Computer Science / Engineering posts
- October 12, 2010
- 10:45 PM
- 594 views
You are the Chosen One, at least by your bacteria
by Aurametrix team in Health Technologies
Host genomics is not the main decision-making factor for bacteria immigrating into human body, but it is an important factor. Two papers recently published in the Proceedings of the National Academy of Sciences help to understand why you are chosen and how the choosers make their decisions. ... Read more »
Ben-Jacob E, & Schultz D. (2010) Bacteria determine fate by playing dice with controlled odds. Proceedings of the National Academy of Sciences of the United States of America, 107(30), 13197-8. PMID: 20660309
Andrew K. Benson,, Scott A. Kelly,, Ryan Legge,, Fangrui Ma,, Soo Jen Low,, Jaehyoung Kim,, Min Zhang,, Phaik Lyn Oh,, Derrick Nehrenberg,, Kunjie Hu,.... (2010) Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors . PNAS. info:/
- October 12, 2010
- 10:00 PM
- 1,112 views
Figuring out figures in scientific papers: new search / ranking method outline in PLoS One paper
by Jonathan Eisen in The Tree of Life
Just a quick post here. A colleague just sent me a link to her fascinating new paper in PLoS One: PLoS ONE: Automatic Figure Ranking and User Interfacing for Intelligent Figure Search
In this paper Hong Yu from the University of Wisconsin in Milwaukee describes a system for better automated characterization of figures from scientific papers. The system is available through their webserver "Ask Hermes".
If you want to learn more about the system I suggest you read the paper. &n........ Read more »
Yu, H., Liu, F., & Ramesh, B. (2010) Automatic Figure Ranking and User Interfacing for Intelligent Figure Search. PLoS ONE, 5(10). DOI: 10.1371/journal.pone.0012983
- October 11, 2010
- 01:57 AM
- 617 views
Why do you Blog?
by Dr Shock in Dr Shock MD PhD
Why does someone write a personal blog and not simply use the Internet for taking in media content? Personal blogs are composed of shorter posts concerning the blogger’s life in contrast to filter blog. Filter blogs are devoted to external information, such as politics or news and are far better researched than personal blogs.
From recent [...]
Related posts:Why Blog?
Why Blog? 2
Blog writing for professionalism in medical education
... Read more »
Hollenbaugh, E. (2010) Motives for Maintaining Personal Journal Blogs. Cyberpsychology, Behavior, and Social Networking, 2147483647. DOI: 10.1089/cyber.2009.0403
- October 5, 2010
- 10:41 PM
- 636 views
When is webometrics most useful?
by Hadas Shema in Information Culture
Like many terms in Information Science (including 'Information Science' itself) the term 'webometrics' is pretty vague. Björneborn and Ingwersen (2004) defined webometrics as "the study of the quantitative aspects of the construction and use of information resources, structures and technologies on the Web drawing on bibliometric and informetric approaches." I guess this definition will have to do for the time being. Thelwall*, Klitkou, Verbeek, Stuart and Vincent (2010) set out to find in whi........ Read more »
Thelwall, M., Klitkou, A., Verbeek, A., Stuart, D., & Vincent, C. (2010) Policy-relevant Webometrics for individual scientific fields. Journal of the American Society for Information Science and Technology, 61(7), 1464-1475. DOI: 10.1002/asi.21345
- October 3, 2010
- 08:10 PM
- 460 views
Authorities and hubs in Twitter conference feeds
by Hadas Shema in Information Culture
"Understanding how Twitter is used to spread scientific messages" is another conference paper studying the scientific uses of Twitter. Letierce, Passant, Breslin and Decker (2010) analysed Twitter feeds from the International Semantic Web Conference (#iswc2009), the Online Information Conference 2009 (#online09) and the European Semantic Technology Conference (#estc2009). First, they checked the distribution of tweets per user, then the distribution of tweets that were directed to individuals (........ Read more »
Letierce, J., Passant, A., Breslin, J., & Decker, S. (2010) Understanding how Twitter is used to spread scientific messages. Proceedings of the WebSci10: Extending the Frontiers of Society On-Line, April 26-27th, Raleigh, NC: US. info:/
- September 29, 2010
- 08:00 AM
- 1,147 views
Finding a private place on the wireless net
by David Bradley in Sciencetext
Increasingly, we live in a wireless world, hundreds of millions of people connect to the internet through Wi-Fi networks, use mobile phones, or wireless broadband and devices connect to computer systems through wireless sensors and other gadgets. Wireless – the next generation Many observers suggest that the next generation wireless networks (NGWNs) will see the [...]Post from: David Bradley's Sciencetext Tech TalkFinding a private place on the wireless net
... Read more »
Chakchai So-In, Raj Jain, Subharthi Paul, & Jianli Pan. (2010) Virtual ID: ID/locator split in a mobile IP environment for mobility, multihoming and location privacy for the next generation wireless networks. Int. J. Internet Protocol Technology, 5(3), 142-153. info:/
- September 28, 2010
- 05:37 PM
- 867 views
K: Japan's Next-Generation Supercomputer
by Olexandr Isayev in olexandrisayev.com
Fujitsu announced that today it began shipping the computing units for Japan's Next-Generation Supercomputer, nicknamed the "K" computer.... Read more »
Ajima, Y., Sumimoto, S., & Shimizu, T. (2009) Tofu: A 6D Mesh/Torus Interconnect for Exascale Computers. Computer, 42(11), 36-40. DOI: 10.1109/MC.2009.370
- September 15, 2010
- 03:31 PM
- 966 views
Through a (Brain) Scanner, Darkly
by Lindsay in Autist's Corner
Explains Ecker et al. (2010)'s statistical analysis of the geometry of MRI-derived computer models of 20 autistic men's brains, compared with normal and abnormal (ADHD) controls... Read more »
Ecker C, Marquand A, Mourão-Miranda J, Johnston P, Daly EM, Brammer MJ, Maltezos S, Murphy CM, Robertson D, Williams SC.... (2010) Describing the brain in autism in five dimensions--magnetic resonance imaging-assisted diagnosis of autism spectrum disorder using a multiparameter classification approach. The Journal of neuroscience : the official journal of the Society for Neuroscience, 30(32), 10612-23. PMID: 20702694
- September 14, 2010
- 08:00 AM
- 1,418 views
7 rules for social networking
by David Bradley in Sciencetext
Technology is transforming the way we many of us communicate. From those queuing up to join the “privacy aware” social network Diaspora and the half a billion Facebook users to Africans bartering call-time on mobile phones through cellular banking and the countless Brazilian users of Google Orkut. We are all becoming connected. The Internet began [...]Post from: David Bradley's Sciencetext Tech Talk7 rules for social networking
... Read more »
Tanuja Singh, & Joe Cullinane. (2010) Social networks and marketing: potential and pitfalls. Int. J. Electronic Marketing and Retailing, 3(3), 202-220. info:/
- September 11, 2010
- 02:36 PM
- 1,585 views
when bad quantum physics invade military news
by Greg Fish in weird things
As said by Futurama’s mad scientist at large, Professor Farnsworth, quantum mechanics mean that anything can happen for any reason or without one. Of course this was really a swipe at how so many of us tend to see the complex physics of quantum objects, and it’s a very valid one since there’s a seemingly [...]... Read more »
Jin, X., Ren, J., Yang, B., Yi, Z., Zhou, F., Xu, X., Wang, S., Yang, D., Hu, Y., Jiang, S.... (2010) Experimental free-space quantum teleportation. Nature Photonics, 4(6), 376-381. DOI: 10.1038/nphoton.2010.87
Lydersen, L., Wiechers, C., Wittmann, C., Elser, D., Skaar, J., & Makarov, V. (2010) Hacking commercial quantum cryptography systems by tailored bright illumination. Nature Photonics. DOI: 10.1038/nphoton.2010.214
- September 10, 2010
- 05:16 PM
- 685 views
fMRI, BOLD and the Beautiful
by amiya in Physiology physics woven fine
When we want to examine the brain of a person noninvasively by Computed Tomography (CT) or MRI, we get a ‘snapshot’ of the anatomy (or pathology, if any) of the subject’s brain. We are however clueless as to its functional aspect. fMRI or Functional Magnetic Resonant Imaging allows us to do just that. The difference is not unlike a ‘still picture’ versus a ‘video of a moving train’. PET scans, previously described, also can asses the functional state of the brain.Whenever we do a t........ Read more »
Gore, J. (2003) Principles and practice of functional MRI of the human brain. Journal of Clinical Investigation, 112(1), 4-9. DOI: 10.1172/JCI200319010
- September 7, 2010
- 11:47 PM
- 618 views
The World of Tractography Where The White Matter Tracts Appear Colored
by Amiya Kumar Sarkar in Physiology physics woven fine
White matter tractography, a relatively new MRI based technique, can delineate fiber tracts and assist in surgical planning and research.... Read more »
P. Mukherjee,, J.I. Berman,, S.W. Chung,, C.P. Hess, & R.G. Henry. (2008) Diffusion Tensor MR Imaging and Fiber Tractography: Theoretic Underpinnings. AM J Neuroradiol . DOI: 10.3174/ajnr.A1051
- September 7, 2010
- 01:54 AM
- 824 views
Gaming for good: human thought beats computer algorithms at solving protein structures
by Anna Goldstein in Berkeley Science Review Blog
Considering my fascination of late with unusual author lists in science papers, you can guess how excited I was to see an article in Nature that credited online gamers. I was especially amused to see that citation services like PubMed … Continue reading →... Read more »
Cooper S, Khatib F, Treuille A, Barbero J, Lee J, Beenen M, Leaver-Fay A, Baker D, Popović Z, & Players F. (2010) Predicting protein structures with a multiplayer online game. Nature, 466(7307), 756-60. PMID: 20686574
- September 6, 2010
- 01:58 AM
- 1,169 views
Web 2.0 Strategy for Medical Journals
by Dr Shock in Dr Shock MD PhD
I’m having a problem. I’m an editor for the Dutch/Flemish Journal of Psychiatry. Since I’m a blogger and on twitter and using many more web 2.0 tools I’m supposed to be the expert on web 2.0 and our journal. We’ve revamped our website and the journal is even on twitter. We’re planning presence on Facebook [...]
Related posts:Editing Medical Journals, A Course in Oxford
Twitter, Doctors, Hospitals and Medical Education
Social Media in Health and Medicine: Me........ Read more »
Senoaji Wijaya, Marco Spruit, Wim Scheper, & Johan Versendaal. (2010) Web 2.0-based webstrategies for three different types of organizations. Computers in Human Behavior. info:/10.1016/j.chb.2010.07.041
- September 1, 2010
- 01:00 PM
- 1,206 views
The "Bad" Language of Physics
by S.C. Kavassalis in The Language of Bad Physics
One of the things I sometimes find myself writing about is the “bad” language used by physicists. Sometimes we say Riemannian when we really should say psuedo-Riemannian, sometimes we call something a metric when it really is a line element – the kind of nitpicky pet-peeves that practically everyone has about literature in their field. Today, I’m going to be talking about the bad language in physics in a totally different context however.... Read more »
Regge, T. (1961) General relativity without coordinates. Il Nuovo Cimento, 19(3), 558-571. DOI: 10.1007/BF02733251
Galassi, M. (1993) Lapse and shift in Regge calculus. Physical Review D, 47(8), 3254-3264. DOI: 10.1103/PhysRevD.47.3254
Kheyfets A, LaFave NJ, & Miller WA. (1990) Null-strut calculus. II. Dynamics. Physical review D: Particles and fields, 41(12), 3637-3651. PMID: 10012308
ALPER ÜNGÖR, & ALLA SHEFFER. (2002) PITCHING TENTS IN SPACE-TIME: MESH GENERATION FOR DISCONTINUOUS GALERKIN METHOD. International Journal of Foundations of Computer Science , 13(2). info:/10.1142/S0129054102001059
- September 1, 2010
- 10:00 AM
- 652 views
Blogging with CONTEXT: A recommender system for bloggers
by Anatoliy Gruzd in Social Media Lab
As mentioned in the previous post, last week I was attending the Information Interaction in Context Symposium held in New Brunswick, USA.
At the poster session, I and my student Justin Wong (left in the photo) from the University of Toronto, presented our ongoing work on the development and evaluation of a context-aware information retrieval system for blog authors called CONTEXT.... Read more »
Gruzd, A. and Wong, J. (2010) Blogging with CONTEXT: a context-aware information retrieval system for bloggers. In Proceeding of the Third Symposium on information interaction in Context, 289-292. info:/10.1145/1840784.1840827
- August 31, 2010
- 09:00 PM
- 1,011 views
The Bad Language of Physics
by S.C. Kavassalis in The Language of Bad Physics
One of the things I sometimes find myself writing about is the “bad” language used by physicists. Sometimes we say Riemannian when we really should say psuedo-Riemannian, sometimes we call something a metric when it really is a line element – the kind of nitpicky pet-peeves that practically everyone has about literature in their field. Today, I’m going to be talking about the bad language in physics in a totally different context however.
Teepee Lattices, Future-Pointing Wigwams ........ Read more »
Regge, T. (1961) General relativity without coordinates. Il Nuovo Cimento, 19(3), 558-571. DOI: 10.1007/BF02733251
Galassi, M. (1993) Lapse and shift in Regge calculus. Physical Review D, 47(8), 3254-3264. DOI: 10.1103/PhysRevD.47.3254
Kheyfets A, LaFave NJ, & Miller WA. (1990) Null-strut calculus. II. Dynamics. Physical review D: Particles and fields, 41(12), 3637-3651. PMID: 10012308
ALPER ÜNGÖR, & ALLA SHEFFER. (2002) PITCHING TENTS IN SPACE-TIME: MESH GENERATION FOR DISCONTINUOUS GALERKIN METHOD. International Journal of Foundations of Computer Science , 13(2). info:/10.1142/S0129054102001059
- August 30, 2010
- 03:44 PM
- 992 views
Hacking Commercial Quantum Cryptography Systems by Illumination
by Olexandr Isayev in olexandrisayev.com
Quantum hackers have performed the first 'invisible' attack on two commercial quantum cryptographic systems. By using lasers on the systems — which use quantum states of light to encrypt information for transmission — they have fully cracked their encryption keys, yet left no trace of the hack.... Read more »
Lydersen, L., Wiechers, C., Wittmann, C., Elser, D., Skaar, J., & Makarov, V. (2010) Hacking commercial quantum cryptography systems by tailored bright illumination. Nature Photonics. DOI: 10.1038/NPHOTON.2010.214
Feihu Xu, Bing Qi, & Hoi-Kwong Lo. (2010) Experimental demonstration of phase-remapping attack in a practical quantum key distribution system. Preprint. arXiv: 1005.2376v1
- August 26, 2010
- 07:20 PM
- 481 views
Improved Protein Minimotif Prediction for Drug Development
by Michael Long in Phased
Sanguthevar Rajasekaran (University of Connecticut, United States), Martin Schiller (University of Nevada Las Vegas, United States), and coworkers have improved upon Minimotif Miner computer software for predicting functional relationships among proteins, relevant to drug discovery. This news feature was written on August 26, 2010.... Read more »
Rajasekaran, S., Mi, T., Merlin, J. C., Oommen, A., Gradie, P., & Schiller, M. R. (2010) Partitioning of Minimotifs Based on Function with Improved Prediction Accuracy. PLoS ONE, 5(8). DOI: 10.1371/journal.pone.0012276
- August 26, 2010
- 04:55 PM
- 1,535 views
Galaxy, a stride towards reproducible computational research
Galaxy started out as a very useful tool to do genomics research that was reproducible and sharable. One of my pet peeves in reading research papers that use genomic analysis or online genomics resources is the materials and methods sections. Often the methods and parameters used are mentioned only in a very cursory manner, if [...]... Read more »
Goecks, J., Nekrutenko, A., Taylor, J., & Galaxy Team, T. (2010) Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biology, 11(8). DOI: 10.1186/gb-2010-11-8-r86
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