To enable faster processing in gene sequencing, you need Software Tools to program in multicore

Gene sequencing can speed the diagnosis of rare genetic disorders in newborns and find causes of mental retardation in cases with unknown origins, according to two studies that move DNA mapping closer to clinical use.
Researchers at Children’s Mercy Hospitals and Clinics in Kansas City, Missouri, scanned the DNA of sick infants using a new speed-reading method to diagnose rare genetic illnesses in two days instead of weeks, results published in Science Translational Medicine found. Dutch scientists reported in the New England Journal of Medicine how they found genetic answers for 16 of 100 patients with mental retardation of unknown cause.
The new research supports an effort to bring gene- sequencing technology, mostly used in academic, government and company laboratories, into hospitals and doctors’ offices for diagnostic purposes. The studies were made possible in part by technology from San Diego-based Illumina Inc. (ILMN) and Carlsbad, California-based Life Technologies Corp. (LIFE), the two biggest makers of gene-sequencing machines.
“This is the biggest breakthrough in this technology for clinical applications we have seen in a few years,” said David Dimmock, a geneticist at the Medical College of Wisconsin and Children’s Hospital of Wisconsin in Milwaukee, about the study of newborns. “The ability to sequence and interpret a genome in less than week is huge.”
The researchers at Children’s Mercy Hospitals and Clinicscreated software that takes raw data from DNA scanning machines and combs though hundreds of genetic disorders to spot disease- causing mutations. The system provided likely diagnoses for three of four sick babies in about two days.

Practical Use

The new method has the potential to make genome sequencing practical for neonatal intensive care units, enabling doctors to diagnose mysterious genetic diseases more quickly, said Stephen Kingsmore, director of the Center for Pediatric Genomic Medicine at Children’s Mercy and a study senior author. Fast diagnoses of sick babies may lead to life-extending treatments sooner in some or help avoid futile, costly therapies in others.
Dimmock, who wasn’t involved in the study, said researchers at his institution were working on a similar fast genome interpretation system, but hadn’t published the results yet. “They beat us to the punch,” he said.
The colossal volume of raw data generated from gene sequencing must be analyzed by expert genetic researchers, a process that previously has taken weeks or months.

Smart Software

Kingsmore and his team tackled that issue by devising smart software that allows treating doctors to enter in a sick baby’s symptoms. The software then matches these reported symptoms to known genetic diseases that have similar symptoms, and scans through the baby’s genome results for likely harmful mutations in relevant genes.
“We think this is going to transform the world of neonatology,” Kingsmore said during a conference call with reporters. “Until now, this was just not possible” to get whole genome scan results quickly enough to help sick newborns in intensive care units, he said. “Babies either died or else got better and were discharged home before the results of a gene test were returned.”
For cases in which treatments are available, spotting the cause of a disease sooner may allow treatments to be started before it is too late, he said. Kingsmore estimated the total cost of the test to be about $13,500.

More Data

The software so far includes 600 genetic diseases that affect children, Kingsmore said in a telephone interview. His team plans to have all 3,500 genetic diseases where the precise genetic cause is known entered in the system by the end of the year. There are thousands more genetic diseases where the causes are still unknown.
The projected two-day turnaround for the test doesn’t include the time to express-mail DNA samples to Illumina and for the company to send back the results on a hard drive. Including this transit time, the process took about a week, Kingsmore said. Kingsmore said he hopes to achieve the two-day time after Children’s Mercy gets its own copy of the new Illumina machine later this fall.
Though results from the newborn study “push the envelope,” the two-day turnaround represented a “best-case scenario,” that is unlikely to be achieved in most real-world circumstances, said Wendy Chung, a molecular and clinical geneticist at Columbia University.
A more realistic time for genome results would be a week, given practical considerations such as the fact that most hospital labs close over the weekend, she said. This still would be a big improvement over current methods, she said.

Few Solutions

Chung also cautioned that there only are a minority of cases in which super-fast gene scans will lead to life-saving treatments. Most severe genetic diseases don’t have good treatments, and the ones that do often can be diagnosed by other methods that don’t require every gene to be scanned.
The study was sponsored by Children’s Mercy and the Marion Merrell Dow Foundation. Illumina provided free DNA sequencing for the babies in the study and several of the company’s researchers were co-authors on the study.
In a separate study, Dutch scientists sequenced the genomes of 100 individuals with mental retardation with no known cause and found genetic reasons for 16 of them.
While more than 400 genetic mutations are known to cause intellectual disability, they are responsible for less than half of the cases, said Han Brunner, a study author and head of human genetics at Radboud University Nijmegen Medical Centre in the Netherlands.

Improved Diagnoses

The study shows how gene sequencing can improve diagnosis in patients with mental disabilities. Knowing the genetic origin can help patients and families understand the prognoses and may lead to specific treatment options, the authors said in the study.
“Half of the children and adults with intellectual disability never have an explanation of why they are retarded — that’s a big problem,” leading many parents on a quest to numerous doctors looking for answers, Brunner said in a telephone interview. “This is what people call the diagnostic odyssey, and people can put that to rest,” by using genetic sequencing, he said.
Researchers scanned the DNA of children with mental retardation, defined as having an IQ of less than 50, as well as their parents, and looked for differences. While all children have some mutations, few lead to intellectual disability, Brunner said. Once the culprits are known, it can help direct some therapies or dietary changes.
“We had two cases where the type of mutation would suggest that you might try a treatment for a metabolic disorder, and another with epilepsy,” he said.
For instance, patients with a mutation in the PDHA1 gene would benefit from a ketogenic diet, which is high in fat, and those with SCN2A mutation should avoid sodium-channel blockers to better control their epileptic episodes and improve cognitive function, according to the study, which was sponsored by the European Union.
To contact the reporters on this story: Robert Langreth in New York at; Ryan Flinn in San Francisco at
To contact the editor responsible for this story: Reg Gale at

Systematic approach to Problem Solving

“I can easily create processes and systems that can manage hundred of thousand of branches in real time, creating reporting tools that have business intelligence to maximise ROI, creating the greatest value of anything I want.” – Contributed by Oogle.

Systematic approach to Problem Solving

1) First you need to identify your
2) I will break everything down to so that I will achieve my goals, you need to list all the steps, it is crucial you know exactly the end result, if not tasked properly, you can never achieve your goals.
3) Then set
4) Next criteria will be
5) Then

If I want I can easily link to external data to verify, compare and insert any views I want. My 3D search engine is an external tool which I can study in-depth into anything I want. I can easily do Statistical Analysis, create a TimeLine, Link and Compare anything, Do accurate searches which the present technology cannot, or monitor changes to multiple fields within a specific timeframe. I can even create probality concepts and predictive analysis to predict the future or risk analysis. Real time monitoring is the skill I have yet to develop for facial expression, voice analysis, body language to tell the truth from a lie which is the designs of a security camera software, which is so complicated without any funds or research, there will be no results. Play some more games I will destroy everything and nobody can produce anything for the next 200 years.
As such if you have an idea how to run a program, everything can easily be in-built to software to solve problems. I have already taught everyone the necessary skills to increase your net worth because I can formulate anything I want.
Example ;
If I want to make S$1 million before I retire, what must I do?
First you need to know your income.
Then how much you can save yearly.
Calculate the Time it will take eg X years.
This is basic financial planning but I will show you something more complicated.
Question 1 : If I invest in an insurance policy, will I reach my goals faster?
Question 2 : How much is the sum assured required then?
Question 3 : If I invest in real estate, what type will give me the best returns to achieve my goals?
Question 4 : Without a target, taking consideration of inflation at 5% per annum, what is my expected capital appreciation? 
Question 5 : What is the risk of losing my money when the market turns?
Question 6 : If I invest in stocks and shares what must I buy to give me the best returns to achieve my goals?
Question 7 : You need historical data of the performance of the stock, an understanding of the fundamentals, and the ability to spot the balance sheet to compute the “real income” thru it’s PE ratio, the potential increase of any underlying asset/resources the company possess.
Question 8 : Which is the best options and the shortest route to reach my goals?
Not only you must be capable of answering the above questions, I have an added ability to monitor multiple views of any scenerio I want to create, creating an insight nobody can see. Once you find out your best options and your shortest route, you can use the above formula to create your goals and your tasks, your priority and budget, and any additional resources you need. You take one full day to solve everything, I take 1 hour.That is the reason why I invent 3D search engine & intelligent programming to solve the above, soon people can also do likewise. I need all my tools to link all the worldwide exchanges together or I can never achieve my tasks, only then will there be totally no worry of money anymore.
God gave me knowledge of every single thing in this world, and I must trek the fine line, or there will be people who will harm me, trying to be like me at whatever the costs, if the world rejects God’s plan, you can never solve the money problem, neither will you have technologies to improve your lives, the world will be in darkness and suffering will be everywhere, and I will leave the world and take nothing in return to lead a hermit’s life until my remaining days, I will not even have a wife, God has decreed that if you accept His covenent, Jesus will come back to deliver the balance of His promises, that is eternal life and a white new shining body that will last forever living like an angel where there will not be a lack of resources at the Tree of Life in heaven, I have already delivered half the bargain, it is time everybody gets rid of nuclear weapons to live in peace and prosperity.
– Contributed by Oogle.