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Folding@Home Information

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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Active Members
Cancer News
Previously Unknown Surveillance Mechanism Used By Cells To Monitor Oxidatively Damaged DNA
Process Of Metastasis Explained By 'Chase And Run' Cell Movement Mechanism
In The Spread Of Cancer, A Developmental Protein Plays A Role
Mathematical Models Being Used In The Fight Against Cancer
Low-Risk Prostate Cancer, Observation Safe And Cost-Effective
Cancer Spread May Be Stopped By Blocking Development Protein
New Tool To Help Pet Owners Make Tough Choices
Growth Of Aggressive Brain Cancer Driven By Metabolic Molecule
Osteoporosis Drug Bazedoxifene Stops Growth Of Breast Cancer Cells
South Asian Women Have Higher Breast Cancer Risk Than White Women, UK
Drug Action In Pancreatic Cancer Tracked And Improved By Nanotechnology
New Details Uncovered Of Natural Anticancer Mechanism
Bollywood Glamorizes Smoking, Reignites Smoking In Movies Debate
Lifestyle Changes Can Help Prevent Cancer In Women But Do They Follow The Recommendations?
Which Women Should Receive Preventive Breast Cancer Drugs?
Study Shows Low Morbidity, Mortality Rates For Patients Treated With Cytoreductive Surgery Combined With Hyperthermic Intraperitoneal Chemotherapy
Patients With Tumors In Nerve- And Hormone-Sensitive Organs Live Years Longer Following Targeted Peptide Receptor Radionuclide Therapy
Improved Radionuclide Drug Treatment Planning With 3D Patient Models And Quantification Of Therapeutic Dose
Improved PET Medical Image Analysis To Optimize Radiotherapy Treatments
Childhood Cancer Survivors At Increased Risk For Chronic Diseases
Pediatric PET Imaging Of Gliomas Gets A Boost With An Easier-To-Manufacture Imaging Agent
Malignant Cells Not Directly Targeted By Hormonal Treatment For Endometrial Cancer
Allergic And Autoimmune Diseases Connected, Implications For The Development Of New Therapies To Target Cancer
Novel Targeted Therapies With Fewer Harmful Side Effects
Master Regulator Discovered In Cancer Metastasis
Alzheimer's News
Previously Unknown Surveillance Mechanism Used By Cells To Monitor Oxidatively Damaged DNA
A Protein Developed To Protect And Restore Nerve Cell Communications
Brain Abnormalities In People With Concussions Similar To Those With Alzheimer's
Researchers Identify Sleep Mechanism That Plays A Role In Emotional Memory
Drugs Currently Prescribed For Other Indications May Influence The Onset And Progression Of Alzheimer's Disease
Protein Aggregation Implicated In Neurodegenerative Diseases Also Critical For Normal Cells
Lilly Terminates Alzheimer's Drug Trial, Citing Abnormal Liver Tests
Study Suggests Association Between Hypoglycemia, Dementia In Older Adults With Diabetes
New Development In The Understanding Of Alzheimer's Pathology
Magnetic Resonance-Based Wearable Technology Accounts For Patient Movement For Clearer Data Reconstruction
Molecular Mechanisms Underlying Alzheimer's Disease Better Understood
Many Parkinson's Patients Also Affected By Depression Or Dementia
Dementia: Diagnosis Possible At Ever Earlier Stages And With Ever Greater Precision
Robots Help Dementia Patients To Shake Off Apathy
Blood Vessels Within A Sensory Area Of The Mammalian Brain Loop Connect In Unexpected Ways
Discovery Reveals How An Important Protein Helps Translate Learning Into Memory
Mature Brain Cells Reprogrammed From Skin Cells Enable Study Of Alzheimer's, Schizophrenia, And Autism
Arc Protein Helps Translate Learning Into Memory
Yoga Improves Brain Function More Than Aerobic Exercises
Dementia Rates Double In China, Study Finds
Reduced Risk Of Heart Attacks For Patients On Alzheimer's Disease Drugs
Atrial Fibrillation Linked To Faster Cognitive Decline, Even Without Stroke
Researchers Closer To A Blood Test For Alzheimer's Disease
Protein Modification May Help Control Alzheimer's And Epilepsy
In Highly Educated Pre-Alzheimer's Patients, PET Finds Increased Cognitive Reserve Levels
Biochemistry News
Treating One Infection May Worsen Another
Female Flies Play Active, Pivotal Role In Postcopulatory Processes
Novel Targeted Therapies With Fewer Harmful Side Effects
Optical Antennas Inside Nano-Boxes Catch Individual Molecules In A Million
Do Parasites Upset Food Web Theory?
How Bacterial Growth Responds To Temperature Change Revealed By Metabolic Model Of E. coli
How Birds Lost Their Penises Has Potential To Improve Understanding Of Malformations
Vegetable Oils Do Not Cause Inflammation
Enzyme That Finds Unwanted DNA In Cells Revealed
Snapshot Of Fleeting Protein Process Shows How Actin Nucleation Begins
A Mix Of Water, DNA, And Gold Particles Could Lead To Faster Detection Of Infectious Diseases
Mosquitoes With Altered Smell Gene Lose Preference For Humans
HIV Shell Structure Cracked With Help Of Supercomputer
Thermal Limit For Animal Life Re-Defined By First Lab Study Of Deep-Sea Vent Worms
New Insights Into Protein Disposal
Biophysicists Measure Mechanism That Determines Fate Of Living Cells
Cockroaches Are Evolving To Evade Sugar Traps
Alzheimer's Cause Found In Trigger Of Brain Protein Malfunction
Added Control For Biological Studies Using Single-Cell Transfection Tool
Radioactive Bacteria Dramatically Reduce Spread Of Pancreatic Cancer In Mice
Drug Side Effects May Be Inevitable
X-Ray Diffraction Shows How Frog Embryos Could Help Thwart Disease
Type 1 Diabetes May Be Reversible With Immune Suppressor Protein
Brain Stimulation Can Boost Math Skills
Living Cells Must Use Their Brakes Moderately For Effective Speed Control
[H]ard|Folding News Articles
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  • News Articles: 143
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Core 17 update
King_N
[H]ard|Folding Administrator


Posts: 88
Points: 2,444,418
Work Units: 6,159

Posted: Wed May 29, 2013 03:34 am
F@H GPU developer gives us a detailed video update of the new core 17 features.

Quote:
Some of the key highlights are:
-Up to 120,000 PPD on GTX Titan, and 110,000 PPD on HD 7970
-Support for more diverse simulations
-Linux support on NVIDIA cards and 64bit OSes
-FAHBench updated to use the latest OpenMM and display version information




Full article and video here
Potential Therapy For Alzheimer's
King_N
[H]ard|Folding Administrator


Posts: 88
Points: 2,444,418
Work Units: 6,159

Posted: Mon Apr 29, 2013 03:21 pm
Things have been pretty quiet this month, but I did manage to find a few interesting articles on Alzheimer's.


Alzheimer's Gene Discovery Offers Hope For Preventive Therapy

Quote:
Alzheimer's disease is the most common neurodegenerative disorder, affecting more than five million Americans, but currently there is no way to prevent, delay or stop its progression. A study published online by the Cell Press journal Neuron shows that a gene called CD33 contributes to Alzheimer's disease by inhibiting the ability of immune cells to remove toxic molecules in the brain.


Full Article here



Potential Therapeutic Targets Revealed For Late Onset Alzheimer's Disease

Quote:
Scientists from the Icahn School of Medicine at Mount Sinai, in collaboration with researchers from Icelandic Heart Association, Sage Bionetworks, and other institutions, have discovered that a network of genes involved in the inflammatory response in the brain is a crucial mechanism driving Late Onset Alzheimer's Disease (LOAD). The findings, published online in the journal Cell, provide new understanding of key pathways and genes involved in LOAD and valuable insights to develop potential therapies for the disease.


Full Article here



Potential Therapy For Alzheimer's Disease Revealed By Gene Networks In Brains Of Deceased Patients

Quote:
Most information about the cause of Alzheimer's disease is based on studies from animal models. Now, a study published by Cell Press in the journal Cell examines the brain tissue of deceased human patients and sheds light on dysfunctions in molecular networks in the brain that are at the root of Alzheimer's disease.


Full Article here
FAH paper listed amongst best of 2012 by Biophysical Journal
King_N
[H]ard|Folding Administrator


Posts: 88
Points: 2,444,418
Work Units: 6,159

Posted: Tue Mar 26, 2013 03:16 am
It's been a busy month at Stanford, one of their papers was listed among the best of 2012 by Biophysical Journal, OpenMM now has it's own youtube channel, a new GPU core was released, and the new FaHBench Tool was released.

Quote:
Biophysical Journal announced their "Best of 2012" paper collection. We were excited that one of our papers was included. That work, "Protein Folding is Mechanistically Robust" investigates how key aspects of FAH technology (MSMs) can yield new insights into protein folding in some unexpected ways. Congratulations to Jeffery Weber for his work. We've posted the technical abstract below as well.


Full Article here



OpenMM Youtube channel

Quote:
OpenMM is a key part of Folding@home, powering its GPU cores. You can learn more about OpenMM at its youtube page, which includes technical videos on how you can incorporate OpenMM into your code. It also includes an introduction to Markov State Models (MSMs), which is a key technology used in Folding@home.


Full Article here



Introducing Folding@Home Core 17 GPU zeta core

Quote:
As also announced on OpenMM/Folding@home programmer Yutong "proteneer" Zhao's web site, we are happy to announce that Folding@Home Core 17 has entered Beta. Externally, you probably wont notice too much of a difference. Internally, this is a complete overhaul that brings many new features, and sets a strong foundation for the future of GPU core development. In addition, the restructuring brings much tighter integration of the core with the rest of the development within Folding@Home.


Full Article here



FAH bench FAH core/OpenMM-based benchmark for your GPU

Quote:
As previously blogged, FAHBench is the official Folding@Home GPU benchmark. It measures the compute performance of GPUs for Folding@Home. In addition, by use of a loadable DLL system, it provides vendors and skilled hackers with a method make customized-plugins and test their results.


Full Article here



GPU core progress & general design philosophy

Quote:
We often have to make difficult decisions on what hardware to support in the future, including adding new platforms or removing existing ones. Removing existing platforms always leads to a lot of disruptive change for donors, so we try to do this as rarely as we can. In particular, in the GPU1 to GPU2 transition, there was a big change done quickly, which was extremely hard on donors.


Full Article here



FAHBench 1.0

Quote:
Weve released FAHBench 1.0, with a new slick GUI that should make it much more accessible to new comers. Click on the FAHBench link above or the image below to try it out! Dont worry, it maintains backwards compatibility with the old command line interface.


Full Article here



Peptoid structure prediction

Quote:
Guest post from Dr. Greg Bowman, UC Berkeley

Prof. Vince Voelzs lab has published an exciting paper on their recent successes with predicting the structures of protein-like molecules called peptoids (here). Peptoids are similar to proteins but with a rearrangement in their chemistry (see example below). Their similarity to proteins allows peptoids to function like proteins.


Full Article here
New FAH client and video
King_N
[H]ard|Folding Administrator


Posts: 88
Points: 2,444,418
Work Units: 6,159

Posted: Sun Feb 24, 2013 04:02 pm
It looks like it's been a pretty busy month for Stanford, they released a new client and video.

Quote:
We've rolled out the latest version 7.3 client to the main web site. This new client should be much easier to install and comes with a new web interface which is simpler and easier to use.


Full article here

DNA- Repairing Protein May Be Key To Preventing Recurrence Of Some Cancers
King_N
[H]ard|Folding Administrator


Posts: 88
Points: 2,444,418
Work Units: 6,159

Posted: Thu Jan 31, 2013 01:57 am
Quote:
Just as the body can become resistant to antibiotics, certain methods of killing cancer tumors can end up creating resistant tumor cells. But a University of Central Florida professor has found a protein present in several types of cancer, including breast and ovarian cancer, which could be helpful in preventing tumors from coming back.

The protein, KLF8, appears to protect tumor cells from drugs aimed at killing them and even aid the tumor cells ability to regenerate.



Full Article here
  • Stickies: 0
  • News Articles: 143
  • Pages: 29
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