanisms of regulation in diabetes

H Rafehi, A Kaspi, M Ziemann, J Okabe, T Karagiannis, A El-Osta

(2017), Vol. 12, pp. 991-1003, Epigenetics, United States, C1-1

journal article

High-fiber diet and acetate supplementation change the gut microbiota and prevent the development of hypertension and heart failure in hypertensive mice

F Marques, E Nelson, P Chu, D Horlock, A Fiedler, M Ziemann, J Tan, S Kuruppu, N Rajapakse, A El-Osta, C Mackay, D Kaye

(2017), Vol. 135, pp. 964-977, Circulation, United States, C1-1

journal article

MeCP2 interacts with chromosomal microRNAs in brain

A Khan, M Ziemann, H Rafehi, S Maxwell, G Ciccotosto, A El-Osta

(2017), Vol. 12, pp. 1028-1037, Epigenetics, Abingdon, Eng., C1-1

journal article

Hypothalamic gene expression is regulated by DNA methylation linking parental diet during pregnancy to offspring's risk of obesity in psammomys obesus

I Khurana, A Kaspi, M Ziemann, T Block, T Connor, B Spolding, A Cooper, P Zimmet, A El-Osta, K Walder

(2017), Vol. 49, pp. S103-S104, Pathology, Amsterdam, The Netherlands, C1

journal article
2016

DNA methylation regulates hypothalamic gene expression linking parental diet during pregnancy to the offspring's risk of obesity in Psammomys obesus

I Khurana, A Kaspi, M Ziemann, T Block, T Connor, B Spolding, A Cooper, P Zimmet, A El-Osta, K Walder

(2016), Vol. 40, pp. 1079-1088, International Journal of Obesity, England, C1

journal article

Set7 mediated interactions regulate transcriptional networks in embryonic stem cells

Natasha Tuano, Jun Okabe, Mark Ziemann, Mark Cooper, Assam El-Osta

(2016), Vol. 44, pp. 9206-9217, Nucleic acids research, Oxford, Eng., C1-1

journal article

Gene name errors are widespread in the scientific literature

M Ziemann, Y Eren, A El-Osta

(2016), Vol. 17, Genome Biology, England, C1-1

journal article

Evaluation of microRNA alignment techniques

M Ziemann, A Kaspi, A El-Osta

(2016), Vol. 22, pp. 1120-1138, RNA, United States, C1-1

journal article

Etiology matters-Genomic DNA Methylation Patterns in Three Rat Models of Acquired Epilepsy

K Debski, A Pitkanen, N Puhakka, A Bot, I Khurana, K Harikrishnan, M Ziemann, A Kaspi, A El-Osta, K Lukasiuk, K Kobow

(2016), Vol. 6, Scientific Reports, England, C1-1

journal article

Current perspectives in Set7 mediated stem cell differentiation

Nazanin Karimnia, Haloom Rafehi, Natasha Tuano, Mark Ziemann, Harikrishnan K N, Jun Okabe, Assam El-Osta

(2016), Vol. 2, pp. 1-8, Non-coding RNA, Basel, Switzerland, C1-1

journal article
2015

Transcriptomics-based analysis using RNA-Seq of the coconut (Cocos nucifera) leaf in response to yellow decline phytoplasma infection

N Nejat, D Cahill, G Vadamalai, M Ziemann, J Rookes, N Naderali

(2015), Vol. 290, pp. 1899-1910, Molecular genetics and genomics, New York , N. Y., C1

journal article

Dynamic changes in the cardiac methylome during postnatal development

Choon Sim, Mark Ziemann, Antony Kaspi, K Harikrishnan, Jenny Ooi, Ishant Khurana, Lisa Chang, James Hudson, Assam El-Osta, Enzo Porrello

(2015), Vol. 29, pp. 1329-1343, FASEB journal, Bethesda, Md., C1-1

journal article

HDAC inhibition attenuates cardiac hypertrophy by acetylation and deacetylation of target genes

Jenny Ooi, Natasha Tuano, Haloom Rafehi, Xiao-Ming Gao, Mark Ziemann, Xiao-Jun Du, Assam El-Osta

(2015), Vol. 10, pp. 418-430, Epigenetics, Abingdon, Eng., C1-1

journal article

RNA sequencing supports distinct reactive oxygen species-mediated pathways of apoptosis by high and low size mass fractions of Bay leaf (Lauris nobilis) in HT-29 cells

Annabelle Rodd, Katherine Ververis, Dheeshana Sayakkarage, Abdul Khan, Haloom Rafehi, Mark Ziemann, Shanon Loveridge, Ross Lazarus, Caroline Kerr, Trevor Lockett, Assam El-Osta, Tom Karagiannis, Louise Bennett

(2015), Vol. 6, pp. 2507-2524, Food & function, Cambridge, England, C1-1

journal article

Identification and expression analysis of the barley (Hordeum vulgare L.) aquaporin gene family

Runyararo Hove, Mark Ziemann, Mrinal Bhave

(2015), Vol. 10, pp. 1-21, PLOS One, San Francisco, Calif, C1-1

journal article

Development of novel activin-targeted therapeutics

Justin Chen, Kelly Walton, Sara Al-Musawi, Emily Kelly, Hongwei Qian, Mylinh La, Louis Lu, George Lovrecz, Mark Ziemann, Ross Lazarus, Assam El-Osta, Paul Gregorevic, Craig Harrison

(2015), Vol. 23, pp. 434-444, Molecular therapy, Amsterdam, The Netherlands, C1-1

journal article

Identification of salt-tolerant barley varieties by a consolidated physiological and molecular approach

A Kamboj, M Ziemann, M Bhave

(2015), Vol. 37, pp. 1-12, Acta physiologiae plantarum, Berlin, Germany, C1-1

journal article

Clinical applicability of methylome sequencing in a pilot study of ischemic stroke individuals

Mark Ziemann, K Harikrishnan, Ishant Khurana, Antony Kaspi, Samuel Keating, Deidre De Silva, Kyaw Moe, Assam El-Osta

(2015), Vol. 2, pp. 11-22, Methods in Next Generation Sequencing, Berlin, Germany, C1-1

journal article
2014

Abiotic stress response in barley and the emergent roles of microRNAs

T Dang, M Ziemann, M Bhave

(2014), pp. 165-192, Barley: physical properties, genetic factors and environmental impacts on growth, Hauppage, N.Y., B1-1

book chapter

Rapid development of non-alcoholic steatohepatitis in Psammomys obesus (Israeli Sand Rat)

B Spolding, T Connor, C Wittmer, L Abreu, A Kaspi, M Ziemann, G Kaur, A Cooper, S Morrison, S Lee, A Sinclair, Y Gibert, J Trevaskis, J Roth, A El-Osta, R Standish, K Walder

(2014), Vol. 9, pp. 1-7, PLoS one, San Francisco, Calif., C1

journal article

Maternal overnutrition programs changes in the expression of skeletal muscle genes that are associated with insulin resistance and defects of oxidative phosphorylation in adult male rat offspring.

C Latouche, S Heywood, S Henry, M Ziemann, R Lazarus, A El-Osta, J Armitage, B Kingwell

(2014), Vol. 144, pp. 237-244, The Journal of Nutrition, Bethesda, Md, United States, C1

journal article

Non-referenced genome assembly from epigenomic short-read data

A Kaspi, M Ziemann, S Keating, I Khurana, T Connor, B Spolding, A Cooper, R Lazarus, K Walder, P Zimmet, A El-Osta

(2014), Vol. 9, pp. 1329-1338, Epigenetics, United States, C1

journal article

Deep sequencing reveals novel Set7 networks

Samuel Keating, Mark Ziemann, Jun Okabe, Abdul Khan, Aneta Balcerczyk, Assam El-Osta

(2014), Vol. 71, pp. 4471-4486, Cellular and molecular life sciences, Basel, Switzerland, C1-1

journal article

Vascular histone deacetylation by pharmacological HDAC inhibition

Haloom Rafehi, Aneta Balcerczyk, Sebastian Lunke, Antony Kaspi, Mark Ziemann, Harikrishnan Kn, Jun Okabe, Ishant Khurana, Jenny Ooi, Abdul Khan, Xiao-Jun Du, Lisa Chang, Izhak Haviv, Samuel Keating, Tom Karagiannis, Assam El-Osta

(2014), Vol. 24, pp. 1271-1284, Genome research, Cold Spring Harbor, N.Y., C1-1

journal article

Endothelial transcriptome in response to pharmacological methyltransferase inhibition

Jun Okabe, Ana Fernandez, Mark Ziemann, Samuel Keating, Aneta Balcerczyk, Assam El-Osta

(2014), Vol. 9, pp. 1755-1762, ChemMedChem, Weinheim, Germany, C1-1

journal article
2013

Motif analysis in DNAse hypersensitivity regions uncovers distal cis elements associated with gene expression

Mark Ziemann, Antony Kaspi, Ross Lazarus, Assam El-Osta

(2013), Vol. 9, pp. 212-215, Bioinformation, [Singapore], C1-1

journal article

OrthoRBH: a streamlined pipeline for mining large gene family sequences in related species

Mark Ziemann, Atul Kamboj, Mrinal Bhave

(2013), Vol. 9, pp. 267-269, Bioinformation, [Singapore], C1-1

journal article

Deep sequencing reveals increased DNA methylation in chronic rat epilepsy

Katja Kobow, Antony Kaspi, K Harikrishnan, Katharina Kiese, Mark Ziemann, Ishant Khurana, Ina Fritzsche, Jan Hauke, Eric Hahnen, Roland Coras, Angelika Mühlebner, Assam El-Osta, Ingmar Blümcke

(2013), Vol. 126, pp. 741-756, Acta neuropathologica, New York, N. Y., C1-1

journal article

Analysis of the barley leaf transcriptome under salinity stress using mRNA-Seq

M Ziemann, A Kamboj, R Hove, S Loveridge, A El-Osta, M Bhave

(2013), Vol. 35, pp. 1915-1924, Acta physiologiae plantarum, New York, N. Y., C1-1

journal article
2012

A pipeline for the identification and characterization of chromatin modifications derived from ChIP-Seq datasets

Antony Kaspi, Mark Ziemann, Haloom Rafehi, Ross Lazarus, Assam El-Osta

(2012), Vol. 94, pp. 2353-2359, Biochimie, Amsterdam, The Netherlands, C1-1

journal article

Investigation into the biological properties of the olive polyphenol, hydroxytyrosol: mechanistic insights by genome-wide mRNA-Seq analysis

Haloom Rafehi, Andrea Smith, Aneta Balcerczyk, Mark Ziemann, Jenny Ooi, Shanon Loveridge, Emma Baker, Assam El-Osta, Tom Karagiannis

(2012), Vol. 7, pp. 343-355, Genes & nutrition, New York, N. Y., C1-1

journal article

Microparticles: major transport vehicles for distinct microRNAs in circulation

Philipp Diehl, Alba Fricke, Laura Sander, Johannes Stamm, Nicole Bassler, Nay Htun, Mark Ziemann, Thomas Helbing, Assam El-Osta, Jeremy Jowett, Karlheinz Peter

(2012), Vol. 93, pp. 633-644, Cardiovascular research, Oxford, Eng., C1-1

journal article

Investigation of the biological properties of Cinnulin PF in the context of diabetes: mechanistic insights by genome-wide mRNA-Seq analysis

Haloom Rafehi, Katherine Ververis, Aneta Balcerczyk, Mark Ziemann, Jenny Ooi, Sean Hu, Faith Kwa, Shanon Loveridge, George Georgiadis, Assam El-Osta, Tom Karagiannis

(2012), Vol. 2, pp. 1-14, Pathobiology of aging and age-related diseases, Abingdon, Eng., C1-1

journal article
2011

PPIase activities and interaction partners of FK506-binding proteins in the wheat thylakoid

Peter Gollan, Mark Ziemann, Mrinal Bhave

(2011), Vol. 143, pp. 385-395, Physiologia plantarum, Chichester, Eng., C1-1

journal article

Genome-wide analysis distinguishes hyperglycemia regulated epigenetic signatures of primary vascular cells

Luciano Pirola, Aneta Balcerczyk, Richard Tothill, Izhak Haviv, Antony Kaspi, Sebastian Lunke, Mark Ziemann, Tom Karagiannis, Stephen Tonna, Adam Kowalczyk, Bryan Beresford-Smith, Geoff Macintyre, Ma Kelong, Zhang Hongyu, Jingde Zhu, Assam El-Osta

(2011), Vol. 21, pp. 1601-1615, Genome research, Cold Spring Harbor, N.Y., C1-1

journal article

Bioinformatic studies of the wheat glutaredoxin gene family and functional analysis of the ROXY1 orthologues

Mark Ziemann, Mrinal Bhave, Sabine Zachgo

(2011), Vol. 38, pp. 25-34, Functional plant biology, Clayton, Vic., C1-1

journal article

Funded Projects at Deakin

Industry and Other Funding

Clinical Biomarker Shoulder Study: Transcriptomic differences between inflammatory conditions of the shoulder: osteoarthritis and rotator cuff tears -The SHOaW Study.

Dr Samuel James Lynskey, Prof Richard Page, Dr Stephen Gill, Prof Sean Mcgee, Dr Mark Ziemann, Dr Luba Sominsky

Australian Orthopaedic Association Research Foundation

  • 2024: $4,988
  • 2023: $14,988

Supervisions

Associate Supervisor
2024

Pratima Vasistha

Thesis entitled: Cross Kingdom Genomics of Arbuscular Mycorrhiza Fungi and its Endophytes

Doctor of Philosophy (Biol & Chem), School of Life and Environmental Sciences