Text mining: Technology to speed up Alzheimer's biomarker discovery
New research proves that 'text mining' or using the power of computers to read the entire biomedical knowledge base, is a promising new tool in the search for Alzheimer's disease biomarkers.
The research, led by King's College London's Institute of Psychiatry and published in BioMed Central's open access journal, the Journal of Translational Medicine, is the first to use this technology on such a large scale to look for potential biomarkers for disease.
Alzheimer's is the most common form of dementia, and currently affects approximately 500,000 people in the UK. During the course of Alzheimer's disease, 'tangles' or 'plaques' develop in the brain leading to the death of brain cells. However, how and why these develop is still poorly understood and is likely to be due to a combination of factors, including age, genetics and environment. Identifying reliable biomarkers, or biological indicators, for the disease is important for developing early diagnostic tests, and finding new therapies.
Professor Simon Lovestone, lead author of the paper and Professor of Old Age Psychiatry at King's College London's Institute of Psychiatry says: "To our knowledge, this is the first time text mining has been used on this scale in the hunt for biomarkers. Essentially, we used the power of computers to 'read' everything that has ever been written in all biomedical science. We prove that text mining works, and we will take this forward in our hunt for Alzheimer's biomarkers. Our results also demonstrate the value of large data in biomedical science; you could go beyond Alzheimer's disease and use the same approach for other conditions where biomarkers are needed, from cancer to diabetes."
Researchers at King's worked with international colleagues and BioWisdom (now Instem Scientific) to develop a series of 'axioms', or statements, about what a blood biomarker might look like. They then turned this into computer code and by using textual and linguistic analysis, searched for relevant information in all publically available databases, combining neuro-imaging, genetic and proteomic data.
This derived a total of 25 potential biomarkers. The team then validated these - some had previously been identified as potential biomarkers, and in two other cases, they examined the proteins against large sample sets, and showed that the computer approach was correct.
Professor Lovestone, who is also Director of the National Institute for Health Research Biomedical Research Centre (NIHR BRC) for Mental Health at the South London and Maudsley NHS Foundation Trust and King's College London adds: "So far, our search for Alzheimer's disease biomarkers has focused either on an 'omics approach looking at as many proteins or genes as possible, or using a candidate approach looking for the obvious things. However, despite substantial international effort, neither has proved satisfactory. This technology offers an exciting and powerful new tool to advance our research in this field."
Dr Jane Reed, Director of Life Sciences at Instem Scientific and co-author of the paper, says: "This research is a great example of academic-industry collaboration and shows the power of a translational approach to re-use current and legacy data. There is a demand for better methods to predict biomarkers, and this paper validates our in silico approach to biomarker discovery in human disease."
More information: Greco, I. et al. 'Alzheimer's disease biomarkers discovery using in silico literature mining and clinical validation' Journal of Translational Medicine doi:10.1186/1479-5876-10-217
Journal reference: Journal of Translational Medicine
Provided by King's College London
- New biomarkers could help doctors spot Alzheimer's and other neurodegenerative diseases Aug 11, 2006 | not rated yet | 0
- Biomarkers in cerebrospinal fluid can identify patients with Alzheimer's disease Oct 22, 2012 | not rated yet | 0
- More accurate diagnosis of Alzheimer's Apr 19, 2011 | not rated yet | 0
- Biomarkers for Alzheimer's disease can be trusted in clinical trials Nov 15, 2007 | not rated yet | 0
- CSF test can pick up Alzheimer's early Dec 20, 2011 | not rated yet | 0
- Motion perception revisited: High Phi effect challenges established motion perception assumptions Apr 23, 2013 | 3 / 5 (2) | 2
- Anything you can do I can do better: Neuromolecular foundations of the superiority illusion (Update) Apr 02, 2013 | 4.5 / 5 (11) | 5
- The visual system as economist: Neural resource allocation in visual adaptation Mar 30, 2013 | 5 / 5 (2) | 9
- Separate lives: Neuronal and organismal lifespans decoupled Mar 27, 2013 | 4.9 / 5 (8) | 0
- Sizing things up: The evolutionary neurobiology of scale invariance Feb 28, 2013 | 4.8 / 5 (10) | 14
Why is zone 1 in liver more prone to ischemic injury?
May 23, 2013 Hi, Is it because around central vein, there is only deoxygenated blood from the vein where as in the periphery there is hepatic artery. Also why...
How can there be villous adenoma in colon, if there are no villi there
May 22, 2013 As title suggest. Thanks :smile:
How can there be a term called "intestinal metaplasia" of stomach
May 21, 2013 Hello everyone, Ok Stomach's normal epithelium is simple columnar, now in intestinal type of adenocarcinoma of stomach it undergoes "intestinal...
Pressure-volume curve: Elastic Recoil Pressure don't make sense
May 18, 2013 From pressure-volume curve of the lung and chest wall (attached photo), I don't understand why would the elastic recoil pressure of the lung is...
If you became brain-dead, would you want them to pull the plug?
May 17, 2013 I'd want the rest of me to stay alive. Sure it's a lousy way to live but it beats being all-the-way dead. Maybe if I make it 20 years they'll...
MRI bill question
May 15, 2013 Dear PFers, The hospital gave us a $12k bill for one MRI (head with contrast). The people I talked to at the hospital tell me that they do not...
- More from Physics Forums - Medical Sciences
More news stories
By discovering the new mechanism by which estrogen suppresses lipid synthesis in the liver, UC Irvine endocrinologists have revealed a potential new approach toward treating certain liver diseases.
Medical research May 23, 2013 | 5 / 5 (1) | 0 |
Aortic arch pulse wave velocity, a measure of arterial stiffness, is a strong independent predictor of disease of the vessels that supply blood to the brain, according to a new study published in the June issue the journal ...
Medical research May 23, 2013 | not rated yet | 0
Since the discovery of Prontosil in 1932, sulfonamide antibiotics have been used to combat a wide spectrum of bacterial infections, from acne to chlamydia and pneumonia. However, their side effects can include serious neurological ...
Medical research May 23, 2013 | 3 / 5 (1) | 0 |
Scientists at the National Institutes of Health report they have discovered in mouse studies that a small molecule released in the spinal cord triggers a process that is later experienced in the brain as ...
Medical research May 23, 2013 | 5 / 5 (3) | 0 |
Spanish researchers have discovered that the daily clearance of neutrophils from the body stimulates the release of hematopoietic stem cells from the bone marrow into the bloodstream, according to a report published today ...
Medical research May 23, 2013 | 5 / 5 (2) | 0
Coenzyme Q10 decreases all cause mortality by half, according to the results of a multicentre randomised double blind trial presented today at Heart Failure 2013 congress. It is the first drug to improve heart failure mortality ...
14 hours ago | 5 / 5 (2) | 5
(HealthDay)—Animals make great companions for senior citizens, but elderly people who always drive with a pet in the car are far more likely to crash than those who never drive with a pet, researchers have ...
6 hours ago | not rated yet | 1
Heart failure accelerates the aging process and brings on early andropausal syndrome (AS), according to research presented today at the Heart Failure Congress 2013. AS, also referred to as male 'menopause', was four times ...
14 hours ago | not rated yet | 1
Mortality and length of stay are highest in heart failure patients admitted in January, on Friday, and overnight, according to research presented today at the Heart Failure Congress 2013. The analysis of nearly 1 million ...
14 hours ago | not rated yet | 0
(AP)—Department of Justice lawyers have again asked a federal appeals court in New York to delay lifting age restrictions and prescription requirements on an emergency contraceptive popularly known as the morning-after ...
14 hours ago | not rated yet | 0