Since 1986 - Covering the Fastest Computers
in the World and the People Who Run Them
Visit additional Tabor Communication Publications
June 04, 2012
It's Time to Put the Squeeze on Genomic Data
As the price of genome sequencing plummets, the output of genomics data is skyrocketing. According to the U.S. National Human Genome Research Institute, over the next few years, the number of human genomes sequenced is expected to explode -- from around 30,000 in 2011 to more than a million before 2014. Forget, for a moment, the processing horsepower necessary to transform everyone's genome into useful medical knowledge; just the storage capacity required to hold all this data is staggering.
As pointed out in a recent post at Technology Review (TR), if every person on the planet had their genome sequenced, it would take up as much digital storage as was available world-wide in 2010, estimated to be just over 721 PB. That's assuming 100 GB per human genome.
But that 100 GB represents a pretty brute-force storage model. Theoretically, a person's 3.2 billion base pairs should only take 800 MB (each of the four bases can be packed into 2 bits). The problem, according the TR post, is that a lot of other data is collected about the bases, and the genes are sequenced multiple times for the sake of accuracy.
One solution, at least according to Harvard geneticist George Church, is to only store the differences between a particular genome and some reference genome. According to Church that would reduce the data capacity needed to a mere 4 MB per person. Using this approach, it would take just 28 PB of storage to hold all human genomes.
And if that seems like a lot, keep in mind that the Blue Waters supercomputer will have a storage capacity of over 25 PB when it comes online later this year. By the middle of this decade, when petascale supercomputers are apt to be much more commonplace, that 28 PB is probably going to reflect an average-sized storage capacity for hundreds of systems around the world.
Full story at Technology Review
Discussion
There are 0 discussion items posted.
|
Join the Discussion |
Sponsored Links
Join Michael Wolfe as he compares the advantages and costs of using both low-level models and the directive-based OpenACC model for programming accelerated heterogeneous systems. Registration is free.
Accelerate your science with Seneca
One of the first HPC providers installing a 4X NVIDIA Kepler K-20 cluster. Invites you to a free evaluation on Seneca’s NVIDIA K20 Kepler cluster, pre-loaded with AMBER, NAMD, LAMMPS
High-Performance Computing in Action
Businesses that want to be on the cutting edge of their industries are increasingly turning to high-performance computing (HPC) solutions to handle complex compute processes and speed up their rate of innovation. Download this Executive Brief to see how businesses in energy, life sciences and entertainment put HPC solutions to work in their operations.
- Receive Higher Application Performance with end-to-end 56GbE
- ClusterStor™ 1500 – High Performance Efficiency
- Memory Debugging Challenges in Parallel and Distributed Applications
- Visualize Historical Usage for Optimized Returns on HPC Investments
- Acer and Altair simplify cluster computing
- The Accelerated Genomics Cloud $25,000 Giveaway
- PGI 2013: OpenMP 1.5X faster than GCC, new GNU-compatible OpenACC C++ compiler, CUDA 5 and Tesla K20 support, and more.
- White Paper: Building a Data-Intensive Cluster Supercomputer
RSS Feeds
Feeds by Topic
- Applications
- Developer Tools
- Interconnects
- Middleware
- Networks
- Processors
- Storage
- Systems
- Visualization
Feeds by Industry
Feeds by Content Type
- Features
- Blogs
- Short Takes
- Off the Wire
- Whitepapers
- Multimedia
- HPC Soundbite Podcasts
- HPCwire Job Bank
Subscribe to All Content
May 24, 2013
- IEEE TCSC Young Achievers in Scalable Computing
- Bright Computing Named Winner of 2013 Red Herring Top 100 North America Award
- Supermicro Announces New High-Density Server Solutions
May 23, 2013
- TACC to Upgrade to Internet2's Fastest Network Connection: 100 Gbps
- European Commission CoolEmAll Project Releases Prototypes
- Internet2 Establishes Direct Peering to Microsoft Cloud Services
- Model of Sun's Magnetic Field Created
- Enthought Awarded $1M Grant to Develop Python HPC Framework
- Supermicro Server Platforms to Use NVIDIA GRID Technology
- LG Electronics Becomes Lead Partner for ARM Cortex-A50 Family of Products
- ProximusDA Teams with STMicroelectronics to Develop Virtual Prototypes
- The Brain as a Model for Future Supercomputers
May 22, 2013
- OpenFabrics Alliance to Host Two RDMA Training Courses at University of New Hampshire
- Imperas Delivers Embedded Software Development Suite Based On ToolMorphing Technology
- University of Ulster to Host Scientific Computing Event
- ICT Investment Trends in Germany
- Skyera Adds NAS to skyHawk Enterprise Solid-State Storage Systems
- NetApp Announces Q4 Results
May 21, 2013
- Keyes and Sterling to Headline IEEE Cluster 2013 Conference
- Cyber Network Gears Up for Growth in the Cloud With IBM PureSystems
- New OMAP5432 Processor-Based Evaluation Module From Texas Instruments
- TwinStrata Introduces On-Demand Disaster Recovery as Service for VMware Users
- Weidlinger Launches PZFlexCloud Using CliQr Technologies
- "Places2Be" Project to Boost European Leadership Around FD-SOI
May 20, 2013
- Cray and VBRX to Host Event for Upstream Applications in Oil and Gas
- Dell to Deliver Public Cloud Through Partner Ecosystem
- Mentor and Tezzaron Optimize Calibre 3DSTACK for 2.5/3D-ICs
- Cloud Provider Selects Mellanox's InfiniBand as Their Cloud Interconnect
- Xyratex to Present at Barclay Telco and Media Event
May 17, 2013
May 16, 2013
- D-Wave Two Quantum Computer Selected for New AI Initiative
- Mines' Powerful New Supercomputer to Focus on Energy Research
- Kitware Develops Customizable Simulation Framework to Provide HPC for Mid-Sized Manufacturers
- Next HPC Installation Step Initiated at High Performance Computing Center Stuttgart
- HybridCluster2.0 Self-Healing, Ultra-High Availability Capabilities Unveiled
May 15, 2013
- Nominations for SC13 Cray, Fernbach and Kennedy Awards Due July 1
- Mellanox Technologies Ltd. Announces Definitive Agreement to Acquire Kotura, Inc.
- NYSERDA Awards $1.8 Million to Rensselaer Polytechnic Institute
- Bright Computing Named Finalist for the 2013 Red Herring Top 100 North America Award
- Flow Science Releases FLOW-3D/MP 5.0
- NEC Establishes NEC Ukraine to Strengthen Operations in Russia and the CIS
- Fujitsu Receives Supercomputer Order From Nagoya University
- Avere Systems Helps Framestore Create Extraordinary Visual Effects for Blockbuster Films
- Workshop on Modeling and Simulation of Exascale Systems Call for Papers
May 14, 2013
- Multimillion Pound Project to Develop Next Generation Computing Systems
- HPC Simulations Target Nanoscale Materials Under Strain
- New IBM Center in Beijing to Speed Linux Applications on Power Systems
- OpenCL Software Development Kit Fosters FPGA Exploitation
- S&P Capital IQ and Kuberre Systems Sign Data Facilitator Agreement
- Solarflare to Speak at Linux Foundation Enterprise End User Summit
May 13, 2013
- SDSC Hosts First Annual Industry Partners Research Review
- AMD Targets Server Performance with Open 3.0 Release
- BICS Selects Infinera DTN-X for 500G Pan-European Network
- Juniper Systems Celebrates its 20th Anniversary
Most Read Features
- Adapteva Shows Off $99 Supercomputer Boards
- "No Exascale for You!" An Interview with Berkeley Lab's Horst Simon
- Cray Answers Mid-Market's Call
- The Week in HPC Research
- Saddling Phi for TACC’s Stampede
- Supercomputing Vet Champions Quantum Cause
- Intel’s Big Data to HPC Interconnect
- The Week in HPC Research
- NERSC Managers Shed Light on 'Edison'
- Emerging Technologies at SC13: A Chat with the Chairs
Most Read Around the Web
- Speaking Many Languages into the MIC
- Floating Funding to Exascale Island
- New Tome Tells Modern History of Supercomputing
- Sequoia Hits Warp Speed
- HPC and the True Cost of Cloud
- Revolutionizing Tornado Prediction
- CUDA-Designed Robot: It's a Hit!
- Finnish Researchers Welcome New Cray Super
- Running Computational Fluid Dynamics in the Cloud
- Blue Waters: Security at Scale
Most Read This Just In
- IBM and Forrester Webinar to Discuss New Ways to Reduce Cost in HPC and Big Data
- Altera Opens FPGAs to Programmers with SDK, Off-the-Shelf Boards for OpenCL
- D-Wave Two Quantum Computer Selected for New AI Initiative
- New Simulation Speed Record Achieved with Sequoia Supercomputer
- AMD Targets Server Performance with Open 3.0 Release
- Brain Outperforms Supercomputers
- Vicor's ChiP Power Component Packaging to Make European Debut at PCIM Europe 2013
- Mines' Powerful New Supercomputer to Focus on Energy Research
- Commercial Quantum Computing Company D-Wave Systems Launches
- XSEDE13 Student Programming Contest Registration Opens April 30
Feature Articles
Exascale Advocates Stand on Nuclear Stockpiles
In quieter times, sounding the bell of funding big science with big systems tends to resonate further than when ears are already burning with sour economic and national security news. For exascale's future, however, the time could be ripe to instill some sense of urgency....
Read more...
NSF Forges Further Beyond FLOPs
In a recent solicitation, the NSF laid out needs for furthering its scientific and engineering infrastructure with new tools to go beyond top performance, Having already delivered systems like Stampede and Blue Waters, they're turning an eye to solving data-intensive challenges. We spoke with the agency's Irene Qualters and Barry Schneider about..
Read more...
CERN, Google Drive Future of Global Science Initiatives
Large-scale, worldwide scientific initiatives rely on some cloud-based system to both coordinate efforts and manage computational efforts at peak times that cannot be contained within the combined in-house HPC resources. Last week at Google I/O, Brookhaven National Lab’s Sergey Panitkin discussed the role of the Google Compute Engine in providing computational support to ATLAS, a detector of high-energy particles at the Large Hadron Collider (LHC).
Read more...
Sponsored Whitepapers
Best Practices in Big Data Storage
05/10/2013 | Cleversafe, Cray, DDN, NetApp, & Panasas | From Wall Street to Hollywood, drug discovery to homeland security, companies and organizations of all sizes and stripes are coming face to face with the challenges – and opportunities – afforded by Big Data. Before anyone can utilize these extraordinary data repositories, however, they must first harness and manage their data stores, and do so utilizing technologies that underscore affordability, security, and scalability.
Progress in Parallel: the Bull Parallel Programming Center
04/15/2013 | Bull | “50% of HPC users say their largest jobs scale to 120 cores or less.” How about yours? Are your codes ready to take advantage of today’s and tomorrow’s ultra-parallel HPC systems? Download this White Paper by Analysts Intersect360 Research to see what Bull and Intel’s Center for Excellence in Parallel Programming can do for your codes.
Sponsored Multimedia
SGI DMF ZeroWatt Disk Solution
In this demonstration of SGI DMF ZeroWatt disk solution, Dr. Eng Lim Goh, SGI CTO, discusses a function of SGI DMF software to reduce costs and power consumption in an exascale (Big Data) storage datacenter.
Cray CS300-AC Cluster Supercomputer Air Cooling Technology Video
The Cray CS300-AC cluster supercomputer offers energy efficient, air-cooled design based on modular, industry-standard platforms featuring the latest processor and network technologies and a wide range of datacenter cooling requirements.
HPC Job Bank
Featured Events
- June 13, 2013
- June 14, 2013
Think Beyond Plastics Conference
Berkeley, CA
United States
- June 16, 2013
- June 20, 2013
ISC'13
Leipzig,
Germany
.gif)
- June 17, 2013
- June 18, 2013
Forecast 2013
San Francisco, CA
United States
- June 20, 2013
- June 21, 2013
CIO North America
Marina Del Rey, CA
United States
- June 24, 2013
- June 25, 2013
The Trading Show Chicago
Chicago, IL
United States
- June 25, 2013
- June 26, 2013
TERATEC 2013 Forum
Paris,
France
