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Recent News and Articles on the Keywords: 2006 + [gzip] + 841  Related to the article below (Last Update: 8/4/2008)

Zipeg version 2.4 is out
TechWhack (press release), India - Jul 23, 2008
This version of Zipeg also preserves execute permissions in TGZ (also known as TAR GZIP archives) popular for Linux and X-Window based applications like ...
New mobile browsers bringing real Web to handhelds
Computerworld Kenya, MA - Jul 21, 2008
But many mobile browsers, and the major HTTP server platforms, already support a compression utility called gzip (short for GNU zip), though it apparently ...
Дары Яндекса - директива Crawl-delay и поддержка GZIP
seonews.ru, Russia - Jul 25, 2008
В 2006 году особенно остро эта тема обсуждалась в связи с ныне почившей поисковой системой Вебальта, которая в стремлении быстро проиндексировать максимум ...
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WS Jacobs, ME Banton, DC Robinson, JA Moore - US Patent 7,307,760, 2007 - Google Patents
... Bl 12/2001 6,429,948 Bl 8/2002 6,542,173 Bl 4/2003 7,103,221 B2* 9/2006 2002/0097419 ...
al 35 8/1 . 1 5 Rumph et al 35 8/1 . 1 5 Buckley 345/841 Ohta et ... GZIP TAGS ...
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Northern Sky Variability Survey: Public Data Release 1 -
PR Wozniak, WT Vestrand, CW Akerlof, R Balsano, J … - The Astronomical Journal, 2004 - UChicago Press
... The most efficient way of storing the database as files in terms of the size and
speed of rebuilding the database proved to be gzip-compressed, semicolon ...

[PDF] A Complete Bibliography of Internet RFC Documents -
NHF Beebe - math.utah.edu
... 1820 [1810]. 1821 [1811]. 1822 [1812]. 1822L [792, 841, 868]. 1823 [1813]. 1824
[1814]. ... 2004 [1991]. 2005 [1992]. 2006 [1993]. 2007 [1994]. 2008 [1995]. ...

Compression-based classification of biological sequences and structures via the Universal Similarity … -
P Ferragina, R Giancarlo, V Greco, G Manzini, G … - feedback, 2007 - biomedcentral.com
... Gzip and Bzip2 These are the well known compression tools based respectively on
the classic Lempel-Ziv algorithm ... In London Algorithmics and Stringology 2006. ...

System-level, thermal-aware, fully-loaded process scheduling
D Li, HC Chang, HK Pyla, KW Cameron - Parallel and Distributed Processing, 2008. IPDPS 2008. IEEE …, 2008 - ieeexplore.ieee.org
... 302 303 Mcf 468 632 Art 312 366 Group D Gzip 639 525 ... Power Management," in 39th
ACM/IEEE International Symposium on Microarchitecture (MICRO-39), 2006. ... 841-850 ...

[PDF] Clustering in high dimension and choosing cluster representatives for SimPoint.
JB Johnston - 2007 - beardocs.baylor.edu
... (Elkan 2006) mixture shows it is well ... bzip2-source-ref 1089 gzip-source-ref 844
crafty-ref 1919 lucas-ref 1424 ... gcc-00-integrate-ref 132 vpr-route-ref 841 ...

A simpler analysis of Burrows?Wheeler-based compression -
H Kaplan, S Landau, E Verbin - Theoretical Computer Science, 2007 - Elsevier
... plrabn12.txt 3854888 1556408 1164360 1161816 xargs.1 33816 13984 14096 14384 The
gzip results are ... 14th European Symposium on Algorithms, ESA 06, 2006, pp ... 841 850 ...

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??? - ????????: ??? ? ??, 2006 - dbpia.co.kr
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Partial dead code elimination on predicated code regions -
J Xue, Q Cai, L Gao - Software, Practice & Experience, 2006 - doi.wiley.com
... Copyright c 2006 John Wiley & Sons, Ltd. Received 8 June 2005; Revised 15 November
2005; Accepted 11 January 2006 ... Copyright c 2006 John Wiley & Sons, Ltd. ...

[BOOK] Linux Administration Handbook -
E Nemeth, G Snyder, TR Hein - 2006 - books.google.com
... II. Hein, Trent R. III. Title. QA76.76.063N448 2006 005.4'32?dc22 Copyright ? 2007
Pearson Education, Inc. ... First printing, October 2006 Page 5. Contents ...

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Taking 'Chips' To The Next Level Of Gene Hunting

Article Date: 18 Nov 2006 - 10:00am (PST)
Researchers at the Johns Hopkins' High Throughput Biology Center have invented two new gene "chip" technologies that can be used to help identify otherwise elusive disease-causing mutations in the 97 percent of the genome long believed to be "junk."

A variety of DNA microarray technology, one of the two new chips, called the TIP-chip (transposable element insertion point) can locate in the genome where so-called jumping genes have landed and disrupted normal gene function. This chip is described online this week in the Proceedings of the National Academy of Sciences.

The most commonly used gene chips are glass slides that have arrayed on them neat grids of tiny dots containing small sequences of only hand-selected non-junk DNA. TIP-chips contain on them all DNA sequences. Because each chip can hold thousands of these dots - even a whole genome's worth of information - scientists in the future may be able to rapidly and efficiently identify, by comparing a DNA sample from a patient with the DNA on the chip, exactly where mutations lie.

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"With standard chips, we're missing a big piece of the picture of mutations in humans because they look only at the meaty parts of genes, but the human genome is only 3 percent meaty parts," says Jef Boeke, Ph.D., Sc.D, professor of molecular biology and genetics and director of the HiT (High Throughput Biology Center), who spearheaded both studies at the Institute of Basic Biomedical Sciences at Hopkins. "The other 97 percent also can contain disease-causing mutations and is often systematically ignored," he says.

Boeke and his team have focused particularly on transposable elements, segments of DNA that hop around from chromosome to chromosome. These elements can, depending on where they land, wrongly turn on or off nearby genes, interrupt a gene by lodging in the middle of it, or cause chromosomes to break. Transposable elements long have been suspected of playing a role vital to disease-causing mutations in people. Boeke hopes that the TIP-chip eventually can be used to look for such mutations in people.

The new TIP-chip contains evenly sized fragments of the yeast genome arrayed in dots left to right in the same order as they appear on the chromosome. Boeke's team used the one-celled yeast genome as starting material because, unlike the human genome, which contains hundreds of thousands of transposable elements of which perhaps a few hundred are actively moving around, the yeast genome contains only a few dozen copies.
 
Like a word-find puzzle, where words are hidden in a jumbled grid of letters, the TIP-chip highlights exactly where along the DNA sequence these elements have landed. By chopping up the DNA, amplifying the DNA next to the transposable elements and then applying these amplified copies to the TIP chip, the researchers were able to map more than 94 percent of the transposable elements to their exact chromosome locations.

The second new chip, described in a separate report published in the Nov. 3 issue of Nature Methods, contains twice the amount of genetic information of current DNA chips.

"This one lets us look at twice as much as we could in the past, which means essentially that all chip experiments become faster and cheaper and can be done on an ever larger scale," says Boeke. The chips his team currently uses cost about $400 per experiment. If the amount of information can be quadrupled, "it would be four experiments for the price of one," he says.

Standard chips contain one layer of DNA dots that read from left to right, like the across section of a crossword puzzle. Boeke's new double-capacity chips hold two layers of dots, a bottom layer that reads across and a top layer that reads down, again using the crossword analogy. So if their experiment lights up a horizontal row of dots, the researchers learn that the data maps to the region of the genome contained in the bottom layer; likewise, if the experiment highlights a vertical row, the data correspond to the top layer.

Says Boeke, "It's so easy to differentiate the top and bottom layers. Next we're going to try adding another layer reading diagonally" to triple the amount of genomic information packed onto the tiny chips.

###

Researchers were supported by grants from the National Institutes of Health.

Authors of the TIP-chip and double-tiled DNA chip papers are Sarah Wheelan, a new faculty member in the Department of Oncology, Lisa Scheifele, Francisco Martinez-Murillo, Rafael Irizarry and Boeke, all of Hopkins.

On the Web: http://www.hopkinsmedicine.org/ibbs/research/HitCenter/index.html

Contact: Audrey Huang
Johns Hopkins Medical Institutions
 
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