Center for Bio-Image Informatics

Engineering, Biology and Computer Science, working together.

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Bisque at BioImage Informatics II, HHMI

Bisque team presents the new version 0.5 at the BioImage Informatics II conference in Janelia farm, HHMI. Take a look at the poster.

 

iPlant-PhytoBisque Code Sprint

Bisque team attended a 'code-sprint' organized by iPlant at Tucson, Arizona. The aim of the 3 day meet (June 14-16) was to work closely with image analysis researchers and integrate new algorithms into Bisque.

For more information, please visit: 
http://www.iplantcollaborative.org/learn/news/leaflet/aug-22-2011


 

Papers selected at ICIP, MICCAI and PERHAPS (ICCV Workshop)!

[1] S. Karthikeyan Mehmet Emre Sargin, Swapna Joshi, B.S. Manjunath, Scott Grafton "Generalized subspace based high dimensional density estimation" IEEE International Conference on Image Processing(ICIP), Brussels, Belgium, 2011.

[2] V Jagadeesh, N Vu, B.S. Manjunath, "Multiple Structure Tracing in 3D Electron Micrographs". MICCAI 2011, Toronto, Canada, Sep. 2011.

[3] S. Karthikeyan, Utkarsh Gaur, B.S. Manjunath, Scott Grafton "Probabilistic subspace-based learning of shape dynamics modes for multi-view action recognition" IEEE International Conference on Computer Vision (ICCV) workshop, PERHAPS 2011, Barcelona, Spain, 2011.

Read more...
 

New features in Bisque: Feb 2011

  • Tiled image viewer for very large 5D images
  • Google-like image sharing
  • Statistics service for summarization of textual and graphical objects

See the presentation slides of new features

 

Bisque - Bio-Image Semantic Query User Environment

Bisque (Bio-Image Semantic Query User Environment) was developed for the exchange and exploration of biological images. The Bisque system supports several areas useful for imaging researchers from image capture to image analsysis and querying. The bisque system is centered around a database of images and metadata. Search and comparison of datasets by image data and content is supported. Novel semantic analyses are integrated into the system allowing high level semantic queries and comparison of image content.

Read more about the Bisque system.

Presentation slides (pdf format)

DOWNLOAD or use as a SOFTWARE-AS-A-SERVICE NOW!

 

NSF Award on Uncertainty Management in Working with Scientific Images

The Center for Bio-Image Informatics faculty have been awarded a new 5 year NSF project that would explore new, fundamental problems in uncertainty analysis while working with image data. The principal investigators on the project include Professors Hollerer, Manjunath, Rose and Singh on the Engineering side and Professors Feinstein, Fisher and Wilson from the biology division.

Read more...
 

2011 Summer Internship

We just concluded 8 week long summer internships for 2011! Check out the project abstracts and photos:

Read more...
 

Paper published in the Journal of Neuroscience

"Silencing of CDK5 Reduces Neurofibrillary Tangles in Transgenic Alzheimer's Mice"

Paper published in the Journal of Neuroscience, Oct 2010, utilizes automated image analysis techniques for corroboration of visually observable trends. See abstract for details.

All the image and analysis data is web accessible through our Bique system: http://dough.ece.ucsb.edu/bisquik/browser?tag_query=*CDK5*&wpublic=true

 

2011-01-21 Bisque 0.4.9 Released

A new version of Bisque has been released and is available from our development server

This release includes many new features including excellent handling of large images and new image sharing options.  Many performance enhancements have been included.  

 

2010-09-16: 4D image visualization

New "BioView3D" visualizes 3D/4D/5D images.

* Visualization video of the laser scanning confocal image of cell mitosis stages Metaphase-Anaphase by fluorescent tagging of mitotic spindles, courtesy of Alphan Altinok, Caltech.

 

Scientist's Digital Notebook

 This application is designed to simplify the image annotation process. It allows researchers to create meta-data required by the bio-image database. It can also update, print and upload existing information. More info...

 

Highlights

Bisque System

Bisque provides flexible image and metadata organization, database aggregation and distribution, and an extended image analysis architecture. The system has incorporated research in many areas including: biological image processing, novel distance measures, index structures, search algorithms, and data mining techniques.
Read More
 

Research Programmer  Position Available  

Requirements:  Database and Web experience required (i.e.  Turbogears, RubyOnRails, etc).  Projects in many areas including semantic web integration, image-content and geometrical searching. Experience with python, javascript, CSS, HTML required.

Full Descrption

Online Databases

BISQUE