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Stanford's goal: to understand protein folding, protein aggregation, and related diseases.



What are proteins and why do they "fold"? Proteins are biology's workhorses -- its "nanomachines." Before proteins can carry out their biochemical function, they remarkably assemble themselves, or "fold." The process of protein folding, while critical and fundamental to virtually all of biology, remains a mystery. Moreover, perhaps not surprisingly, when proteins do not fold correctly (i.e. "misfold"), there can be serious effects, including many well known diseases, such as Alzheimer's, Mad Cow (BSE), CJD, ALS, and Parkinson's disease.

What does Folding@Home do? Folding@Home is a distributed computing project which studies protein folding, misfolding, aggregation, and related diseases. Stanford uses novel computational methods and large scale distributed computing, to simulate timescales thousands to millions of times longer than previously achieved. This has allowed us to simulate folding for the first time, and to now direct Stanford's approach to examine folding related disease.



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 Boingo04/17/14 
 DanielGordon04/16/14 
 Huberthans04/15/14 
Isolating immune cells to study how they ward off oral diseases
Refined categorization may improve prediction of patient survival in RECIST 1.1
Blocking protein partnership has implications for cancer treatment
Ovarian cancer patients may benefit from nanoparticles designed to deliver three cancer drugs at a time
Gene variant makes eaters of processed meat 'more likely to get colorectal cancer'
Teens who conform to gender norms 'more likely to engage in cancer-risk behaviors'
Severe sleep apnea linked to increased risk of stroke, cancer and death
Processing can affect size of nanocarriers for targeted drug delivery
Research shows processing can affect size of nano carriers for targeted drug delivery
Study suggests gene panels as a useful, cheaper alternative to whole-genome sequencing
New blood test 'accurately predicts breast cancer recurrence'
New state-of-the-art educational platform for uro-onco professionals now online
Breakthrough technology to enable doctors to select more effective treatment for cancer patients on a personalised basis
Hepatocellular carcinoma: new advances in diagnosis, staging and treatment all predicted to improve patient outcomes
How and when nerve and brain cells are formed could open doors to targeted cancer therapies
Genetic evidence supports role virus-fighting genes in cancer development
New strategies suggested for kidney regeneration by gene linked to Wilms tumors, a pediatric kidney cancer
ZMYND11 'reads' methylated variant to thwart cancer; tied to breast cancer patient survival
Too much of a protein called c-FLIPR can trigger autoimmune diseases
Tough liver cancer may be treated with immunotherapy
Discovery of latent bioluminescence in fruit flies holds promise for expanded use of bioluminescence imaging tools
3D-printed kidneys could become standard for simulated cancer surgery
Chemotherapy before or after surgery for high-risk bladder cancer improves survival, but is not routinely administered
Virus-fighting genes linked to mutations in cancer: Genetic evidence supports role of gene family in cancer development
Genetic changes associated with epigenetic changes increase risk of developing cancer
Apathy in older adults linked to increased brain shrinkage
Modified stem cells may offer way to treat Alzheimer's disease
Gene variant gives women higher risk for Alzheimer's
Alzheimer's disease research could be revolutionized by new mouse model
Could Silly Putty help treat neurological disorders?
Researchers at the University of Valencia discover new molecules against Alzheimer's disease
Improving cognition later in life through physical activity
Innovative, coordinated brain care could save billions of health care dollars
Why is there an inverse association between cancer and Alzheimer's?
New dementia care models to improve care for older adults with Alzheimer's disease
Working memory boosted by green tea
Caring for grandkids once a week keeps grandmas sharp
Presymptomatic diagnosis of Alzheimer's disease will alter life with a 'brain at risk'
Likely connection between white matter and cognitive health
2 new studies find no evidence of Alzheimer's disease-associated changes in adolescents carrying genetic risk factors
African Americans may be at a greatly increased risk for Alzheimer's disease
Complex relationship between slow-wave sleep and odor memory revealed
Green tea may boost our working memory
Scientists discover big clue to how caffeine wards off Alzheimer's
No evidence of Alzheimer's Disease-associated changes in adolescents carrying genetic risk factors
Breakthrough may revolutionize the study of modern-day enzymes
The origin of Lou Gehrig's disease may have just been discovered
How zinc regulates a key enzyme involved in cell death
Dog watch - How attention changes in the course of a dog's life
'Sewing machine' idea gives insight into origins of Alzheimer's
Key 'sperm meets egg' protein discovery holds promise for fertility treatments
Research shows processing can affect size of nano carriers for targeted drug delivery
Study on Mt. Everest shows how people get type 2 diabetes
Virus-fighting genes linked to mutations in cancer: Genetic evidence supports role of gene family in cancer development
Researchers at the University of Valencia discover new molecules against Alzheimer's disease
Key to stronger, more effective antibiotics could be enzyme 'wrench'
New target in flu virus may open route to better drugs
Obsessive-compulsive disorder may reflect a propensity for bad habits
Team solves decades-old mystery of how cells keep from bursting
Researchers demonstrates advantages of the HOPE fixation strategy
How does the 'kissing disease' replicate itself?
Identification of <em>pelo</em>, a host gene needed for efficient virus production
New agents may revitalize antibiotics to fight superbugs
Higher blood pressure is linked to a lower tendency to worry
Method offers potential for understanding anti-bacterial resistance
Scientists discover key cells involved in touch sensation
The hormone that allows us to love may also encourage us to lie
The origin of Lou Gehrig's disease may have just been discovered
Scientists identify protein that spurs spread of colon cancer
Team identifies novel biomarker for head and neck cancer and non-small cell lung cancer
Cell metabolism discovery could spawn treatments for cancer or common cold
Cells measure surface area to know when to divide
Time, trust and transparency keys to minority biospecimen collection
The acrobatic motor protein Kif15 could pave the way for new cancer therapies
Plasma tool for destroying cancer cells
  • Stickies: 0
  • News Articles: 153
  • Pages: 31
Award-winning research points toward Alzheimers vaccine
King_N
[H]ard|Folding Administrator


Posts: 98
Points: 2,736,559
Work Units: 6,433

Posted: Wed Sep 28, 2011 06:46 pm
There really hasn't been any new news from Stanford this month, however I did run across this article dealing with research that could possibly lead to an Alzheimer's vaccine.

Quote:
AUGUSTA, Ga. An accomplice to the protein that causes plaque buildup in Alzheimers disease is the focus of a potential new treatment, according to research by a Georgia Health Sciences University graduate student.

In Alzheimers, the amyloid protein can accumulate in the brain instead of being eliminated by the bodys natural defenses, nestling between the neurons and forming impassable plaques.

Amyloid and the way it gets there could be targets for a new vaccine.


Full article here.
New Futures In Biotech episode about Folding@home
King_N
[H]ard|Folding Administrator


Posts: 98
Points: 2,736,559
Work Units: 6,433

Posted: Sat Aug 27, 2011 05:33 am
Vijay was a guest on the Twit Netcast, you can watch the interview here.

Also Vijay announced he just recieved the 2012 Michael and Kate Bárány Award.

Quote:
I have some good news. Due in large part to the work we've done with Folding@home, I've been named the recipient of the 2012 Michael and Kate Bárány Award for Young Investigators from the Biophysical Society for "developing field-defining and field-changing computational methods to produce leading theoretical models for protein and RNA folding." This was just annouced in the Biophysics Society newsletter and their web site hasn't been updated just yet for the 2012 awards.


Stanford also released a new paper this month.

Quote:
One major result is in the area of Alzheimer's Disease (paper #95). It is believed that Alzheimer's Disease results from the misfolding of the Abeta peptide. Understanding how Abeta misfolds could give us some key insights into how to cure Alzheimer's Disease. This paper experimentally tests a key prediction made in an earlier paper (paper #58: "Simulating oligomerization at experimental concentrations and long timescales: A Markov state model approach" by Nicholas W. Kelley, V. Vishal, Grant A. Krafft, and Vijay S. Pande. J. Chem. Phys. 129, 214707 (2008); DOI:10.1063/1.3010881). In this paper, we show experimentally that there appears to be a beta turn in the Abeta as predicted. This leads to a very stable form of misfolded Abeta which could be used as a starting point for a new Alzheimer's therapy. We are heavily pursuing this research direction at the moment.


You may view the paper here
New protein structure model to inhibit cancer
King_N
[H]ard|Folding Administrator


Posts: 98
Points: 2,736,559
Work Units: 6,433

Posted: Sat Jul 30, 2011 07:20 am
Quote:
Researchers at the University of Hertfordshire have developed a new structural model of a protein, which makes it possible to develop more effective drugs to target diseases such as cancer, heart disease and influenza.


Full Article here

Also researchers have found that Age-related brain shrinking is unique to humans

Quote:
As we age, our brains get lighter. By 80, the average human brain has lost 15% of its original weight.

People suffering with age-related dementias, such as Alzheimer's, experience even more shrinkage.

This weight loss is associated with a decline in the delicate finger-like structures of neurons, and in the connections between them.


Full Article here
Folding V7 Beta Client Update Status
King_N
[H]ard|Folding Administrator


Posts: 98
Points: 2,736,559
Work Units: 6,433

Posted: Sun Jun 26, 2011 12:44 pm
Stanford has been working on the new v7.1.25 and v7.1.26 clients and have posted a status report.

Quote:
It's been a little while since our last v7 beta release (v7.1.24) and so I wanted to give donors some sense of what's going on. We've been working on internal testing of two releases past the current beta release and fixing bugs along the way. While we could in principle release v7.1.25 to open beta, there are enough todo items that we've decided to hold off a bit until it's a bit cleaner and further along. However, we're not going to hold off forever of course, just long enough for our developers to make some significant progress, especially since doing a release generates a lot of feedback, which takes developers away from coding.

To give some sense of where we are, here's the internal release notes for two recent builds (v7.1.25 and v7.1.26). Note that v7.1.26 is still in progress. Also, the #'s after the comment refer to our bug tracker. We have opened up the bug tracker, so one can see progress directly there on a daily basis if you're interested.



v7.1.26 (still under development):

* Failed upload attempt could cause WU to dump before it was expired. #679.

* Added AMD Radeon HD 6600 Series to GPU white-list.

* Fix failure to restart FAHControl in OSX when 'start minimized'. #649.

* Fixed a socket bug that could cause the loss of the end of a message.

* Build OSX client in 32-bit mode with Intel compiler.



v7.1.25:

* Hide 'Quit on window close' option in OSX.

* Fixed some problems with WU assign time and time offset calculations.

* Detect and ignore invalid assign time from older WS.

* Log computed WS time offset.

* Removed warning from Slot configuration about changing threads mid-run.

* Catch and log error accessing battery info in /sys on Linux

* Fix grayed out name and IP in client add after viewing local client. #640.

* Remove 'RS480 PCI-X Root Port' from GPU whitelist. #635

* Added a few new Radeon HD 6xxx cards.

* Added Nvidia GTX 590 device ID 0x1088 to whitelist.

* Increase Radeon HD 5xxxx and 6xxxx GPU type level by one. #653.

* Don't fail WS connections if all data was recieved even on net error.

* Print IP Address with 'Uploading' message.

* Fixes for OSX minimize and quit bugs. #649 & #659.

* Limit max CPUs per slot to system count. #652.

* Attempt to fix #654.

* Release system resources when querying OSX battery status. #650.

* Don't send 'auth' command from FAHControl if empty. #658.

* Fixed 'slot-add' NULL pointer exception. #666.

* Fixed 'log-updates start' error. #671.

* Fixed FAHClient script parsing bug. #676.

* Show 'Remote Access' tab in advanced mode. #648.

* Don't allow minimizing to sys-tray if it is not there. #670.

* Also print core return code numbers in hex. #677.

* Print times in ISO 8601 format. #664.

* Expire WUs in sending status.


Full Article here
Discovery could shed light on Alzheimers, Parkinsons and other neurodegenerative disorders
King_N
[H]ard|Folding Administrator


Posts: 98
Points: 2,736,559
Work Units: 6,433

Posted: Sun May 22, 2011 09:11 am
Well it seems we've survived yet another judgement day. While that in itself is good news, it also seems that a discovery has been made in the battle against alzheimer's.

Quote:
No one knows the cause of most cases of Alzheimers, Parkinsons and other neurodegenerative disorders. But researchers have found that certain factors are consistently associated with these debilitating conditions. One is DNA damage by reactive oxygen species, highly destructive molecules usually formed as a byproduct of cellular respiration. Another is the presence of excessive levels of copper and iron in regions of the brain associated with the particular disorder.


Full Article here

  • Stickies: 0
  • News Articles: 153
  • Pages: 31
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