Intergrative Omics via Mass Spectrometry: A workshop on Integrated Biology

Transcription

1 Intergrative Omics via Mass Spectrometry: A workshop on Integrated Biology Monash University Malaysia 5-6 December 2018 Location Monash University Workshop Session 5 December 2018 Building 4, Level 2 Room: Hands-on Session 6 December 2018 Building 3, Level 6 About the workshop Today s scientists face a serious challenge as they try to analyze increasingly larger and more complex sets of data, such as those generated by genomics, transcriptomics, proteomics and metabolomics experiments and especially where mass spectrometry data is acquired. An integrated pathway approach for analyzing data can significantly alleviate bottlenecks and fulfill the ultimate purpose of biological research understanding the biology behind the measurements. One successful approach for translating diverse analytical data into biological understanding is through the projection and visualization of processed data onto biological pathways. This workshop will focus on the value of integrating diverse data sets as well as bringing in meta data to enable greater biological contextualization and understanding. Agenda - Day 1 Lectures in Multi-omics 09:00 a.m. 09:15 a.m. 09:15 a.m. 09:45 a.m. 09:45 a.m. 10:30 a.m. 10:30 a.m. 11:00 a.m. Opening and Welcome Prof. Iekhsan Othman/Robin Philp Introduction to Monash University s Mass Spectrometry Facility Dr. Syafiq Asnawi, Monash University Multi-omics as Tools for Drug Discovery Dr. Dan Cuthbertson, Agilent Coffee Break Register Now > 11:00 a.m. 12:00 p.m. 12:00 p.m. 01:00 p.m. 01:00 p.m. 02:00 p.m. Profiling Workflows in Metabolomics Dr. Charmion Cruickshank-Quinn, Agilent Quantitative Proteomics: Targeted peptide analysis based on metabolic profiling Robin Philp, Agilent Lunch Agenda continues next page

2 Register Now > Agenda continuation from previous page 02:00 p.m. 02:45 p.m. Genomics in multi-omic workflows Dr.Chee Yang Lee, Agilent 02:45 p.m. 04:00 p.m. Correlation Tools for Integrating the Omics, Experimental Design and Data Analysis Strategies for Success Dr. Dan Cuthbertson, Agilent 04:00 p.m. 04:30 p.m. Coffee Break 04:30 p.m. 04:45 p.m. Discussion/End of Workshop Day 1 Agenda - Day 2 Hands-on Software Training 10:00 a.m. 5:00 p.m. Hands-on demonstration *Lunch will be provided All people attending the hands-on training will need to bring their own laptop which can connect to the internet at Monash University (relevant access information will be provided). Agilent Technologies Inc. (NYSE: A) is a global leader in life sciences, diagnostics and applied chemical markets. With more than 50 years of insight and innovation, Agilent instruments, software, services, solutions, and people provide trusted answers to its customers' most challenging questions. The company generated revenues of $4.47 billion in fiscal 2017 and employs 13,500 people worldwide. Information about Agilent is available at This workshop is conducted in collaboration between: This information is subject to change without notice. Agilent Technologies, Inc Published in the Malaysia, 22 Oct 2018

3 Speakers Biography Professor Iekhsan Othman Professor Iekhsan Othman joined Monash University Malaysia in 2006 as Professor of Biochemistry, Deputy Head (Graduate Research) of School. Before joining Monash University, he was a Professor in the Department of Molecular Medicine, Faculty of Medicine, University of Malaya. He is a graduate of Bristol University in Biochemistry and Imperial College of Science, Technology and Medicine, London University with a doctorate in Molecular Neurobiology. His area of research is in the field of neuroscience and neurotoxicology, looking the effect of biologically active molecules from venomous animals such as snake venoms and jellyfish on the nervous system especially on cancer, Alzheimer s disease and epilepsy. With the advancement of proteomics technology, Prof Iekhsan was a pioneer in setting up the Malaysian Proteomic Analysis Facilities (MAPAF), a research facility which was fully sponsored by the National Biotechnology Directorate, Ministry of Science, Technology and Environment (MOSTE), Malaysia, in 2002 in University Malaya. Upon joining Monash, he has successfully setup the proteomics and small molecules analysis facilities under the LCMSMS platform, with him as the Director. This facility comprises of Agilent 6550b ifunnel QTOF coupled with Chipcube nano-esi source/jet stream ESI source, Agilent 6520 Accurate Mass QTOF with Dual ESI source and Agilent 6410 Triple Quadrupole with ESI source. He has also trained more 35 Masters and PhD students, in the field of neurotoxicology and natural products chemistry. He has published more than 100 publications in various international, national and specialized journals in his field of research and currently supervising more than 16 PhD students in Jeffery Cheah School of Medicine and health Sciences. Dr. Syafiq Asnawi Zainal Abidin, Monash University Malaysia, LCMS Platform Dr. Syafiq graduated from Monash University, Clayton Campus, Australia majoring in Medical Biotechnology in After obtaining his first class honours, he embarked on his PhD course in Jeffrey Cheah School of Medicine and Health Sciences, Monash University Malaysia, under the main supervision of Associate Professor Rakesh Naidu and co-supervised by Professor Iekhsan Othman, Associate Professor Md. Ezharul Hoque Chowdhury and Professor Pathmanathan Rajadurai. His PhD was focusing on the anti-cancer activities of purified proteins from the venom of Malaysian pit vipers on human colon cancer cells. He completed his PhD in January 2018 and continued to work with Professor Iekhsan in the Liquid Chromatography Mass Spectrometry Platform, Monash University Malaysia. Throughout his studies, he has acquired the skills and training in various advanced proteomic techniques such as operating and maintaining the Mass Spectrometry system (Agilent QTOF 6520 and Agilent QTOF 6550B ifunnel) and data analysis using various proteomic softwares such as PEAKS (Bioinformatics, Canada) and SpectrumMill (Agilent). Dr. Charmion Cruickshank-Quinn, Agilent Technologies Charmion Cruickshank-Quinn is an LC-MS Applications Scientist at Agilent Technologies where she performs onsite consulting. She received her Ph.D. in Chemistry from SUNY Buffalo where she performed method development for profiling biological samples to determine markers of oxidative stress and autism. For her Postdoctoral fellowship at National Jewish Health, she used targeted and untargeted LCMS-based metabolomics and lipidomics to study asthma and chronic obstructive pulmonary disease. She expanded on this work as Instructor at the University of Colorado Anschutz Medical Campus. There, she worked towards understanding the biological effects of cigarette smoking on a healthy metabolome using emphysema mouse models. She integrated metabolomics and transcriptomics and determined parallels between mouse and human data for translational studies. Charmion currently resides in Denver, Colorado, USA.

4 Speakers Biography Dr. Chee Yang Lee, Agilent Technologies Chee Yang joined Agilent since 2010 and is part of the South Asia Pacific (SAP) Applications Team for the Diagnostics and Genomics Group. His work as a Senior Field Applications Scientist includes providing applications support for the Genomics portfolio of products, such as targeted NGS and microarray for research and clinical research in cancer and human health. He has also been involved in many projects, one of which was utilizing systems that combines liquid chromatography-mass spectrometry with PCR-based assays for viral/microbial detection. Chee Yang completed his Ph.D. at Curtin University in Western Australia and was involved in a wide range of research projects. These include the characterization of the ovine MHC class II region and its association with gastrointestinal parasite resistance, the effects of IgA on parasite resistance in sheep, identification of microsatellites in pedigree testing in Alpacas, as well identifying microsatellites in several crustacean species in environmental studies. Dr. Daniel Cuthbertson, Agilent Technologies Daniel is a post-sales Applications Scientist for Metabolomics at Agilent Technologies focusing on Metabolomics and Chemometrics. He received his Ph.D. from Washington State University where he conducted research in Medicinal and Food Natural Products while managing the Metabolomics Core Facility. At Agilent Technologies he is responsible for onsite consulting including optimization of metabolite extraction conditions, chromatographic separations and mass spectrometry data acquisition conditions. He also teaches a structured Chemometrics course using Mass Profiler Professional and develops new applications for chromatography hyphenated mass spectrometry in the life sciences. His most recent work is focused on drift tube ion mobility mass spectrometry and applications in Environmental Sciences, Metabolomics and Lipidomics. He currently resides in Seattle, Washington, USA. Dr. Erhan Simsek, Agilent Technologies Erhan obtained his BSc, MSc and PhD in chemistry from National University of Singapore. His PhD, which was sponsored by Singapore Economic Development Board (EDB) and Agilent Technologies under Industrial Postgraduate Program (IPP), focused on discovery metabolomics using LC-QTOF. Prior to that, Erhan was with Republic Polytechnic as a teaching staff and also took part in an EDB sponsored attachment program at Novartis Institute for BioMedical Research (NIBR) in Basel, Switzerland. His current role in Agilent Technologies is Academia & Collaborations Specialist covering South East Asia. Robin Philp, Agilent Technologies With a background in biochemistry and protein biochemistry Robin worked at the Imperial Cancer Research Fund and the Ludwig Institute for Cancer Research in London before moving to Oxford GlycoSciences. Following that he moved to Singapore where he ran the department of Proteomics at A*STAR s Bioprocessing Technology Institute and then in 2008 joined Agilent Technologies as a specialist in mass spectrometry and is now the Academic and Collaborations Manager for Singapore, Malaysia and Thailand.

5 About the workshop Today s scientists face a serious challenge as they try to analyze increasingly larger and more complex sets of data, such as those generated by genomics, transcriptomics, proteomics and metabolomics experiments and especially where mass spectrometry data is acquired. This workshop will focus on the value of integrating diverse data sets as well as bringing in meta data to enable greater biological contextualization and understanding Location: Monash University Malaysia, Lecture/Conference Room, (Building 4 Level 2) Date 5 th -6 th December 2018 Lecture Session 5 th December 2018 Hands-on Session 6 th December 2018 Speakers/Demonstrators Dr. Dan Cuthbertson Senior Application Scientist for Integrated Biology, Agilent U.S.A Dr. Charmion Cruickshank-Quinn Applications Scientist, Agilent U.S.A Dr. Erhan Simsek Academia Specialist, Agilent Mr. Robin Philp SEA Academia and Collaborations Manager, Agilent Agenda Day am 9.00 am Registration 9.00 am 9.15 am Opening and Welcome Head of School LCMS Platform Director 9.15 am am Introduction to Monash University Malaysia LCMS Platform Prof. Iekhsan Othman/ Dr. Syafiq Asnawi am am Multi-omics as Tools for DrugDiscovery Dr. Charmion Cruickshank-Quinn am am Coffee Break am pm Metabolomic Profiling and Live Cell Analysis Dr. Erhan/Dr. Charmion/Dr. Dan 12.15pm 1.45pm Lunch Break 1.45pm 2.45pm Quantitative Proteomics: Targeted Peptide Analysis based on Metabolic Profiling Robin Philp 2.45pm 3:30pm Genomics in Multi-omic workflows Robin Philp 3.30pm 4.00 pm Tea Break 4.00pm 4.45pm Bringing it all together: Integration of Multi-omic data Robin Philp 4.45pm 5.00pm Discussion and end of Day 1

6 Who should attend? Professional/Academic staff, students, and scientists who wish to learn the fundamentals and concept of multi-omics. Experience in mass spectrometry is advantageous but not a requirement Fees: This workshop is free of charge Registration and Inquiries please contact: Dr. Syafiq Asnawi (syafiq.asnawi@monash.edu) Ms. Nurziana Sharmilla (nurziana.sharmilla@monash.edu) Ms. Camelia Marsha Mihjoot (camellia.marsha@monash.edu) Agenda Day am 5.00 pm Hands on workshop with MPP and Pathway Architect Software* *Lunch and Tea Breaks provided. Attendees for the hands-on training will require to bring their own laptop (Internet access will be provided) REGISTER NOW This workshop is conducted in collaboration between: