MedWorm provides a medical RSS filtering service. Over 6000 RSS medical sources are combined and output via different filters. This feed contains the latest medical blog items that have been tagged with 'dna sequencing'. Sat, 03 Sep 2011 02:21:14 +0100 http://www.medworm.com/index.php?rid=4848028&cid=t_130408_113_f&fid=34634&url=http%3A%2F%2Ffeedproxy.google.com%2F%7Er%2FEmrAndHipaa%2F%7E3%2FKu2UJfCTGwo%2F Katherine Rourke, on my sister site EMR and EHR, wrote an interesting piece on Adding Genomic Info to the EMR. Here’s a short excerpt from the post. You should go and read the rest of the post as well. As the author notes, some specialties have already begun to tailor drug treatments to individual patients based on their genomic profile. For example, DNA sequencing of tumors in non-Hodgkin’s and Mantle Cell lymphoma can lead to personalized cancer vaccines that can produce great results, notes writer Gerry Higgins of the NIH. Such data can also be used for a growing number of clinical situations, such as tailoring Coumadin doses to specific patients and providing psychiatric patients with the appropriate drug. I’d been meaning to write about genomics and EMR for a while and ... EMR and HIPAA blogs http://www.medworm.com/rss/comments.php?id=4848028 Tue, 17 May 2011 18:27:02 +0100 4848028 http://www.medworm.com/index.php?rid=4237896&cid=t_130408_87_f&fid=39187&url=http%3A%2F%2Fgetbetterhealth.com%2Fdiagnosising-sepsis-in-under-an-hour%2F2010.12.07 Because current sepsis tests can take up to two days to provide a diagnosis, many patients fail to receive proper treatment until it is too late. However, researchers at the Fraunhofer Institute for Cell Therapy and Immunology hope to improve survival rates with the MinoLab, a new testing platform which they claim will be able to provide results in under an hour. The MinoLab uses magnetic nanoparticles to carry the analyte through multiple reaction chambers before providing a final diagnosis. More from the announcement: Dr. Dirk Kuhlmeier, a scientist at the Fraunhofer Institute for Cell Therapy and Immunology, explains how all that works: “After taking a sample of blood, magnetic nanoparticles bind themselves to the target cells in the blood sample through specific catcher molecules. We... Better Health blogs http://www.medworm.com/rss/comments.php?id=4237896 Tue, 07 Dec 2010 15:00:28 +0100 4237896 http://www.medworm.com/index.php?rid=3538090&cid=t_130408_87_f&fid=39187&url=http%3A%2F%2Fgetbetterhealth.com%2Fdo-you-own-your-genome%2F2010.05.06 As the costs of sequencing our DNA shrink and the roles of digital media in our lives expand, we will need to understand who (or what) controls the ownership, access and use of our genomic information. From state regulation to Google to Facebook, who controls the acquisition, transmission and replication of our genomic information and material will become an important battle in the 21st century. (more…) *This blog post was originally published at Phil Baumann* (Source: Better Health) Better Health blogs http://www.medworm.com/rss/comments.php?id=3538090 Thu, 06 May 2010 14:00:11 +0100 3538090 http://www.medworm.com/index.php?rid=2954209&cid=t_130408_77_f&fid=37259&url=http%3A%2F%2Fwww.horizonpress.com%2Fblogger%2F2009%2F11%2Fmicrobial-genomics.html Microbes are ubiquitous in the world in which we live. With the development of high throughput DNA sequencing technology, there has been an explosion of DNA sequence data on microbes. The major aim of future microbial genomics will be to identify the functional significances of individual gene and genomic fragments and to use the information to help improve human health and promote our society development. One current major undertaking to understand genomic information is the comparative analyses between genomes that are not only distantly related, but also closely related ones. Such comparative analyses between genomes that have diverged at different evolutionary time scales allow us to extract different types of information about biological functions and evolutionary processes (Xu, 2010)... Microbiology Blog: The weblog for microbiologists. blogs http://www.medworm.com/rss/comments.php?id=2954209 Tue, 03 Nov 2009 12:03:00 +0100 2954209 http://www.medworm.com/index.php?rid=2871608&cid=t_130408_87_f&fid=38368&url=http%3A%2F%2Ffeedproxy.google.com%2F%7Er%2FDisruptiveWomenInHealthCare%2F%7E3%2FHa0wmbppsG4%2F Well – sadly it’s been one year since I have posted a blog with Disruptive Women in Healthcare so I really need to update you all on the fascinating science occurring in the genomics community. Shortly after I wrote my last blog in October 2008, I attended a meeting at one of our country’s finest scientific institutions– Cold Spring Harbor Laboratories – where some of the world’s foremost scientific discoveries have occurred. At this inaugural meeting entitled “Personal Genomes”, scientists discussed the tremendous potential for understanding the genome and translating this knowledge into our quest for the personalization of healthcare – yet at this meeting one year ago, we were acknowledging that we had sequenced less than a handful of genomes, the task at hand enorm... Disruptive Women in Health Care blogs http://www.medworm.com/rss/comments.php?id=2871608 Wed, 07 Oct 2009 11:05:33 +0100 2871608 http://www.medworm.com/index.php?rid=2306834&cid=t_130408_87_f&fid=35052&url=http%3A%2F%2Ffeedproxy.google.com%2F%7Er%2FWomensBioethicsBlog%2F%7E3%2FlYjouSQE0Zk%2Fbiobankingthrowdown-ethics-of-dna.html Do you agree or disagree with the following proposition? (take our poll and we'll compare it with the Economist's poll results) :People's DNA sequences are their own business, and no one else's. Art Caplan and Craig Venter go toe-to-toe on this issue, with Art Caplan defending the privacy of DNA and Craig Venter arguing for public access. An excerpt of the discourse:Art Caplan: "There are, it is increasingly said, plenty of reasons why people you know and many you don't ought to have access to your DNA or data that are derived from it. Have you ever had sexual relations outside a single, monogamous relationship? Well then, any children who resulted from your hanky-panky might legitimately want access to your DNA to establish paternity or maternity" ...to read more, click here.Craig Venter:... Women's Bioethics Blog blogs http://www.medworm.com/rss/comments.php?id=2306834 Tue, 24 Mar 2009 16:47:57 +0100 2306834 http://www.medworm.com/index.php?rid=1975200&cid=t_130408_87_f&fid=35052&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2FWomensBioethicsBlog%2F%7E3%2F459167990%2Flittle-bit-closer-to-jurassic-park.html I fully admit that I am typically the first skeptic in line when people make proclamations like "oh, we're getting close to Jurassic Park!" After all, as fantastical as the book (and movie) was, it was fantasy, and it got as much, if not more wrong, than right. So needless to say, it was with a bit of chagrin that my first reaction to reading that scientists believe that they can regenerate a woolly mammoth for around USD $10 million was, indeed, along the lines of "oh wow Jurassic Park!" In fact, my thought process, in pretty rapid succession, went something like this:Ooooooh neat!$10 million isn't really that much...Huh, yeah, it'd definitely raise ethical issues to do this to a Neanderthal, but why wouldn't it be ethically questionable for a mammoth?$10 million isn't that much at all, e... Women's Bioethics Blog blogs http://www.medworm.com/rss/comments.php?id=1975200 Thu, 20 Nov 2008 04:45:56 +0100 1975200 http://www.medworm.com/index.php?rid=1870869&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2FdUNDxsv4sLk%2F Complete Genomics launched this week with an announcement to provide a person’s entire genetic sequence for $5,000 each. The company’s ultimate goal is to sequence 1 million complete genomes, or 1,000 people each in 1,000 disease studies, in the hopes of revealing the genetic basis behind major human diseases. From a scientist’s point of view, this is exactly the data and perhaps sample size we need to study the role of genetics on development and cause of disease. It would be a nightmare to analyze, but it won’t be for lack of data, if the sequence will be made available across different studies. But it’s another story from an individual’s point of view. Having a complete sequence of one’s genome will identify all the genetic mutations and alleles... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1870869 Sun, 12 Oct 2008 13:18:49 +0100 1870869 http://www.medworm.com/index.php?rid=1502605&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F307849037%2F (Image credit: medicineworld.org)  This week b5 media’s Health and Wellness channel is focusing on celebrities health.  Our focus is not on ‘tittle tattle’  and hot gossip about Angelina, Brad or ’Tomkat’ but rather a serious look at health issues that high profile individuals share with all of us.  In the genetics world, our ‘celebrities’ are the likes of Craig Venter and James Watson - pioneering geneticists but basking in the eye of the media. The race to sequence genomes has resulted in some major PR, particularly for Craig and James. 454 is sequencing James Watson’s genome and Craig has announced some of his results in PLoS.  TV star Larry King, cosmologist Stephen Hawking, Google co-founder Larry Page, Microsoft co-founder Paul... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1502605 Mon, 09 Jun 2008 08:00:52 +0100 1502605 http://www.medworm.com/index.php?rid=1478017&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.feedburner.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F300506197%2F At last one for the girls!  … Geneticists at Leiden University Medical Centre (LUMC) are the first to determine the DNA sequence of a woman. She is also the first European whose DNA sequence has been determined The DNA is that of Dutch scientist Dr Marjolein Kriek, a clinical geneticist at LUMC. “If anyone could properly consider the ramifications of knowing his or her sequence, it is a clinical geneticist,”says professor Gert-Jan B van Ommen, leader of the LUMC team.  Now we have  a new ‘Watson and Kriek’ to compare genetic diversity! Elaine Warburton  www.geneticsandhealth.com Tags: DNA, DNA profiling, DNA sequencing, Genome sequencing, Human GenomeShare This (Source: Genetics and Health) Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1478017 Thu, 29 May 2008 11:58:02 +0100 1478017 http://www.medworm.com/index.php?rid=1458590&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F295120769%2F  (Tasmanian Tiger - photo credit www.bbc.co.uk/news) Using transgenic mice, Australian and American researchers have shown that they can “resurrect” a snippet of DNA from the genome of an extinct animal — the Tasmanian tiger — and test its biological function in a living animal.   The last Tasmanian Tiger died in an Australian zoo in 1936 having been hunted to extinction. Dr Andrew Pask, of the Department of Zoology at Melbourne University, who led the research, said it was the first time that DNA from an extinct species had been used to carry out a function in a living organism. “As more and more species of animals become extinct, we are continuing to lose critical knowledge of gene function and its potential,” he said.  “Up until now we have only been able t... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1458590 Wed, 21 May 2008 15:33:05 +0100 1458590 http://www.medworm.com/index.php?rid=1451858&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F293017649%2F A team from The University of Alabama (UAB) have found that among billions of HIV variants only a few lead to sexual transmission. George M. Shaw Professor in the UAB departments of Medicine and Microbiology and senior author on the report, said the research sheds new light on potential vulnerabilities in the virus at a time when science, medicine and society are still reeling from the failure of a major HIV vaccine clinical trial. “We can now identify unambiguously those viruses that are responsible for sexual transmission of HIV-1. For the first time we can see clearly the face of the enemy. …Our findings allow us to identify not only the transmitted virus, but also viruses that evolve from it.” The study was performed by sequencing many copies of the HIV envelope gene... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1451858 Sun, 18 May 2008 20:09:17 +0100 1451858 http://www.medworm.com/index.php?rid=1432548&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F286339795%2F Researchers have found marked genetic differences between brains of men who committed suicide and the brains of men who did not. Of those individuals studied, all had been victims of child abuse. Even though the genetic sequence was the same in the suicide and non-suicide brains, researchers at the McGill University, Montreal, Quebec, led by Moshe Szyfa, discovered that epigenetic markings were different. That is, the researchers noted a chemical coating on genes that was influenced by environmental factors. In this unique study, the DNA of male suicide victims from Quebec was analysed. The 13 people who committed suicide all had been victims of child abuse. “It’s possible the changes in epigenetic markers were caused by the exposure to childhood abuse, although in humans it&#... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1432548 Thu, 08 May 2008 20:54:43 +0100 1432548 http://www.medworm.com/index.php?rid=1423268&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F284178834%2F   Scientists from Imperial College London and other international institutions have discovered a gene sequence that is associated with a 2cm expansion in waist circumference, a 2kg gain in weight, and a tendency to become resistant to insulin, which can lead to type 2 diabetes. The sequence is found in 50% of the UK population. The study shows that the sequence is a third more common in those with Indian Asian than in those with European ancestry. This could provide a possible genetic explanation for the particularly high levels of obesity and insulin resistance in Indian Asians, who make up 25% of the world’s population, but who are expected to account for 40% of global cardiovascular disease by 2020. The new gene sequence sits close to a gene called MC4R (Melancortin-4 Receptor... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1423268 Mon, 05 May 2008 20:40:22 +0100 1423268 http://www.medworm.com/index.php?rid=1419318&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F283191869%2F A nationwide team of researchers, funded in part by the National Human Genome Research Institute (NHGRI), one of the National Institutes of Health (NIH), has produced the first sequence-based map of large-scale structural variation across the human genome. Recently created maps such as the HapMap have catalogued the patterns of small-scale variations in the genome that involve single DNA letters, or bases.  A sequence-based map provides much finer resolution and location information. Researchers constructed the structural variation map by partially sequencing the genomes of eight people: four people of African descent, two of Asian descent and two of European descent. Sequence data were collected from each end of roughly 1 million random small pieces of DNA from each individual’s ge... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1419318 Sun, 04 May 2008 08:52:50 +0100 1419318 http://www.medworm.com/index.php?rid=1367939&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F268841505%2F G&H’s INTERVIEW WITH NAVIGENICS Navigenics approached Genetics and Health for an interview. With so much written about similar genomics companies such as 23andme, Knome, deCODE genetics, I was intrigued to learn more about this company.  In particular, Navigenics appears to be the only company within this industry genre who provides a comprehensive wellness model – a healthcare model that Opaldia, the genetic screening and health surveillance company I founded, endorsed whole-heartedly.  I interviewed Navigenics’ Medical Director Dr Michael A Nierenberg MD, clinical professor of medicine, emeritus at Stanford University to find out what makes Navigenics stand out amongst its competition.  He was most candid in his responses and the company has been open and transparent in ... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1367939 Sat, 12 Apr 2008 08:00:08 +0100 1367939 http://www.medworm.com/index.php?rid=1360649&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F266938902%2F In this third article originating from G&H’s exclusive interview with Navigenics’ Medical Director, Dr Michael Nierenberg, we explore the whole issue of SNP testing and how SNPs can be used in disease risk assessment. Navigenics has focused on around 100 of the most definitive research papers on SNPs (single nucleotide polymorphisms) that have been most strongly associated with 18 particular diseases such as breast cancer, type II diabetes, cardiovascular disease.  The company has built an algorithm (mathematical computer program) that estimates the risk of a healthy person developing a disease if their genome has the relevant SNP.  The company has spent immense time and financial resources on engaging its panel of scientific and clinical experts to analyze the many hun... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1360649 Wed, 09 Apr 2008 10:32:39 +0100 1360649 http://www.medworm.com/index.php?rid=1352096&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F264565356%2F   Scientists from Helicos BioSciences, Ohio University, and Stanford University have published a paper in Science describing the first single-molecule sequencing of a whole genome. The researchers used a single-molecule sequencing, sequencing-by-synthesis method, developed by Helicos, to sequence the roughly 7,000-nucleotide genome of the M13 virus.  In the company’s version of single-molecule sequencing, an approach first proposed in the late 1980s, nucleic acid templates that are created by digesting genomic DNA are hybridized to primers that are covalently anchored in random positions on a proprietary glass cover slip in a flow cell. Then, a polymerase and labeled DNA bases are added, one nucleotide at a time. After they are incorporated into a complementary strand, these lab... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1352096 Sat, 05 Apr 2008 13:03:22 +0100 1352096 http://www.medworm.com/index.php?rid=1349625&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F263534364%2F   (Courtesy of WAMU 88.5 FM American University Radio, Washington, USA) This is a really interesting radio clip from The Diana Rehm Show on WAMU radio on the whole issue of personal genetics. http://wamu.org/programs/dr/08/04/01.php#20091 and click on either the real audio or windows media buttons “A growing number of people are turning to personalized genetic testing to learn about possible predisposition to some diseases, inherited behavioral traits, and clues to their family heritage. We’ll talk about what these tests can tell us and some of the new questions they raise.” Guests Dr. Francis Collins, director of the National Human Genome Research Institute Beth Peshkin, senior genetics counselor, Lombardi Comprehensive Cancer Center, Georgetown University Medical Cen... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1349625 Thu, 03 Apr 2008 19:59:28 +0100 1349625 http://www.medworm.com/index.php?rid=1289304&cid=t_130408_131_f&fid=34989&url=http%3A%2F%2Ffeeds.b5media.com%2F%7Er%2Fb5media%2FGeneticsHealth%2F%7E3%2F248324387%2F   (Image courtesy of www.ustc.edu.cn)  Latest news from the GenomeWeb: “The Beijing Genomics Institute at Shenzhen announced that it is launching an International Giant Panda Genome Project. Scientists at BGI-Shenzhen plan to sequence a panda to be selected from the Chengdu and Wolong breeding centers using high-throughput sequencing technology. They hope to have a draft genome sequence assembled within six months. The giant panda genome is roughly the same size as the human genome and contains some 20,000 to 30,000 genes. The project is intended to provide new insights into panda ecology and evolution. This could shed light on the panda’s history, migration, and relationships to other animals, as well as information about panda fitness and diseases that may help protect the end... Genetics and Health blogs http://www.medworm.com/rss/comments.php?id=1289304 Sun, 09 Mar 2008 12:25:35 +0100 1289304 http://www.medworm.com/index.php?rid=811921&cid=t_130408_107_f&fid=35041&url=http%3A%2F%2Fscienceblogs.com%2Fdigitalbio%2Fupload%2F2007%2F08%2Fcompare_callers.gif If you've read the previous posts on this topic, here and here, you're probably aware by now that I have this weird (okay, maybe fanatical) obsession with data. Or at least, with knowing if my data are right so I can get on with life, do the analysis and figure out the results. My results from last week suggested that re-processing chromatogram data (from the ABI 3730) with phred was probably a bad idea, but still, I only had one data point and I really wanted to know if anyone had done a more thorough study and compared larger numbers of chromatograms. Naturally, someone had. tags: DNA sequencing, DNA , base-calling programs Read the rest of this post... | Read the comments on this post... (Source: Discovering Biology in a Digital World) Discovering Biology in a Digital World blogs http://www.medworm.com/rss/comments.php?id=811921 Tue, 21 Aug 2007 13:12:40 +0100 811921 http://www.medworm.com/index.php?rid=801407&cid=t_130408_107_f&fid=35041&url=http%3A%2F%2Fscienceblogs.com%2Fdigitalbio%2Fupload%2F2007%2F08%2Fphred_wrong_sm.gif Sometimes asking a question can be a mistake. Especially when your question leads to more questions and having to question things that you didn't want to question, and pretty soon you begin to regret ever opening the file and looking at the data and asking the question in the first place. Sigh. Take a deep breath. Yesterday through a twist of fate, I ended up taking a look at the DNA sequences produced by two different base calling programs from the same chromatogram file, from an ABI 3730 DNA sequencing instrument. I thought they would be the same, or at least similar. tags: DNA sequencing, DNA , base-calling programs Read the rest of this post... | Read the comments on this post... (Source: Discovering Biology in a Digital World) Discovering Biology in a Digital World blogs http://www.medworm.com/rss/comments.php?id=801407 Thu, 16 Aug 2007 00:50:43 +0100 801407 http://www.medworm.com/index.php?rid=799266&cid=t_130408_107_f&fid=35041&url=http%3A%2F%2Fscienceblogs.com%2Fdigitalbio%2Fupload%2F2007%2F08%2Fquality_graphs.png What do you do when base-callers disagree? Okay DNA sequencing community, I want your help with this one. One of these sequences was called by phred and the other by the ABI KB base calling program. Which one should I believe? tags: DNA sequencing, DNA , base-calling programs Read the rest of this post... | Read the comments on this post... (Source: Discovering Biology in a Digital World) Discovering Biology in a Digital World blogs http://www.medworm.com/rss/comments.php?id=799266 Tue, 14 Aug 2007 18:16:27 +0100 799266 http://www.medworm.com/index.php?rid=721348&cid=t_130408_107_f&fid=35041&url=http%3A%2F%2Fscienceblogs.com%2Fdigitalbio%2Fupload%2F2007%2F07%2Fphone.jpg It was only a couple of weeks ago but it seems like years. I had spent a month learning how to use most of the features on my shiny new phone and we were in Alaska using Google maps to find our way around Fairbanks. My thumbs were getting sore, but so what? I could a give a slide show on my phone, I could read my Gmail messages, and we could find a friend's house in the Google map satellite view and amaze our older relatives with the thrill of technology. I'm not even a materialistic, gadgety sort of person, but I was in love. And now, well, maybe you guessed it. tags: chromatograms, DNA sequencing, iPhone, gadgets, technology Read the rest of this post... | Read the comments on this post... (Source: Discovering Biology in a Digital World) Discovering Biology in a Digital World blogs http://www.medworm.com/rss/comments.php?id=721348 Mon, 09 Jul 2007 17:12:00 +0100 721348