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Showing posts with the label Laboratory Informatics

HPC suppliers set out plans for ARM products

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ARM-based HPC systems will be available by the end of 2017. At ISC High Performance 2017 Penguin Computing and Bull both announced that they will deliver products tailored for the HPC industry. Both companies systems will feature Cavium’s ARMv8-based ThunderX2 platform.The announcement from the Atos owned company Bull comes after years of development of ARM systems through the EU funded Mont Blanc project.Scientists and researchers working on the Mont-Blanc project built and designed the first ARM-based HPC cluster based on Bull blades, demonstrating the viability of using ARM technology for HPC.The project has been in operation since 2011, initially aimed to define a computing architecture capable of delivering HPC scale and performance using ARM processors. A three-year extension was added to address the development of parallel programming and support for the ARMv8 64-bit processors.In October 2015, a third phase of the Mont-Blanc project - coordinated by Bull - was initiated to ens…

Sunway TaihuLight retains number one spot in TOP500

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The 49th edition of the TOP500 list has been released in conjunction with the opening session of the ISC High Performance conference, which is taking place this week in Frankfurt, Germany. The list ranks the world’s most powerful supercomputers based on the Linpack benchmark and is released twice per year.In the latest rankings, the Sunway TaihuLight, a system developed by China’s National Research Center of Parallel Computer Engineering & Technology (NRCPC) and installed at the National Supercomputing Center in Wuxi, maintains its top position. With a Linpack performance of 93 petaflops, TaihuLight is far and away the most powerful number-cruncher on the planet.Tianhe-2, (Milky Way-2), a system developed by China’s National University of Defense Technology (NUDT) and deployed at the National Supercomputer Center in Guangzho, China, occupies the number two position with a Linpack mark of 33.9 petaflops.  Tianhe-2 was the number one system in the TOP500 list for three consecutive y…

DOE awards $258 Million to accelerate US Supercomputing

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US Secretary of Energy, Rick Perry, announced that six leading US technology companies will receive funding from the Department of Energy’s Exascale Computing Project (ECP) as part of its new PathForward program, accelerating the research necessary to deploy the nation’s first exascale supercomputers.The companies awarded funding through this program are Intel, Nvidia, AMD, Cray, HPE and IBM.‘Continued US leadership in high performance computing is essential to our security, prosperity, and economic competitiveness as a nation,’ said Secretary Perry. ‘These awards will enable leading US technology firms to marshal their formidable skills, expertise, and resources in the global race for the next stage in supercomputing—exascale-capable systems.’The companies will receive funding for research and development to maximise the energy efficiency and overall performance of future large-scale supercomputers, which are critical for US leadership in areas such as national security, manufacturin…

Rodin Therapeutics adopts Qlucore Omics Explorer

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Rodin Therapeutics, a venture-backed biotechnology company that develops therapeutics for neurological disorders has announced that it uses Qlucore Omics Explorer to characterise its compounds response to treatment.Rodin’s approach is to improve neuronal synaptic resilience via the selective inhibition of histone de-acetylase (HDAC) complexes. Evidence supports that the modulation of selective gene regulatory processes can restore synaptic plasticity and cognitive function deficits present in degenerative brain diseases, including Alzheimer’s disease and Parkinson’s disease dementia. ‘With Qlucore I instantly see how my data responds to changes in statistical parameters and cutoffs, and have a choice of the best methods for high dimensional data. I can use both supervised and unsupervised methods as 3D PCA, heatmaps, and clustering. Hypotheses testing is significantly helped by this constant feedback, as I can set up analysis, view results, and modify settings with a few clicks,’ comm…

ISC High Performance names Erich Strohmaier and Yutong Lu as Conference Fellows

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ISC High Performance has announced the appointment of Dr Erich Strohmaier of Lawrence Berkeley National Laboratory, USA, and Professor Yutong Lu from the National Supercomputing Center in Guangzhou, China, as ISC Fellows. ISC Fellows are individuals who have made and continue to make important contributions to the advancement of high-performance computing (HPC), the community and the ISC High Performance conference series.Dr Strohmaier and Professor Lu will be added to the list of ISC High Performance Fellows, which currently boasts eight members.The recipients will be awarded this fellowship on Monday June 19, during the opening session of the ISC High Performance conference. This year’s event will be held at Messe Frankfurt from June 18 - 22, and will be attended by over 3,000 HPC community members, including researchers, scientists and HPC professionals.Erich Strohmaier is a senior scientist and leads the Performance and Algorithms Research Group of the Computational Research Divis…

Illumina and IDT Partner to expedite exome enrichment

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Illumina has announced an expanded partnership with Integrated DNA Technologies (IDT) to develop solutions for next-generation sequencing (NGS) library preparation multiplexing and a co-marketing agreement that links Illumina library prep with the IDT Exome Enrichment.The partnership will focus on the co-development of a new portfolio of adapter indexes for NGS multiplexing, leveraging IDT’s capabilities for the manufacture of high quality and complex oligos. The proprietary index kits will be compatible with Illumina library prep products and next-generation sequencers and are highly optimized for use on platforms with Illumina’s two-channel chemistry and patterned flow cells such as the NovaSeq Series.‘We look forward to strengthening our relationship with IDT so that we can better serve all NGS customers,’ said Susan Tousi, Senior Vice President of Product Development at Illumina. ‘Our work with IDT will help us to enhance the suite of library prep offerings and multiplexing capabi…

Dr Ravi Raveendra Joins ESI’s Scientific Committee

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ESI has announced that Dr Ravi Raveendra is joining ESI’s scientific committee to tackle critical challenges related to material physics, manufacturing and simulation. Dr Ravi Raveendra will take the position of ESI Group’s new scientific director for North America, in addition to taking a place in the group’s Scientific Committee. The Scientific Committee contributes to ESI Group's decision-making for best investment strategy and innovation solutions in all technological sectors.With a PhD in Computational Engineering Mechanics from the State University of New York, USA, Dr Raveendra has worked on many large-scale projects with government agencies and industrial clients in vibro-acoustics, noise control materials, fracture mechanics, composite materials, probabilistic structural analysis methods, cathodic protection and inverse problems. He is author and co-author of more than 100 technical publications.ESI’s Scientific Committee is headed by Professor Francisco Chinesta, Profess…

OCF achieves Elite Partner status with NVIDIA

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OCF has successfully achieved Elite Partner status with NVIDIA I the competency of Accelerated Computing. With this announcement OCF becomes only the second business partner in Northern Europe to achieve this status.This Accelerated Computing Competency focuses on parallel computing, HPC (High-Performance Computing), Hyperscale, and other accelerated computing markets such as big data processing/analytics. It encompasses system solutions, infrastructure management, and communications for NVIDIA Tesla, NVLink, CUDA, and PGI products and technologies.Awarded in recognition of OCF’s ability and competency to integrate a wide portfolio of NVIDIA’s Accelerated Computing products including TESLA P100 and DGX-1, the Elite Partner level is only awarded to partners that have the knowledge and skills to support the integration of GPUs, as well as the industry reach to support and attract the right companies and customers using accelerators.‘For customers using GPUs, or potential customers, earn…

Certara Partners with PUMC hospital

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Certara has announced that it is partnering with Phase I Unit, Peking Union Medical College (PUMC) Hospital’s Clinical Pharmacology Research Center (PUMCH-CPRC) in Beijing to help Chinese pharmaceutical companies enhance their drug development processes.Phase I Unit at PUMCH-CPRC will employ Certara’s Simcyp Population-based Simulator to develop physiologically-based pharmacokinetic (PBPK) models in support of Chinese new and generic drug applications to the Chinese Food and Drug Administration (CFDA).‘We are proud to support China’s efforts to foster healthcare innovation. By increasing its adoption of PBPK modelling and simulation, it will expedite its pharmaceutical companies’ drug development processes and regulatory submissions, whilst also helping to bring safer therapies to market,’ said Simcyp president and managing  director Dr Stephen Toon.‘An increasing number of Chinese pharmaceutical companies want to use PBPK modelling and simulation as part of their drug development pla…

Elsevier and SolveBio announce collaboration to accelerate precision medicine research

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SolveBio and Elsevier have announced a collaboration to integrate the use of Pathway Studio, Elsevier’s database of biological molecular interactions and curated pathways. The SolveBio platform will provide customers with a single seamless solution to drive faster and more accurate research into precision medicine. Under the terms of the agreement, all licensed SolveBio users will have free access to Pathway Studio’s Pathway Viewer software, an application that enables researchers to quickly view a snapshot of the functional relationships among genes imported for SolveBio. In addition, researchers are able to find top scoring, manually curated pathways that correlate most highly with these genes. Both analyses take only minutes, saving researchers significant time, and delivering access to a growing database of published literature.‘As the volume of published literature continues to grow, researchers are challenged to uncover all relevant evidence from the available data. This is part…

Ansys partners with PTC to support IOT development

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ANSYS and PTC have announced a solution that will enable ANSYS software to be added to applications built on the ThingWorx Industrial Internet of Things (IoT) platform developed by PTC.PTC is a US-based, software company that specialises in PLM and IOT, software aimed at the IOT and AR marketsThe connection will integrate intelligent digital simulation models with products as they exist and operate in the real world. This will open up new opportunities for companies to create value by enabling them to optimise operations and maintenance and to integrate them into their product development processes.‘Obtaining value from the data generated by connected products is one of the primary reasons companies invest in the Industrial IoT,’ said Catherine Kniker, chief revenue officer, Platform Business, PTC. ‘Simulation technology combined with machine learning can help Industrial IoT solution builders identify and make sense of the data needed to improve product design and performance – and de…

Global CAE market to reach $12.8 billion

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The global Computer Aided Engineering (CAE) market is anticipated to reach $12.8 billion by 2025, according to a new report by Grand View Research, a US-based market research and consulting company. This growth is due to increasing use of wearable technology in combination with IOT and increasing interest in autonomous vehicles.The growth of IoT devices, tablets, and smartphones are expected to boost the CAE market growth. The use of wearable devices, used in the fields of medicine, fitness, transportation, education, entertainment, and gaming, are increasing; paving way for growth of the CAE market. Miniaturisation of electronic devices and sensors and persuasive connectivity with lowered costs have contributed significantly to the growth of wearable technology devices.Governments regulations, mandating applications, such as collision avoidance, parking assistance systems, wireless communication technology, and interactive infotainment systems, in the upcoming car technologies to inc…

Altair acquires MODELiiS

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Altair has acquired MODELiiS, a supplier of electronic design automation software for circuit modelling, system design and simulation tools based in Grenoble, France. MODELiiS solutions are geared towards the Internet of Things (IoT), autonomous vehicles, and complex hybrid systems. The acquisition will help Altair to strengthen its portfolio in these areas – particularly IOT which will be important in the development of autonomous vehicles.MODELiiS was originally a start-up company incubated within a larger EDA design firm.  Their main products simulate C code behaviour for various chips and include a very high-performance SPICE circuit simulator.  This technology is used in EDA, system modelling, electromagnetics and to model sensors for the IoT.‘With the MODELiiS acquisition, we plan to continue our growth and investment in our EDA capabilities to deliver the most relevant, optimal, simulation-driven design solutions for IoT,’ said James Scapa, Altair’s Founder, Chairman and CEO. ‘…

GCS sets record for HPC core hours awarded

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The Gauss Centre for Supercomputing (GCS) has set a new record for the number of core hours awarded during the 17th call for large-scale proposals – the combined total for these projects was more than 2.1 billion core hours across the three GCS supercomputers.GCS approved 30 large-scale projects during the 17th call for large-scale proposals, set to run from May 1, 2017 to April 30, 2018. GCS is combined from three high-performance computing centres—the High Performance Computing Center Stuttgart (HLRS), Jülich Supercomputing Centre (JSC), and Leibniz Computing Centre of the Bavarian Academy of Sciences and Humanities (LRZ).‘As we continue to provide world-class computing resources and user support at our three GCS facilities, our user base continues to expand based on the wide variety of excellent proposals we receive during each successive large-scale call,’ said Dr Dietmar Kröner, professor at the University of Freiburg and chairman of the GCS Scientific Steering Committee. ‘We hav…

IBM builds new quantum computing processor

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IBM has announced it has built and tested its most powerful universal quantum computing processors to date. Two new experimental processors have been announced, one at 16 qubits and another featuring 17 qubits. IBM has stated that these new quantum processors leverage ‘significant materials, device, and architecture improvements to make it the most powerful quantum processor created to date by IBM.’‘The significant engineering improvements announced today will allow IBM to scale future processors to include 50 or more qubits, and demonstrate computational capabilities beyond today’s classical computing systems,’ said Arvind Krishna, senior vice president and director of IBM Research and Hybrid Cloud. ‘These powerful upgrades to our quantum systems, delivered via the IBM Cloud, allow us to imagine new applications and new frontiers for discovery that are virtually unattainable using classical computers alone.’The new systems will allow users more freedom for complex experimentation tha…

NCSA’s Blue Waters Project demonstrates economic importance of HPC

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The importance of supercomputing on local and national economic prosperity has been highlighted by a recent study published by the National Center for Supercomputing Applications at the University of Illinois at Urbana-Champaign which reported that its Blue Waters project to be worth more than $1.08 billion for the Illinois’ economy.‘My sincerest gratitude goes to the University of Illinois, the State of Illinois, and the National Science Foundationfor supporting this critical project which is enabling us to better understand our world, improve quality of life, and develop the nation’s advanced digital workforce,’ said Dr William ‘Bill’ Gropp, NCSA interim director and co-principal investigator for the Blue Waters Project.The study found that the Blue Waters project—which is a joint investment between the State of Illinois, University of Illinois, National Science Foundation (NSF), and related activities funded by the university, NSF and other federal agencies—has a projected $1.08 bi…

BSC simulate cardiovascular system using GPU accelerated cluster

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NVIDIA and Barcelona Supercomputing Center have presented a real-time interactive visualisation of a cardiac computational model that shows the potential of HPC-based simulation codes and GPU-accelerated clusters to simulate the human cardiovascular system.At the NVIDIA GTC17 conference in San Jose (CA, US), BSC and NVIDIA bring together Alya simulation code and NVIDIA IndeX scalable software to implement an in-situ visualisation solution for of electro mechanical simulations of the BSC cardiac computational model. While Alya simulates the electromechanical cardiac propagation, NVIDIA IndeX is used for an immediate in-situ visualisation. The in-situ visualisation allows researchers to interact with the data on the fly giving a better insight into the simulations.Alya is an HPC-based multiphysics simulation suite developed at the Barcelona Supercomputing Center, which is the core component of a cardiac computational model. In this model, BSC simulates the electromechanical propagation …

Global LIMS market set to rise by almost 10 per cent

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Market research firm Technavio has prepared a report forecasting the global LIMS market growth from the period of 2017-2021. In the report Technavio’s analysts forecast the global LIMS market to grow at a CAGR of 8.94 per cent during the period 2017-2021.The report covers the current global market and the growth prospects of the LIMS market. Estimations on market size are calculated by considering revenue generated from the sales of LIMS, ELN and LIS software. The report also includes a discussion of the key vendors operating in this market.The report cites the integration of traditional LIMS with healthcare systems as a significant market trend but also acknowledges that there will be challenges in data migration from legacy LIMS software into new systems.The primary reasoning for this growth is attributed to rising levels of chronic disease and aging population which require more resources. While this goes some way to explain LIS sales or sales into healthcare markets it remains to …

Optibrium and Goldfinch agree to StarDrop license

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Optibrium, a developer of software for small molecule discovery, and Goldfinch Bio, a company focused on discovering and developing precision therapies to treat patients with kidney disease, today announced that the company has signed a multi-year agreement to license Optibrium’s StarDrop software.Dr Matthew Segall, Optibrium’s CEO, commented: ‘We are delighted to welcome Goldfinch Bio to the family of StarDrop users. We look forward to working with their scientists to support their use of StarDrop in the discovery of new precision therapies for kidney disease.’The agreement will see the deployment of six of StarDrop’s plug-in modules and implementation of StarDrop’s Query Interface for seamless integration with Goldfinch Bio’s chemistry and biology databases.StarDrop is designed to be a complete package of fully integrated software for small molecule design, optimisation and data analysis. With a highly visual and user-friendly interface it enables a seamless flow from the latest dat…

Oxford Gene Technology expands NGS custom cancer panel content

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Oxford Gene Technology has expanded its SureSeq myPanel NGS Custom Cancer Panel content. The expansion comes in response to increasing use of NGS as a tool for research into an increasing number of cancer types allowing researchers to obtain reliable data for difficult-to-sequence genes and mutations.This content is optimised for haematology and solid tumours including breast, colorectal, lung, ovarian and prostate cancer, glioma, melanoma, sarcoma, leukaemia’s, myeloproliferative neoplasms and myelodysplastic syndrome.Dr Anna Skowronska, research and development scientist at West Midlands Regional Genetics Laboratory, has been using the SureSeq Myeloid Panel content. Skowronska commented: ‘We’ve found that the SureSeq Panel performs very well and has detected all known positives with an excellent variant detection of around 1 per cent. We were positively surprised right from the very first analysis by the level of mutation detection achievable.'Targeted gene panels apply next-gen…