Summary of HIR Equipment (2012-2013) - High Impact Research

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HIR-MOHE EQUIPMENT 2012 - 2013 (CHANCELLORY)Estimated budgetApproved Budget (After VM Lab)Quantity Country ofJustification ofAdditional informationNo PI's Name Title EquipmentYear 2 & 3Details/unitoriginpurchase(space/utilities eg electric, software etc)(2012 & 2013 )2012 (RM) 2013 (RM) Total (RM)7 Dr. Faisal Rafiq Mahamd Integrated Photonics for 1 Low temperature45,000 45,000 - 45,000 1 UK A pyrometer is essentially a type of temperature sensor. It Our fibre drawing tower is the only one in South East Asia at the No additional space required. This item is small and will beAdikanBiosensorspyrometerwill be fitted into our optical fibre drawing tower to output moment. Equiping the tower with such pyrometer will extend its fitted to our furnace.temperatures ranging from 200 degrees celcius up to 2100 capability to operate on soft glasses and novel materials - highdegrees celcius.impact.2 Optical spectrum70,000 70,000 - 70,000 1 US/Japan Optical spectrum analysers provides wavelength information. Optical spectrum analysers are common test and measurement Benchtop. No additional space or facilities required.analyserThe basis of sensing in our project focuses on wavelength equipment in any optical laboratory.(IR wavelengthdynamics.region)3 Optical spectrum60,000 60,000 - 60,000 1 US/Japan Optical spectrum analysers provides wavelength information. Optical spectrum analysers are common test and measurement Benchtop. No additional space or facilities required.analyserThe basis of sensing in our project focuses on wavelength equipment in any optical laboratory.(UV wavelengthdynamics.region)4 Tunable laser source 75,000 75,000 - 75,000 1 US/Europe/ A laser source is complementary to a spectrum analyser. The Similar to optical spectrum analysers, tunable sources are common Benchtop. No additional space or facilities required.Japan wavelength emitted by the laser source will be detected by in any optical laboratory.the spectrum analyser.5 Clean room, wet200,000 - - 0 1 Local A clean environment and a support facility that would allow NO LONGER REQUIRED.N/A.bench and facilitiessurface functionalisation of sensor chips.We will rely on a central facility and sister laboratories.We wish to reallocated the budget to purchase items related toglass processing.6 High temperature50,000 - - 0 1 Japan/ Europe A box furnace for glass melting and shaping. NO LONGER REQUIRED.N/A.silicon carbideWe will rely on a central facility and sister laboratories.furnaceWe wish to reallocated the budget to purchase items related toglass processing.7 Various optics and50,000 50,000 - 50,000 numerous Local/ Europe/ US These include lenses, mirrors, mounts, drills, tool sets. The Important sundry items for operation of tower and alsoSmall items. No additional space or facilities required.mechanical toolsitems will find use either in our characterisation lab or the characterisation set up.fibre tower.8 Scopes and power100,000 - 100,000 100,000 numerous Local/ Europe/ US The oscilloscopes and power meters provide time, frequency Important test and measurement items for characterisation of Benchtop. No additional space or facilities required.metersand power measurement capabilities.fabricated sensors.9 Laser sources 35,000 - 35,000 35,000 1 US/ Europe/ A laser source is complementary to a spectrum analyser. The Similar to optical spectrum analysers, these laser sources are Benchtop. No additional space or facilities required.Japan wavelength emitted by the laser source will be detected by common in any optical laboratory.the spectrum analyser.10 Optical benches 50,000 - 50,000 50,000 1 US/ Europe/ A vibration insensitive bench, with necessary accessories. We anticipate that the laboratory will expand, and therefore the Typically measuring 1m by 2.5m. A room measuring 3mJapanneed for more workspace.by 3m would be needed. The space for needed has beenearmarked.11 Reserved for major75,000 - - 0 numerous Local/ Europe/ USequipment followingprogress of project12 Glass Processing- 205,650 - 205,650 Approved at the VM LABEquipmentsPotential users/research groupsFrequency and intensity of usage810,000.00 505,650.00 185,000.00 690,650.008Emeritus Prof. Dr. Lam SaiKitSpecial Equipments1 Femtosecond laser 1,300,000 1,300,000 - 1,300,000 1 Japan/USA Femtosecond laser is a standard laser system for Currently several groups in UM are actively doing research Lab space available in HIR Building.Photonics and ultrafast science researchers in Frequently used (5 days per week) and eachresearch at the frontier of laser science that can in the field called ultrafast laser science and femtosecond Meeting with architect, mechanical & electrical physics, chemistry and biology.experiment will run up few hours to 1 day.produce a pulse of photons that is shorter than a laser. Without this equipment we cannot conduct high engineer done. Software included.Optical physics, femtosecond laser groups.picosecond.precision measurements at and beyond current state of the A medium size (10'x10') instrument, needs air-cond Able to generate results for Tier 1 papers such asExperiments utilizing that technique it is useful to art. This will impede HIR work on femtosecond studies and and clean room which is available. Without this Nature Photonics, PNAS, Science, Nature, as perobserve atomic in molecular processes in chemical the HIR researchers will be unable to publish work in top Tier instrument, no femto-second research can proceed. thephotonics and femtosecond laser researchers asreactions in gases, liquids and solids, and also in 1 journals in this area. Physicists and chemists in UM need Experience researcher will be hired to manage thementioned.catalytic processes and biological materials. This laser this instrument to study reactions which no instruments are use of the equipment for research. The price wasAt least 10 PhD and 20 MSc students will be trainedwill provide new tool to create attosecond pulse able to detect. Exisitng femtosecond system was refurbished obtained from quotation by vendor.per PI using this instrument. This unit will enabletechnology for imaging electronic states. It is widely from an old one has poor and unreliable performance, with Frequently used (5 days per week) and eachUM to create niche area in whole genome research.used in quantum nonlinear optics, multiphoton restricted features such as limited power to conduct many experiment will run up few hours to 1 day.spectroscopy and microscopy (fluorescencenovel nonlinear optics experiments. Thus, we need state ofmicroscopes), micro-machining, femtochemistry, the art femtosecond laser in UM, since it is a bottleneck andmedical imaging Terahertz (T-rays) generation and hindering all related work in UMdetection and frequency comb generation.2 High performance400,000 400,000 - 400,000 1 USA This is a versatile system handles gel sandwiches, agarose and Bacause it has highly sensitive optics enable directIt is a table top size instrument and hence requires biologist, pharmacologist,Frequently used (5 days per week) and eachblot imagerpolyacrylamide gels, membranes, microplates, and even chemiluminescent imagingno big space at the HIR Building.molecular biologist, chemists working in imaging of experiment will run up few hours to 1 day.microarrays. It has red-, green-, and blue-excitation without intermediate exposure to films or screens. Moreover, it has Software is included.that needs storage phosphor technology. All userswavelengths and a wide choice of emission filters enable automated four-color fluorescence scanning allows multiplexing of Routinely and frequently used (5 days per week) that work on data imaging involvingimaging of an extensive variety of fluorophores and sensitive multiple targets in the same sample ensuring accuracy of analysis, and each usage will take few hours daily.bioluminescence, chemiluminescence, fluoresence.detection of low-abundance targets. Storage phosphor increasing throughput, and saving time. With this unit, manyThis is a peripheral yet essential instruments totechnology delivers high-resolution imaging and accurate blotting and hybridization work (Western, Souther, Nothern,support all other high throughput instruments thatquantitation of 3H, 14C, 125I, 32P, 33P, 35S, and other colony dot blot) can be done effortlessly and save time, chemicals,require massive blot imaging.sources of ionizing radiation.labour and fast delivery of results. This save time from few days tohour and enable speedy process for HIR research.3 Microarray withscanner, nanoprinter,software androbotics arm1,600,000 1,600,000 - 1,600,000 1 USA/Germany DNA microarrays can be used to detect DNA (as in Only one old unit available in UM which is old and not Lab space available in HIR Building. Meeting with Potential users include biologist, pharmacologist, Due to the autamated operation, this instrument cancomparative genomic hybridization), or detect RNA upgradable,architect, mechanical & electrical engineer done. molecular biologist, medical scientists. This is the be frequently used (5 days per week) and each usage(most commonly as cDNA after reverse transcription) and unable to fulfil current research needs. Microarray and Software included to analyse global gene expression instrument that can capture genes expression will take few hours to 1 day.that may or may not be translated into proteins. The scanner are required and it is now regarded as "routine" and quantitation of gene activity. A room size of regulation at spatio-temporal manner, and useful toprocess of measuring gene expression via cDNA is instrument in technologically advance labs. UM researchers 15'x15' with air-con.all users ranging from cancer studies, cell cycle, tocalled expression analysis or expression profiling. need this to study global genes expression and spatiotemporalgenes/genome expression is only possible with the can proceed.This is the instrument routinelyWithout this instrument, no genome expression work bacterial and viral genomic work.Applications on gene expression profiling, ChiP, SNPAble to generate results for Tier 1 papers such asdetection, genome expression profiling and comparative availability of this instrument. Microarray data have been available in Caltech, Imperial College, ParisNature, Science, PNAS, for all the users of thisgenomes, drug action mechanism, DAMID etc. accepted for publication in reputable Tier 1 journal such as University, Nottingham, London University, UCL,instrument as mentioned.Nature Genetics, Cell, PNAS etc.Cambridge etc.At least 5 PhD and 10 MSc students will be trainedDue to the autamated operation, this instrument canbe frequently used (5 days per week) and eachper PI using this instrument. This unit will enableusage will take few hours to 1 day.UM to create niche area in whole genome research.4 GS FLX+ NGS/pyrosequencer2,400,000 2,400,000 - 2,400,000 1 USA The GS FLX+ System is a pyrosequencer that has FLX+ NGS pyrosequencer is the latest unit in the market Lab space available in HIR Building.Target users including biologist, pharmacologist, Routinely and frequently used, and typical run lastssequence genomes in short time, with thewhich is released in Nov 2011. No such instruments Meeting with architect, mechanical & electrical molecular biologist, medical scientists studying for 10 days. It is anticipated that this instrument willcombination of long reads, exceptional accuracy and in UM/ South East Asia. UM researchers need it to perform engineer done. Genome sequences and gene whole genome, metagnome, transcriptome, exome, be heavily use as only 3-10 runs per month ishigh-throughput, making the system well suited for personalised genome sequencing, and plant, animal, annotation, analysis softwares are included. A room epigenetics sequencing, genes expression and possible.larger genomic projects. Advancements in sequencing bacteria whole genome sequencing can only be done using size of 13'x13' with air-con. Without this instrument, analysis. This is the instrument that can performchemistry, instrumentation and software offer the latest this instrument. This instrument since its invention few years no genome sequencing research can proceed. whole genome sequencing in less than 1 week. It isimprovements in GS FLX System performance, with back, it has made it to Nature, Science, J. Bacteriology, etc. Routinely and frequently used, and typical run lastsalso useful to all users ranging working on cancerread lengths up to 1 kb.for 10 days. It is anticipated that this instrument willstudies to microbial genomic work.be heavily use as only 3-10 runs per month isAt least 10 PhD and 20 MSc students will be trainedpossible.per PI using this instrument. This unit will enableUM to create niche area in whole genome research.- updated on 2nd March 2012 -
HIR-MOHE EQUIPMENT 2012 - 2013 (CHANCELLORY)No PI's Name Title Equipmentfluorescence5scanning forcemicroscope with ionchanneling platformEstimated budgetApproved Budget (After VM Lab)Quantity Country ofJustification ofAdditional informationYear 2 & 3DetailsPotential users/research groupsFrequency and intensity of usage/unitoriginpurchase(space/utilities eg electric, software etc)(2012 & 2013 )2012 (RM) 2013 (RM) Total (RM)1,500,000 1,500,000 - 1,500,000 1 Korea/USA Scanning force microscope is a high-resolution imaging This unit is measuring imaging at the atomic level, providing Lab space available in HIR Building.All researchers that requires high resolution imaging Frequently used (5 days per week) and eachtechnique that can resolve features as small as an unparallel resolution. It's now most commonly used to Meeting with architect, mechanical & electrical of large variety of surface material analysis for experiment will run up few hours to 1 day.atomic lattice in the real space. It allows researchers to perform very precise, 3D measurements on the angstrom-tomicrometerscale. It is needed for publications work that Without this instrument, no surface analysis and ion and engineers, and biologist.engineer done. Imaging software is included. material scienctists, advanced material researchersobserve and manipulate molecular and atomic levelfeatures.require visualisation as 'direct evidence' that is needed for movement research can proceed.Able to generate results for Tier 1 papers such asAtomic Force Microscopy has much broader potential Tier 1 publication. Without this instrument in UM,Frequently used (5 days per week) and each PNAS, Science, Nature, Nature Methods, Currentand application because it can be used for imaging any researchers can only outsourcing it to overseas partner, experiment will run up few hours to 1 day.Opinion in Structural Biology, as per the groups ofconducting or non-conducting surface.which are impractical and delaying results; or the work hasresearchers as mentioned.It provides the ability to view and understand events as been infinitely postponed. Also it is more economical inAt least 10 PhD and 20 MSc students will be trainedthey occur at the molecular level which will increase our terms of time and cost to own this.using this instrument. This unit will enable UM tounderstanding of how systems work and lead to newdiscoveries in many fields. These include life science,create niche area in whole genome research.materials science, electrochemistry, polymer science,biophysics, nanotechnology, and biotechnology6 Liquid handling400,000 400,000 - 400,000 1 USA It is fully automated platforms for liquid handling and Only one old unit available in UM which is old and not Lab space available in HIR Building.All researchers that requires highThis instrument will be heavily used on a daily basissystemfront-end sample processing and is designed for walkawayconvenience and reliability. The workstation and unable to fulfil current research needs. This is a routine engineer done. No software included. A small,requiring massive liquid handling.upgradable,Meeting with architect, mechanical & electrical throughput liquid handling platform.for researchers that needs to do research workfeatures several new innovations which ensure highprecisionpositioning and liquid transfer. The robotic man power, hence it will increase both productivity and laboratorius to do liquid handling work manually.instrument that typically require to reduce over-dependent on stand alone item. Without such instruments, it ishandling, automated vacuum, and buffer delivery efficiency.This instrument will be heavily used on a daily basissystems ensure high-performance processing withoutfor researchers that needs to do research workoperator interaction. It can handle 8-channel pipettingrequiring massive liquid handling. It also providessystem rapidly up to 384-well formats.support to other high throughput instruments likeMicroarray and NGS sequencers.7 QTOF GC-MS/MS 1,600,000 1,600,000 - 1,600,000 1 USA Q-TOF GC MS/MS is a powerful analytical chemistry This tandem gas chromatography mass spectrometry is Lab space available in HIR Building.Potential users typically involve chemist,Frequently used (5 days per week) and eachtechnique that is used to elucidate the structure needed by many research groups in UM working on volatile Meeting with architect, mechanical & electrical phytochemist,experiment will run up few hours to 1 day.and chemical properties of molecules and quantify trace compounds. Because no such instruments in UM, hence engineer done. Molecule mass identification and natural products scientists and pharmacist.levels of compounds in complex matrices notably the many research involving volatile fatty acids/compounds, database softwares are included.A room size of At least 5 PhD and 10 MSc students will be trainedvolatile ones. This is well-suited for analyzing target essential oils, pollutants (air/soild/liquid), toxins, small 22'x22' with air-con. Without this instrument, it is using this instrument.compounds and unknowns in challenging applications molecules have been suspended or interrupted at the impossible to do research on identification ofsuch as metabolomics, food safety, natural products molecular mass determination and molecule structure unknown, de novo compounds particularly thoseresearch, environmental analysis, sports-doping elucidation steps. LC-MSMS cannot perform similar function volatile that present in trace amount.detection, and energy researchas GC-MSMS.Many work reported in reputable journals includingJ. Bacteriology, Environmnetal Microbiology, AppliedEnviromental Microbiology, Nature Biotech relied onthis instrument for compound analysis.8 BIOLOG1,500,000 1,500,000 - 1,500,000 1 USA Phenotype MicroArrays (PMs) represent the third major No such instruments in UM although a much older version It is a table-top size instrument that bundled with a This is typically needed by biologist, pharmacologist,Phenotypetechnology, alongside DNA Microarrays and Proteomic has been bought in 1996. No software and hardware support workstation and requires a computer table. Lab microbiologist, medical scientists that studyMicroarrayTechnologies, that is needed in the genomic era of is given by the vendor for the old unit. The new unit can space is available in HIR Building.bacterial identification, carbon ultisation, and drugresearch and drug development. Just as DNAperform what has been routinely done i.e. microbialMeeting with architect, mechanical & electrical discovery.Microarrays and Proteomic Technologies have made it identification, it can also use for drug discovery. This unique engineer done. Bcaterial identification database and At least 10 PhD and 20 MSc students will be trainedpossible to assay the level of housands of genes or feature is vital to all researchers working on pharma-related softwares are included.A room size of 10'x10' with aircon.Without this instrument, no automated bacterialexperiment will run up few hours to 1 day.Frequently used (5 days per week) and eachper PI using this instrument.proteins all at once, Phenotype MicroArrays make it field, ranging from medical, pharmacy, pharmacology, naturalpossible to quantitatively measure thousands of cellular products, to clinical studies of drugs. It is an important for ID, phenomics and drug discovery research canphenotypes all at once. This instrument is important for microbiological work publishable in all Tier 1 microbiology proceed.drug discovery as well.papers including J. Bacteriology, Microbiology, AppliedEnvironmental Microbiology etc.9 Illumina HiSeq4,300,000 4,300,000 - 4,300,000It is important for high-density genotyping, CNV Unlike the other NGS sequencer including the FLX+ unit Lab space available in HIR Building.Target users including biologist, pharmacologist, Routinely and frequently used, and typical run lastsNGS/analysis,above, HiSeq is the single, most reported instruments that Meeting with architect, mechanical & electrical molecular biologist, medical scientists that requires for 10 days. It is anticipated that this instrument willpyrosequencerDNA methylation, and gene expression profiling. It is a authors in Nature, Science, PNAS, Cell, EMBO etc relied engineer done. Genome sequences and gene very high accuracy whole genome, metagnome, be heavily use as only 3-10 runs per month iscutting-edge, dedicated array scanner that supports upon. The sequence read length though is shorter, but it has annotation, analysis softwares are included. A room transcriptome, exome, epigenetics sequencing. possible.rapid, sensitive, and accurate imaging of Illumina's a higher accuracy (>98%) as compared to other NGS size of 13'x13' with air-con. Without this instrument, At least 10 PhD and 20 MSc students will be trainedarray-based genetic analysis products.sequencer. Because there is no such instruments in UM, no genome sequencing research can proceed. per PI using this instrument. This unit will enablemany genome studies have been crompromised or very A full operation of this instrument will run for 10 daysUM to create niche area in whole genome research.1 USAcostly to out-source, which is also troublesome to maintain although routine use will take only 1-5 days. It isthe data quality as this is a comprehensive sequencing anticipated that this instrument will complement theplatform.FLX+ instrument to generate tera bases of DNAfrom whole genome of plant and animal. Mostgenome work can be published in Nature, Science,PNAS, J. Bacteriology, BMC Genomics, PLoSBiology; which have relied heavily on HiSeq.10 PacBio SingleMolecule Real timeSynthesis (SMRT)Instrument11 ultrasensitive highthroughputthermodynamiccalorimeter12 Fully IntegratedWorkstationsolution system3,500,000 3,500,000 - 3,500,0001 USA800,000 800,000 - 800,0001 USA948,000 948,000 - 948,000 1 USA/GermanyIt is important for animal, plant and bacteria whole The power of single molecule, real-time, (SMRT) detection Lab space available in HIR Building.Target users including bioinformaticians, system Routinely and frequently used, and typical run lastsgenome sequences, high-density genotyping, SNP extends beyond DNA sequencing to the detection and Meeting with architect, mechanical & electrical biologist, bacteriologist, virologits, molecular for 5 hours. It is anticipated that this instrument willanalysis,characterization of other fundamental biological functions. engineer done. Genome sequences and gene biologist, medical scientists that requires very high be heavily used on a daily.epigenetics and global genes expression profiling. It is SMRT platform will define a new paradigm in biological annotation, analysis softwares are included. A room accuracy whole genome data.latest of its kind, providing a cutting-edge, dedicated science that we refer to as SMRT Biology. The ability of the size of 12'x12' with air-con. A typical sequencing run At least 15 PhD and 25 MSc students will be trainedsequencing that supports all genomic-related analysis. SMRT technology to observe kinetic information of individual can require as little as 30 minutes of instrument per PI using this instrument. This unit will enablemolecules provides the ability to detect nucleic acid time. Sequence data is produced in minutes ratherUM to create niche area in single molecule, realvariations, including detection of base modifications and the than days, potentially enabling importanttime (SMRT) which is currently the latest technologydetection of binding of biomolecules to DNA. SMRT applications including infectious disease monitoringin USA and whole genome research.detection has been applied by researchers to directly and molecular pathology.At least 10 PhD and 20 MSc students will be trainedobserve, on a single molecule basis, transcription, reverse Most genome work can be published in Nature,transcription, translation and ligand-protein binding. Science, PNAS, J. Bacteriology, BMC Genomics,per PI using this instrument. This unit will enablePLoS Biology.UM to create niche area in whole genome research.It is a gold technique that directly measures heat This A wide is the range 3rd of genaration applications sequencer can only that be accomplished replies on single with This instrument is slightly larger than table-top size, Drug discovery groups in UM, pharmacist, natural Frequently used (5 days per week) and eachchanges associated with binding between any two this unit including:and lab space is available in HIR Building.products chemists & biologist, microbiologist, experiment will run up few hours to 1 day.biomolecules. This instrument is the latest advance in characterization of molecular interactions of small molecules, Meeting with architect, mechanical & electrical biochemist, cancer/clinical oncologist group, proteinisothermal titration calorimetery, which is designed for proteins, antibodies, nucleic acids, lipids and otherengineer done. Analysis softwares are included. A engineering groups.cutting edge life science researchers – particularly biomolecules, enzyme kinetics, assessing the effects of room size of 13'x13' with air-con. Without this At least 3 PhD and 10 MSc students will be trainedthose in drug discovery and development.molecular structure changes on binding mechanisms, and instrument, no interaction of biomolecules studies per PI using this instrument.It has a highthroughput capacity to handle multiple biotherapeutic construct selection. Hence, the availability of can proceed.samples rather than a single sample analysis.this unit will benefit research groups that need to measure in Many work reported in reputable journals includingprecision the free energy changes and sub-millimolar to J. Bacteriology, J. Biol. Chemistry, Biochemistry,nanomolar binding constants that can be measured by this Nature Biotech relied on this instrument forinstrument.compound analysis.This is a fully integrated computing solution for This system can keep pace with the remarkable growth in With this system, researchers can keep pace with Target users including bioinformaticians, systemgenome analyzer sequencing platforms detailed the throughput of the genome analyzer. Without it, individual changes to their computing needs with virtually no biologist, bacteriologist, physicists, computer/ITabove. It is a powerful sequencing software with users have to acquire the workstation and the related system down-time. It will bundle with hardware, specialists, virologits, molecular biologist, medicalhigh-performance blade servers/workstation and software indivually, which is not economically viable. informatics software and high-availability storage. scientists, pharmacologists, pharmarcists,modular storage capacity. This creates a flexible Depending on the needs of HIR Central users in the future, This system is planned specifically for a medium to oncologists, translational health and medicineand scalable system for higher organismsthis proposed solution system can be customized and high-throughput sequence analysis workflow. Server researchers, who require genome data processsing,extended for small and growing sequencing facilities and also and disk management overhead is kept to anincluding human scale genomic data analysis.analysis, and storage.scaled to meet the needs of larger genome center.absolute minimum, reducing the need for dedicatedThe new solution conserves IT resources byAt least 15 PhD and 30 MSc students will be trainedIt provides sufficient processing resources for computationalheavyanalysis that requires clustered processing and typically publish in Nature, Science, PNAS, J.24 hr per day on daily basis.IT and bioinformatics staff. Most genome workWorkstation analysis and data storage usually run forproviding centralized high-performanceper PI using this instrument. This unit will enablecomputational and storage infrastructure,UM to create niche area in single molecule, realshared data repositories, such as genome assembly, deep Bacteriology, BMC Genomics, PLoS Biology.compared to the support required for individual,sequencing and metagenomics research.time (SMRT) which is currently the latest technologydecentralized analysis servers.in USA and whole genome research.At least 10 PhD and 20 MSc students will be trainedper PI using this instrument. This unit will enableUM to create niche area in whole genome research.20,248,000.00 20,248,000.00 0.00 20,248,000.00Total 37,896,500.00 36,405,650.00 755,000.00 37,160,650.00 97Rejected at VM LabApproved at VM Lab- updated on 2nd March 2012 -
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Summary of HIR Equipment (2012-2013) - High Impact Research

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