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Sequence clustering – Wikipedia

Posted: Published on June 25th, 2017

In bioinformatics, sequence clustering algorithms attempt to group biological sequences that are somehow related. The sequences can be either of genomic, "transcriptomic" (ESTs) or protein origin. For proteins, homologous sequences are typically grouped into families. For EST data, clustering is important to group sequences originating from the same gene before the ESTs are assembled to reconstruct the original mRNA. Some clustering algorithms use single-linkage clustering, constructing a transitive closure of sequences with a similarity over a particular threshold. UCLUST[1] and CD-HIT[2] use a greedy algorithm that identifies a representative sequence for each cluster and assigns a new sequence to that cluster if it is sufficiently similar to the representative; if a sequence is not matched then it becomes the representative sequence for a new cluster. The similarity score is often based on sequence alignment. Sequence clustering is often used to make a non-redundant set of representative sequences. Sequence clusters are often synonymous with (but not identical to) protein families. Determining a representative tertiary structure for each sequence cluster is the aim of many structural genomics initiatives. Read more: Sequence clustering - Wikipedia … Continue reading

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Anatomy of a deal: Amarillo financial package was turning point for … – Amarillo.com

Posted: Published on June 25th, 2017

It was last fall, and negotiations with the Elmore Sports Group to bring its AA minor league San Antonio baseball franchise to Amarillo were creeping along. Its not that they were at an impasse, but something needed to be done to get talks off high center. Wichita, Kan., with its 400,000 population and serious talks of a $60 million stadium along the Arkansas River, was an inviting suitor. So too was Amarillo, but negotiators on behalf of the citys Local Government Corp. believed they needed a buzz. We had to create an advantage, said Alex Fairly, president of the Fairly Group, a risk management firm whose clients include Dave and D.G. Elmore among many professional and collegiate sports teams and organizations. We needed to do something they just couldnt say no to. It had to be shocking. The plan was to not just tell, but show the Elmores how committed Amarillo was to affiliated minor league baseball and rejoining the Texas League with a new downtown stadium. The plan was to sell all the inventory in the to-be-built $45.5 million stadium. That meant the big-ticket items of suite sponsorships, stadium and field naming rights, and Founders agreements. More than that, … Continue reading

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Tom Yamachika: Anatomy Of The Epic Fail On Rail – Honolulu Civil Beat

Posted: Published on June 25th, 2017

The Senate Ways and Means Committee took a very different tack. Its 10-page version basically said, Well take away the States 10 percent skim off the surcharge, but no extension; youre on your own. That draft unanimously passed the full Senate and went over to the House. House Finance Committee Chairwoman Sylvia Luke and Senate Ways and MeansChairwoman Jill Tokudaplayed key roles in the various drafts of the rail tax bill. Cory Lum/Civil Beat There, the House Transportation Committee kept the bill alive by putting blanks in it its draft extended the tax to an unspecified date, reinstated the skim but replaced the percentage with a blank percent to recover the states costs and a blank percent that would go the DOT for state highway projects. The House Finance Committee then filled in the blanks, extending the tax for two years, and dropping the skim to 1 percent, none of which would be earmarked for the DOT. This version went to the conference committee, and then surprising things started happening. First, the Senate proposed a new draft, radically different from the version that passed the Senate, which extended the surcharge for 10years and raised the skim to 20 percent. The … Continue reading

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Style Anatomy: Mehak Bokhari – The Express Tribune

Posted: Published on June 25th, 2017

Fabulous make-up artist Mehak Bokhari shares her style transformation with us Fabulous make-up artist Mehak Bokhari shares her style transformation with us. Find out what she is currently coveting and what she tries to avoid Understanding your body is the key to looking good and a trait found amongst all impeccably dressed fashionistas. While people shy away from talking about their bodies, these brave souls explain how they work their anatomies to their advantage How would you describe your body type? I would describe my body type as petite. Has your body type changed over the last 5 years? Yesss it has majorly changed over the last five years. How has your style changed over the years? I was never too experimental with my style. I always like to keep it simple and classy, but with time understood what suits me more. In your opinion what is your most troublesome area? My lower body How do you dress your body according to your body type? I cant really pull off anything which is too baggy or loose, so for me it always has to be something slightly fitted and nothing too revealing. Which silhouettes suit your body the most? I … Continue reading

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Altavista community raises money for local firefighter battling form of … – WSET

Posted: Published on June 25th, 2017

David Cox pictured with his three kids when he was working for the Lynchburg Fire Department. ALTAVISTA, Va. (WSET) -- David Cox has been fighting fires and helping save lives for 15 years with the Lynchburg Fire Department. Cox says it's been a life-long dream and has always been his passion. But his wife Bess Cox said a of couple months ago, he received the worst news of his life. "As of right now he has been diagnosed with Myasthenia Gravis, which is a form of Muscular Dystrophy," She said. So now instead of fighting fires, he is fighting for his own life. Calvary Baptist Church wanted to step in and help the Cox family once word got around their town of Altavista about what he was going through. Cox and his wife has three kids. Pastor Seth Peterson decided to put together a basketball tournament and barbecue to raise money for Cox's medical bills. He said their goal was to raise $5,000, but they surpassed that goal and raised around $6,500. Calvary Baptist Church is not even the Cox's home church, but have a few friends that are members. Pastor Peterson said their church just wanted to help a … Continue reading

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Maple Ridge boy with cerebral palsy will take part in 5 kilometer run … – Maple Ridge News

Posted: Published on June 25th, 2017

Dylan Pallister, 11, left, will be participating in the Scotiabank Charity Challenge on the weekend to raise money for the Cerebral Palsy Association of B.C.. Contributed Dylan Pallister will be walking and running intermittently for the Scotiabank 5 kilometer run/walk in Vancouver. Dylan Pallister has cerebral palsy, but that doesnt stop the enthusiastic 11-year-old from playing wheelchair basketball, sledgehockey, adapted swimming or jogging. Dylan was diagnosed with the condition when he was a year old. He was deprived of oxygen to the brain either before, during or after birth. So its kind of like brain damage. It depends on what part of the brain is damaged, as to what it affects in a child. Every person is different, explained his mother, Celia Pallister. With Dylan, its his balance and mobility that are affected. Everytime he grows, his muscles become tighter. But that can be improved with exercise. He walks around with the aid of walking sticks. Finding activities in the community that are adapted is key, says his mother. [Cerebral palsy] is a static condition it doesnt get worse, but it doesnt get better, she explained. Dylan is preparing to participate in the five-kilometre Scotiabank Charity Challenge. He will be … Continue reading

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Injured Palestinian teen in Gaza denied exit permit for medical treatment – Ma’an News Agency (press release)

Posted: Published on June 25th, 2017

(AFP/Abbas Momani, File) Dozens of young protesters had taken to the border to protest in solidarity with a mass Palestinian prisoner hunger strike, and clashed with Israeli forces that fired live ammunition at the crowd. According to DCIP, when the teen was hospitalized, a doctor recommended that the family apply for an urgent exit permit and an escort to travel through the Israeli-controlled Erez border crossing to Jerusalem for specialized care. Khalid underwent surgery to remove his right kidney and repair damage to his aorta. Heavy blood loss carried the possibility of damage to other organs, including his brain, and caused a nine-day coma, medical sources at al-Aqsa Martyrs Hospital in Deir al-Balah told DCIP. While Khalid was still in a coma, on May 27, his family applied for an exit permit so he could be treated in an Israeli hospital, but the Israeli Civil Affairs office denied the application. After Khalid recovered from the coma on May 31 and began daily courses of dialysis to remove toxins in his left kidney, the family filed a second permit request, for which they are still awaiting a response, DCIP said. We are waiting to transfer him to the hospital in Jerusalem, … Continue reading

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Philips to buy Electrical Geodesics for brain monitoring tech – FierceBiotech

Posted: Published on June 25th, 2017

Philips has struck a deal to buy Electrical Geodesics for its noninvasive brain activity monitoring and interpretation devices. The Dutch conglomerate plans to combine the technologies with its imaging and informatics assets to better diagnose and guide treatment of neurological disorders. Electrical Geodesics specializes in electroencephalogram (EEG) hardware and software. Like other EEG technologies, the products detect electrical activity in the brain. The difference, as Philips sees it, is the Electrical Geodesics technologies use more electrodes to gather brain activity data than is typical. The dense array EEG marketed by Electrical Geodesics uses 256 sensors. Electrical Geodesics opted for this approach to deliver readouts that track changes in brain activity millisecond by millisecond at high resolution. Philips is a believer in the merits of the approach. By adding the technology to a portfolio featuring imaging and informatics capabilities, Philips is aiming to assess the anatomy, physiological processes and electrical activity of the brain. The hope is this comprehensive assessment will improve the diagnosis and treatment of neurological disorders, notably stroke, epilepsy, traumatic brain injury and Parkinsons disease. By fusing these different tools together, we will create a more comprehensive map of the brain, and unlock new computational algorithms which will … Continue reading

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Augusta Pride kicks off eighth annual celebration – WJBF-TV

Posted: Published on June 25th, 2017

AUGUSTA, Ga. (WJBF)-Augusta Pride Weekend 2017 has arrived. This is the eighth annual pride celebration in Augusta, and this year, organizers are hoping between 12,000 and 15,000 people attend the weekend of celebration. Alyssa Fredericks of Thomson came to Beats on Broad, the Friday night celebration at the common, with her girlfriend, andshe says she feels the CSRA is a pretty welcoming place for the LGBTQ community. Its good to be out here with everybody, Fredericks said. Its like a community as one. Even though its a party, some groups are taking advantage of the celebration to offer important health services, includingfree HIV testing. We caught up with a volunteer from the Equality Clinic of Augusta, which is a free student-run clinic for uninsured and underinsured people. A lot of our patients are from the LGBTQ population, said Matthew Luo, who is treasurer of the Equality Clinic of Augusta. Luo says about 70 percent of their patients are transgender people seeking hormone replacement therapy. He says they are one of the only clinics in the region that provides that service to those in need. We have people coming from Charleston, from Mississippi from like Kentuckyall over the Southeast to come, … Continue reading

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Epigenetic drugs set to boost immunoncology – European Biotechnology

Posted: Published on June 24th, 2017

German oncologists have unveiled that market-approved inhibitors of DNA methyltransferases (DMNTi) and histone deacetylases (HDACi) act through expression of cancer neoantigens. They already have a biomarker test to identify responders. The findings, reported in Nature Genetics, are good news for drug developers who want to broaden the scope of current immune checkpoint modulators through combination therapies that trigger cancer cells to release immunogenic neoantigens. Following addition of epigenetic inhibitors to cancer cell cultures thousands of atypical transcripts with altered frameshift were expressed form previously ignored endogenous promotors of retroviral origin, resulting in profound tumour cell death, group leader Plass from German Cancer Centre told European Biotechnology. His team has already a biomarker assay that could identify responders to the treatment as it measures activation of the normally silent treatment induced, not-annotated transcription start sites (TINATs). Up to now, pharma majors such as Roche/Genentech have largely relied on combination of their checkpoint inhibitors with personalised mRNA cancer vaccines. The new findings might open the avenue to a broader activation of cancer neoantigens than these vaccinesas over 2,500 TINATs have been identified in the human genome by the researchers. The retrotransposons (elements of human endogenous retroviruses, HERVs), which are located in long … Continue reading

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