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Research Resources

Use the NIA Research Resources database to find NIA-supported scientific resources, datasets, informatics resources, and more. Search by keyword, resource type, or NIA Division or IRP. 

Informatics

Pancreas++

Pancreas++ is a novel algorithm that facilitates the fully-automated, non-biased, and highly reproducible investigation of islet area and alpha- and beta-cell quantity, as well as position within the islet for either single or large batches of fluorescent images. The algorithm uses active contour models to quantify images accurately and quickly, resulting in an output of an easy-to-read tabular format. Pancreas++ can distinguish between relevant pixels and noise, process multiple islets within the same image, and function without the aid of user interaction. Read more about Pancreas++


Plurigon

Plurigon is a data visualization and classification tool for the integration of high-dimensionality visualization algorithms with a user-friendly, interactive graphical interface. Plurigon processes a series of floating-point numbers into a deformable 3D object with a visible topography using spiral spacing, convex hulls, and laplacian smoothing of polygonal meshes. Plurigon contains an easy-to-use keyboard layout for axial drawing, zooming, rotating, importing, and exporting. Read more about Plurigon and download the tool.


Textrous!

Textrous! is a web-based framework for the extraction of biomedical semantic meaning from a given input gene set of arbitrary length. Textrous! employs natural language processing techniques, including latent semantic indexing , sentence splitting, word tokenization, parts-of-speech tagging, and noun-phrase chunking, to mine MEDLINE abstracts, PubMed Central articles, articles from the Online Mendelian Inheritance in Man , and Mammalian Phenotype annotation obtained from Jackson Laboratories.


VennPlex

VennPlex is a novel Venn diagram generating tool that can separate factors between two to four input datasets. VennPlex has been designed to separate data which possesses a sortable denominator (e.g. official Gene Symbol) with an associated variable numerator (e.g. z-ratio value). VennPlex can separate denominators between sets and also demonstrate the differences in the numerator values for denominators common to multiple set intersections that possess distinct numerical values. Read more about VennPlex and download the file


VENNTURE

VENNTURE is a novel Venn diagram-generating tool that can accommodate the input of up to 6 distinct data sets from an Excel spreadsheet. VENNTURE allows Venn diagram set image generation with additional intersection data representation viewing modes. The Venn segment contents can either be viewed in the VENNTURE Venn diagram image itself or they can be exported to an annotated Excel spreadsheet.

This software is available for download and is contained in a Winzip file along with the NIH Software Transfer Agreement and a PDF formatted copy of the journal article. Download the VENNTURE ZIP file. Please cite the following paper when employing this tool in publications or other forms of media:

Martin B, Chadwick W, Yi T, Park SS, Lu D, Ni B, Gadkaree S, Farhang K, Becker KG, Maudsley S.  VENNTURE–A Novel Venn Diagram Investigational Tool for Multiple Pharmacological Dataset Analysis.  PLoS ONE 10.1371/journal.pone.0036911


Clinical Research Resources

Short Physical Performance Battery (SPPB)

The Short Physical Performance Battery (SPPB) is an objective assessment tool for evaluating lower extremity functioning in older persons. It was developed by the National Institute on Aging and is available for use without permission or royalty fees. This site will allow you to download the contents of a training CD that includes comprehensive instructions on the administration of the battery, safety tips, a scoring sheet and background information on publications that support the methodology. These files may be used on your computer or written to a CD. A cover for the CD case is also available for downloading and printing.

Download the Short Physical Performance Battery (SPPB) tool here.


Biophysics Resources

XYT Event Detector

XYT Event Detector detects and analyses time-dependent increases in intensity of a fluorescent indicator recorded by high-speed 2D cameras.  Specifically, the program was developed and tuned to detect Local Calcium Releases in cardiac pacemaker cells. It works with stacks of tif images of Ca signals measured in living cells. The consecutive images in the stack represent the intensity of local Ca dynamics measured with a fixed sampling rate by a high-speed camera and a fluorescent Ca indicator. When pacemaker cells generate a cardiac impulse, the action potential induces a global Ca increase in cytoplasmic Ca (dubbed AP-induced Ca transient). The program identifies and eliminates global signal shifts and transients and detects only local signals. Read more about the XYT Event Detector