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Program predicts placement of chemical tags that control gene activity

September 22, 2014 9:20 am | by Susan Brown, Univ. of California, San Diego | News | Comments

Biochemists in California have developed a program that predicts the placement of chemical marks that control the activity of genes based on sequences of DNA. By comparing sequences with and without epigenomic modification, the researchers identified DNA patterns associated with the changes. They call this novel analysis pipeline Epigram and have made both the program and the DNA motifs they identified openly available to other scientists.

Graphene sensor tracks down cancer biomarkers

September 19, 2014 4:33 pm | News | Comments

A new, ultrasensitive biosensor made from graphene has been used to detect molecules that indicate an increased risk of developing cancer. The biosensor has been shown to be more than five times more sensitive than bioassay tests currently in use, and was able to provide results in a matter of minutes, opening up the possibility of a rapid, point-of-care diagnostic tool for patients.

A new way to prevent the spread of devastating diseases

September 19, 2014 8:01 am | by Kimm Fesenmaier, Caltech | Videos | Comments

For decades, researchers have tried to develop broadly effective vaccines to prevent the spread of illnesses such as HIV, malaria and tuberculosis. While limited progress has been made along these lines, there are still no licensed vaccinations available that can protect most people from these devastating diseases. So what are immunologists to do when vaccines just aren't working?

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Researchers study vital on/off switches of deadly bacteria

September 19, 2014 7:50 am | by David Tennebaum, Univ. of Wisconsin-Madison | News | Comments

No matter how many times it’s demonstrated, it’s still hard to envision bacteria as social, communicating creatures. But by using a signaling system called “quorum sensing,” these single-celled organisms radically alter their behavior to suit their population. In short, some bacteria “know” how many of them are present, and act accordingly.

Sensing neuronal activity with light

September 18, 2014 12:29 pm | by Jessica Stoller-Conrad, Caltech | News | Comments

For years, neuroscientists have been trying to develop tools that would allow them to clearly view the brain's circuitry in action. To get this complete picture, neuroscientists are working to develop a range of new tools to study the brain. Researchers at Caltech have developed one such tool that provides a new way of mapping neural networks in a living organism.

New diagnostic method identifies genetic diseases

September 18, 2014 9:01 am | News | Comments

Fewer than half of all patients who are suspected of having a genetic disease actually receive a satisfactory diagnosis. To solve this problem, scientists have developed an innovative diagnostic procedure, called PhenIX, that combines the analysis of genetic irregularities with the patient's clinical presentation. The method involves a search for genes that cause disease and its related phenotypes to produce a short, testable list.

Designing more successful synthetic molecules

September 17, 2014 11:08 am | by Bjorn Carey, Stanford News Service | News | Comments

Ever since Robert Hooke first described cells in 1665, scientists have been trying to figure out what goes on inside. One of the most exciting modern techniques involves injecting cells with synthetic genetic molecules that can passively report on the cell's behavior. A new computer model could not only improve the sensitivity and success of these synthetic molecules, but also make them easier to design in the first place.

Setting a course for genomic islands

September 16, 2014 11:57 am | by Jim Shelton, Yale Univ. | News | Comments

Yale Univ. scientists are exploring uncharted genomic islands to study new chemistry between bacteria and their hosts, from invertebrates to humans. One such discovery is published in Chemistry & Biology. The findings describe a biological pathway that contains a hypothetical protein responsible for the formation of a rare, bicyclic sugar.

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Scientists discover RNA modifications in some unexpected places

September 16, 2014 11:40 am | by Matt Fearer, Whitehead Institute | News | Comments

Deploying sophisticated high-throughput sequencing technology, a team of Whitehead Institute and Broad Institute researchers have collaborated on a comprehensive, high-resolution mapping that confirms a post-transcriptional RNA modification called pseudouridylation does indeed occur naturally in messenger RNA. This is somewhat surprising finding using a new quantitative sequencing method.

Muscular dystrophy: Repair the muscles, not the genetic defect

September 16, 2014 7:52 am | by Laura Bailey, Univ. of Michigan | News | Comments

A potential way to treat muscular dystrophy directly targets muscle repair instead of the underlying genetic defect that usually leads to the disease. Muscular dystrophies are a group of muscle diseases characterized by skeletal muscle wasting and weakness. Mutations in certain proteins, most commonly the protein dystrophin, cause muscular dystrophy in humans and also in mice.

Researchers find neural compensation in people with Alzheimer’s-related protein

September 15, 2014 10:43 am | by Sarah Yang, Media Relations, UC Berkeley | News | Comments

The human brain is capable of a neural workaround that compensates for the buildup of beta-amyloid, a destructive protein associated with Alzheimer’s disease, according to a new study led by Univ. of California, Berkeley researchers. The findings could help explain how some older adults with beta-amyloid deposits in their brain retain normal cognitive function while others develop dementia.

The shadow of a disease

September 15, 2014 8:45 am | News | Comments

Researchers have developed an optical method that makes individual proteins, such as the proteins characteristic of some cancers, visible. Other methods that achieve this only work if the target biomolecules have first been labeled with fluorescent tags, but this approach is very difficult. By contrast, the new method allows scientists to directly detect the scattered light of individual proteins via their shadows.

X-rays unlock a protein’s SWEET side

September 15, 2014 8:41 am | by Justin Breaux, Argonne National Laboratory | News | Comments

Sugar is a vital source of energy. Understanding just how sugar makes its way into the cell could lead to the design of better drugs for diabetes patients and an increase in the amount of fruits and vegetables farmers are able to grow. Stanford Univ. researchers have recently uncovered one of these "pathways” into the cell by piecing together proteins slightly wider than the diameter of a strand of spider silk.

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New defense mechanism against viruses discovered

September 11, 2014 1:18 pm | News | Comments

Researchers have discovered that a known quality control mechanism in human, animal and plant cells is active against viruses. They think this new form of a so-called “innate immune defense” might represent one of the oldest defense mechanisms against viruses in evolutionary history.

Researchers create world’s largest DNA origami

September 11, 2014 9:35 am | by Matt Shipman, News Services, North Carolina State Univ. | News | Comments

Researchers from North Carolina State Univ., Duke Univ. and the Univ. of Copenhagen have created the world’s largest DNA origami, which are nanoscale constructions with applications ranging from biomedical research to nanoelectronics. DNA origami are self-assembling biochemical structures that are made up of two types of DNA.

A single evolutionary road may lead to Rome

September 9, 2014 12:03 pm | News | Comments

A well-known biologist once theorized that many roads led to Rome when it comes to two distantly related organisms evolving a similar trait. A new paper suggests that when it comes to evolving some traits, especially simple ones, there may be a shared gene, or one road, that’s the source.

Single cell smashes and rebuilds its own genome

September 9, 2014 10:59 am | by Morgan Kelly, Princeton Univ. | News | Comments

Life can be so intricate and novel that even a single cell can pack a few surprises, according to a study led by Princeton Univ. researchers. The pond-dwelling, single-celled organism Oxytricha trifallax has the remarkable ability to break its own DNA into nearly a quarter-million pieces and rapidly reassemble those pieces when it's time to mate. The organism internally stores its genome as thousands of scrambled, encrypted gene pieces.

Fingerprinting cell metabolism points toward study of obesity, diabetes

September 9, 2014 7:38 am | by Emil Venere, Purdue Univ. | News | Comments

Researchers have shown how to use a new imaging platform to map lipid metabolism in living cells, discovering specifically where cholesterol is stored and pointing toward further studies in obesity, diabetes and longevity. The imaging approach makes it possible to not only quantify the storage of cholesterol, but also the "desaturation" and oxidation of lipids, which may reduce the ability of cells to use insulin.

Scientists apply biomedical technique to reveal changes in body of the ocean

September 9, 2014 7:33 am | News | Comments

For decades, doctors have developed methods to diagnose how different types of cells and systems in the body are functioning. Now scientists have adapted an emerging biomedical technique to study the vast body of the ocean. In recent work they have demonstrated that they can identify and measure proteins in the ocean, revealing how single-celled marine organisms and ocean ecosystems operate.

Platelet-like particles augment natural blood clotting for treating trauma

September 8, 2014 8:23 am | by John Toon, Georgia Institute of Technology | News | Comments

A new class of synthetic platelet-like particles could augment natural blood clotting for the emergency treatment of traumatic injuries. The clotting particles, which are based on soft and deformable hydrogel materials, are triggered by the same factor that initiates the body’s own clotting processes.

Shining light on brain circuits to study learning, memory

September 8, 2014 8:04 am | by Robert Sanders, UC Berkeley | News | Comments

Univ. of California, Berkeley neuroscientists plan to use light to tweak the transmission of signals in the brain to learn more about how the mouse brain and presumably the human brain process information. Last month, the promising optogenetics research project was awarded one of 36 new $300,000, two-year grants from the National Science Foundation in support of the BRAIN Initiative.

Sequencing of fish reveals diverse molecular mechanisms underlying evolution

September 5, 2014 9:49 am | by John Toon, Georgia Institute of Technology | News | Comments

Researchers have sequenced the genomes and transcriptomes of five species of African cichlid fishes and uncovered a variety of features that enabled the fishes to thrive in new habitats and ecological niches within the Great Lakes of East Africa. The study helps explain the genetic basis for the incredible diversity among cichlid fishes and provides new information about vertebrate evolution.

The buzz on caffeine in coffee: A genetic quirk

September 4, 2014 2:57 pm | by Seth Borenstein, AP Science Writer | News | Comments

Scientists have woken up and smelled the coffee … and analyzed its DNA. More than 60 researchers from around the world mapped out the genetic instruction book of java. They found that what we love about coffee, the caffeine, is a genetic quirk and not related to the caffeine in chocolate or tea.

Scientists map protein in living bacterial cells

September 4, 2014 8:29 am | by SLAC National Accelerator Laboratory | News | Comments

Scientists have for the first time mapped the atomic structure of a protein within a living cell. The technique, which peered into cells with an x-ray laser, could allow scientists to explore some components of living cells as never before.

Cellular RNA can template DNA repair in yeast

September 4, 2014 7:54 am | by John Toon, Georgia Institute of Technology | News | Comments

The ability to accurately repair DNA damaged by spontaneous errors, oxidation or mutagens is crucial to the survival of cells. This repair is normally accomplished by using an identical or homologous intact sequence of DNA, but scientists have now shown that RNA produced within cells of a common budding yeast can serve as a template for repairing the most devastating DNA damage—a break in both strands of a DNA helix.

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