Sunnyvale, California (PRWEB) May 30, 2006 -- «Search algorithm» is a «Google-sized» buzzword in Silicon Valley. Based on FractoGene http://www.fractogene.com , an algorithmic concept of the whole genome, the entire DNA of a free-living organism with the smallest known genome, Mycoplasma Genitalium, was searched and a «FractoGem» was found; http://www.fractogem.com .
«FractoGem» is an iteratively increasing assortment of DNA oligonucleotide sequences (FractoSet-s; http://www.fractoset.com ) that may contain the newly found «pyknons» (Pyknons and FractoGene; http://www.pyknon.com ). FractoGem promises to provide a functional explanation of self-similar repetitive elements that are a material basis for the reverberative (mathematically, fractal) process of hierarchical protein-development that is the conceptual core of FractoGene».
Andras Pellionisz is a biophysicist who founded HelixoMetry in Sunnyvale, California, in 2001. In 2002 he invented utilities (FractoGene) to benefit from algorithmic interpretation of function of the genome, including 98.7% «Junk» DNA. Using FractoGene on the Mycoplasma, based on a rationale that «if even the smallest genome of a prokaryote (that are not supposed to have ‘introns' at all) contains 8% ‘non-coding' DNA, it may well be for a purpose, he focused on Mycoplasma and identified a precious code, called FractoGem. (Yes, the Gem was hidden in the «Junk»).
Pellionisz reports in his statement in the «Junk DNA news column»; http://www.junkdna.com/new_citations.html that he is establishing a new business unit, «FractoSoft», to tool up for a new era of Genomics. He calls the new Gold Rush «PostGene Discovery in Genetics beyond Genes». His recent efforts resulted in the creation of «International PostGenetics Society»; http://www.postgenetics.com , and in drafting a book - «FractoGene, decoding Junk DNA in PostGenetics».
The transition of the 100-year old Genetics to PostGenetics, with priority number one on non-coding DNA, is potentially significant not only in Academic research, but also for Biotech, Nanotech and Infotech» – he adds in his statement. He points out that the breaking news should not be unexpected. At the 50th Anniversary of the discovery of DNA, organized by Time Magazine in Monterey, CA (2003 February), Steve Jurvetson held a session titled «If the Genome is a Goldmine, where is the Gold?»
Impact of this development in information biophysics mean for research is that «FractoGene provides scientific, i.e. testable predictions for the function of the whole genome. FractoGem is a verifiable material basis for the iterative processes involving and governed by DNA. From a medical viewpoint, this is a vital for those suffering from «non-coding DNA diseases»; http://www.junkdna.com/junkdna_diseases.html . Without algorithmic approaches to an understanding of the function of non-coding DNA, Infotech is held back in helping Biotech, even though massive traditional IT is available».
Impact on Nanotechnology and Information Technology of FractoGem-s, first found in the smallest genome, but it appears also in human DNA, is that natural or synthetic DNA may not function without non-coding DNA, thus overlooking it in Nanotechnology and Synthetic Genomics may not be desirable.
For Information Technology, the impact is that tooling up for a new epoch will generate what Craig Venter calls ‘a Microsoft of Genomics'. It has been published that there might be a Venter/Google initiative towards searches in the Genome. In his statements Pellionisz analyses this trend.
With co-author Malcolm Simons, providing experimental support of FractoGene; http://www.junkdna.com/fractogene/05_simons_pellionisz.html a ‘Big One' was anticipated, when the massive Information Technology ‘tectonic plate' would pile up on the ‘genomics continent'. This write-up two years ago can be found as the ‘Big One' in the news column of ‘Junk' DNA. Now Microsoft, IBM, Google, SUN, HP are all on record with this trend. However, ‘searching in the DNA' is different from searching websites. Websites, and «generic DNA» such as «human DNA», are presently «public». In the future, as personal DNA emerges, a business model of public DNA, the innermost secret to any individual, will not hold water.
In his statement Pellionisz points out that business constructions are reorganized in the present disruptive environment. His enterprise is also re-structured. ‘SafeDNA' is already a live website (more later), and ‘FractoSoft' is the «tooling-up» Information Technology business arm for our line of service products. The core is the FractoGene Intellectual Property portfolio.
FractoGene ‘patent pending' (2002) provides utilities for working with self-similar repetitive sequences such as in FractoGem-s. However, customers should not be nervous about claiming ownership of anybody's findings. Pellionisz says in his statement; «When you buy a shovel, neither the toolmaker nor the store lay any claim on the gold, or gems, that you unearth by using your tool. The ‘California Gold Rush' has proven this business model quite successful».
There is much misunderstanding regarding Intellectual Property in Genomics». Searching the web, none of the search engines own (most of) the public pages. Likewise, there are many ways to find particular sequences in DNA. The Intellectual Property of the finding is not that of the tool-maker. Users don't pay royalties to Google for searching. Google core patent prevents a competitor popping up with another ‘Google'. Pellionisz crafted a business model for FractoSoft service-product that enables customers, small and large, to engage in this similarly explosive venture, but which likewise leaves the users' Intellectual Property intact. The shipped products are liked because the user can literally «unplug» the Internet. The toolmaker has no way of knowing what value is generated. Some customers need consultation, available at any desired depth.
Where «gold» is, depends on what business a user is in. Some need tools to search in DNA for ‘PostGenetic Medicine' to identify what is ‘wrong' in the non-coding DNA. Nanotechnologists, or those in synthetic genomics, wish to modify natural DNA for new materials, or producing Hydrogen cheaper. FractoGem suggests that modification of DNA is unlikely to be possible while disregarding the non-coding material. Power-tools, custom-built by FractoSoft may make significant difference.
Dr. Andras Pellionisz (Sunnyvale, California, USA)