A NSW Government website

On

Institute of Precision Medicine & Bioinformatics

The Institute of Precision Medicine & Bioinformatics (IPM&B) was established in 2020 to enhance precision medicine (genomics and other omics) for patient care and research, and progress bioinformatics expertise and infrastructure within the District.

Precision medicine approaches utilise knowledge of an individual’s DNA, metabolomics, proteomics and other omics to identify the appropriate clinical interventions (treatments or preventive strategies) required to maintain health and wellbeing. The IPM&B’s vision is to ensure that the benefits of precision medicine are rapidly and effectively implemented into the clinical care of patients and their families at Sydney Local Health District.

Our Goals

  • Mainstreaming genomic testing across a growing number of disciplines, including respiratory and cardiovascular medicine, nephrology, immunology, neurology and rare genetic disorders via the mentoring of clinical champions in each discipline.
  • Expanding the range of personalised patient-specific therapies in cancer, including the ability to detect circulating tumour DNA (liquid biopsy).
  • Identifying at risk family members and using this knowledge to initiate early preventive or therapeutic interventions.
  • Prenatal screening and testing during pregnancy using non-invasive approaches.
  • Providing news and educational resources relevant to precision medicine, including the impact of artificial intelligence.
  • Building a Precision Medicine Consumer Group.

Research Themes

Scientist in a lab coat; performing tests in a lab
SydneyConnect Image: Scientist in the Medical Genomics laboratory

Our Researchers

Professor Ron Trent Director
Associate Professor Bing Yu Academic and Honorary Principal Hospital Scientist
Dr Anthony Cheong Genetic Pathologist
Dr Lisa Worgan Head, Clinical Genetics Service
Dr Amali Mallawaarachchi Clinical Geneticist
Dr Felicity Collins Clinical Geneticist
Dr Alison McLean Clinical Geneticist
Professor David Sullivan Head, Chemical Pathology
Dr Jay Ramanathan Staff Specialist (Clinical Pharmacology)
Dr Abdul Baten Genomics Bioinformatician
Dr Hugh French Genetic Pathology Registrar

Precision Oncology Research & Development

Associate Professor Bing Yu Academic and Honorary Principal Hospital Scientist
Cassandra Bruce Senior Hospital Scientist
Spiridoula Kraitsek Hospital Scientist
Jie Qian Hospital Scientist
Dan Chen Hospital Scientist

Clinical Trials in Familial Hypercholesterolaemia and Porphyria

Professor David Sullivan Head, Chemical Pathology
Professor Peter Stewart Clinical Director, Chemical Pathology
Kerry Kearins Registered Nurse, Study Coordinator
Darcie Kavanagh Registered Nurse
Nicole Lai Dietician

Selected Grants

Amount awarded Grant and project details
$3,000,000 MRFF Genomics Health Future’s Mission, 2021-2025
The Kidgen National Kidney Genomics Program.
Investigator: Mallawaarachchi A (CIF)
$3,000,000 MRFF, 2023-2026
A national long-read genome sequencing program to improve rare disease diagnosis.
Investigator: Mallawaarachchi A (CII)
$2,572,403 MRFF, 2020-2026
Implementation of Metformin therapy to Ease Decline of Kidney Function in PKD.
Investigator: Mallawaarachchi A (CIJ)
$1,000,000 MRFF Early to Mid-Career Researchers, 2022-2026
Harnessing nanopore sequencing technology to improve diagnosis of human disease.
Investigators: Mallawaarachchi A (CIC), Cheong A (CI),  French H (Associate Investigator)
$1,000,000 MRFF Genomics Health Future’s Mission, 2022-2026
Developing a long-read nanopore sequencing platform for Indigenous genomics
Investigator: Mallawaarachchi A (CIE)

Clinical Trials

Study Details
AROAPOC3-3001 Phase 3 Study to Evaluate the Efficacy and Safety of ARO-APOC3 in Adults with Familial Chylomicronemia Syndrome (X22-0061)
Sullivan, D (PI for RPA)
AROAPOC3-2003 Open label study of Elevated Triglycerides study (X22-0073)
Sullivan, D (PI for RPA)
Victorian 1 Prevent Outcomes study in ASCVD (X23-0221)
Sullivan, D (PI for RPA)
MK 0616-017 Phase 3 RCT Oral PCSK9 in adults with HeFH (X23-0301)
Sullivan, D (PI for RPA)
MK 616-015 Phase 3 outcomes study for MK0616 in reducing Major CV events in patients at high patients with high CV risk (X23-0429)
Sullivan, D (PI for RPA)
ISIS678354-CORE Randomized, Double-Blind, Placebo-Controlled, Phase 3 Study of ISIS 678354 Administered Subcutaneously to Patients with Severe Hypertriglyceridemia (X22-075)
Sullivan, D (PI for RPA)
CTQJ230A12301 (HORIZON) Phase 3 randomized double-blind, placebo-controlled, multicenter trial assessing the impact of lipoprotein (a) lowering with pelacarsen (TQJ230) on major cardiovascular events in patients with established cardiovascular disease (X20-0269)
Sullivan, D (PI for RPA)
AROANG3-2003 Phase 2 Study to Evaluate the Safety and Efficacy of ARO-ANG3 in Subjects with Homozygous Familial Hypercholesterolemia (HoFH) (X22-073)
Sullivan, D (PI for RPA)
AROAPOC3-2001 Double-Blind, Placebo-Controlled Phase 2b Study to Evaluate the Efficacy and Safety of ARO-APOC3 in Adults with Severe Hypertriglyceridemia (X21-0223)
Sullivan, D (PI for RPA)
20180109 Olpasiran trials of Cardiovascular Events And LipoproteiN(a) reduction – DOSE Finding Study (OCEAN[a]-DOSE)
Sullivan, D (PI for RPA)
20210057 Multicenter, Cross-sectional study to Characterize the distribution of lipoprotein(a) levels among patients with documented history of atherosclerotic cardiovascular disease (ASCVD)
Sullivan, D (PI for RPA)
DISC-1459-501 An Open-Label, Long-Term Study to Investigate the Safety, Tolerability, and Efficacy of DISC-1459 (Bitopertin) in Participants with Erythropoietic Protoporphyria (EPP)
Stewart, P (PI for RPA)
DISC-1459-202 A Phase 2, Randomized, Open Label Study of Bitopertin to Evaluate the Safety, Tolerability, Efficacy, and Protoporphyrin IX (PPIX) Concentrations in Participants with Erythropoietic Protoporphyria (EPP)
Stewart, P (PI for RPA)

Our Publications

2023

Banuelos R, Mallawaarachchi A, Doyle H, Mogra R. Oligohydramnios or Anhydramnios and Ultrasonically Normal Renal Echotexture Secondary to Autosomal Recessive Renal Tubular Dysgenesis: An Important Consideration in the Prenatal Setting. Fetal Diagn Ther. 2023; 50(1):17-21. PMID: 36652927. DOI: 10.1159/000529081. Epub 2023 Jan 18. 
Byrne A, Art P, … Collins F, et al.   Genomic Autopsy to identify underlying causes of pregnancy loss and perinatal death. Nature Medicine (2023) 29:180-189. PMID: 36658419. PMCID: PMC10333122. DOI: 10.1038/s41591-022-02142-1. Epub 2023 Jan 19.
Chowdhury MA, Islam MR, Amin A, Mou SN, Ullah KN, Baten A, et al. Integrated transcriptome catalog of Tenualosa ilisha as a resource for gene discovery and expression profiling. Scientific Data. 2023 Apr 17; 10(1):214. PMID: 37062771. PMCID: PMC10106452. DOI: 10.1038/s41597-023-02132-z
Hort Y, Sullivan P, Wedd L, Fowles L, Stevanovski I, Deveson I, Simons C, Mallett A, Patel C, Furlong T, Cowley MJ, Shine J, Mallawaarachchi A. Atypical splicing variants in PKD1 explain most undiagnosed typical familial ADPKD. NPJ Genom Med. 2023 Jul 7;8(1):16. PMID: 37419908. PMCID: PMC10328916. DOI: 10.1038/s41525-023-00362-z
Jamal J, Idris H, Faour A, Yang W, McLean A, et al. Late outcomes of ST-elevation myocardial infarction treated by pharmaco-invasive or primary percutaneous coronary intervention. European Heart Journal. 2023 Feb 7;44(6):516-28. PMID: 36459120. DOI: 10.1093/eurheartj/ehac661
Karas PL, Cheong PL, Low T. Hereditary haemorrhagic telangiectasia: diagnosis, screening and management. Medicine Today (2023) 24(5):45-52.
McLean A, Tchan M, Devery S, Smyth R, Shrestha R, Kumar KR, Tomlinson S, Tisch S, Wu KH. Informing a value care model: lessons from an integrated adult neurogenomics clinic. Internal Medicine Journal. 2023 Dec; 53(12):2198-2207. PMID: 37092903. DOI: 10.1111/imj.16103
Moxham R, Tjokrowidjaja A, Devery S, Smyth R, McLean A, Roberts DM, Wu KH. Clinical utilities and end-user experience of pharmacogenomics: 39 mo of clinical implementation experience in an Australian hospital setting. World Journal of Medical Genetics. 2023 Dec 20;11(4):39-50. DOI: 10.5496/wjmg.v11.i4.39
Palmer EE, Pusch M, Picollo A, …Collins F, et al. Functional and clinical studies reveal pathophysiological complexity of CLCN4-related neurodevelopmental condition. Mol Psychiatry. 2023; 28(2):668-697. PMID: 36385166. PMCID: PMC9908558. DOI: 10.1038/s41380-022-01852-9
Saffari A, Lau T, Tajsharghi H, Karimiani EG, Kariminejad A, … Collins F, et al. The clinical and genetic spectrum of autosomal-recessive TOR1A-related disorders, Brain. 2023 146(8):3273–3288. PMID: 36757831. PMCID: PMC10393417. DOI: 10.1093/brain/awad039
Sullivan PJ, Gayevskiy V, Davis RL, Wong M, Mayoh C, Mallawaarachchi A, et al. Introme accurately predicts the impact of coding and noncoding variants on gene splicing, with clinical applications. Genome Biol. 2023 May 17;24(1):118. PMID: 37198692. PMCID: PMC10190034. DOI: 10.1186/s13059-023-02936-7
Willcox D, Trent RJA et al. Making good on the promise of genomics in healthcare: the NSW Health Perspective. Australian Health Review. 2023; 47:631-633. PMID: 37844625. DOI: 10.1071/AH23112
Wu Y, Jayasinghe K, Stark Z, Quinlan C, Patel C, McCarthy H, Mallawaarachchi AC, Kerr PG, Alexander S, Mallett AJ, Goranitis I; KidGen Collaborative investigators. Genomic testing for suspected monogenic kidney disease in children and adults: A health economic evaluation. Genet Med. 2023 Nov; 25(11):100942. PMID: 37489581. DOI: 10.1016/j.gim.2023.100942. Epub 2023 Jul 22.
Vos N, Reilly J, Elting MW, … Collins F, et al. DNA methylation episignatures are high sensitivity and specificity biomarkers for detection of patients with pathogenic KAT6A and KAT6B variants. Epigenomics, 2023.15(6). DOI: 10.2217/epi-2023-0079
Xu J, Dai Y, Gao Y, Chai R, Lu C, Yu B, Kang Y, Xu C. RAD51D Secondary Mutation-Mediated Resistance to PARP-Inhibitor-Based Therapy in HGSOC. International Journal of Molecular Sciences. 2023 Sep 23;24(19):14476. PMID: 37833926. PMCID: PMC10572335. DOI: 10.3390/ijms241914476

More Information

For more information about the Institute, visit our website