Welcome to the Center for Bioimage Informatics!

The Center for Bioimage Informatics (CBI) brings together faculty from engineering, biology and computer science to identify important biological and medical problems in which images are the primary data source, frame a solution to the problem using engineering and computer science principles, collect or obtain relevant images, identify criteria for evaluating success, implement the solution, and evaluate and disseminate the results.

Join us in this exciting endeavor and check out some fun stuff (CBI movie, CBI art)!

Bioimage and Biosignal Processing Day 2014

The Center for Bioimage Informatics will host the Annual Bioimage and Biosignal Processing Day on Wednesday, February 26, 2014. This year, the plenary speaker is Dr. Elsa Angelini. Bioimage and Biosignal Processing Day is organized to bring together researchers from Carnegie Mellon and the Greater Pittsburgh Area who are generating bioimage and biosignal data in their experimental programs or who are applying cutting-edge methods to extract information from bioimage and biosignal data.

  • Flyer.
  • Program.
  • Directions. Singleton Room, Roberts Engineering Hall, CMU campus (Roberts Engineering Hall is building 21 on the campus map).
  • Registration. Registration is free. For planning purposes, please RSVP here if you plan on attending.
  • Previous Bioimaging Days.
  • Seminars - Spring 2013

    All CBI seminars take place at 12pm in the CBI Conference Room, Hamerschlag Hall C119, unless otherwise noted. Contact CBI seminar host Ge Yang for more information.

    Wednesday, March 27th 2013, 12-2pm

    Aswin Sankaranarayanan, Carnegie Mellon University

    Title: Breaking the resolution limits of sensors: Compressive sensing of high-dimensional visual signals

    Abstract: Our fascination with detail is never ending. We have built cameras that capture images with billions of pixels and videos at millions of frames per second. The key enabling technology behind these cameras is the role of Silicon as the sensing material of choice in visible spectra of light. In other modalities, where sensing is inherently costly, sensing at high spatial and temporal resolutions often comes with steep constraints. Two classic examples are sensing in infrared, where sensor materials are expensive, and MRI, where capture time is costly. In such cases, traditional methods for sensing, which advocate sampling faster and with higher resolution, do not scale well.

    In this talk, I will outline an emerging method for sensing images and videos that (a) exploits redundancies in real-world images and videos, to (b) sense with far-fewer measurements as compared to a traditional sensor. I will present multiple examples from both my research and others. that provide insight into how such a sensing strategy works. Special emphasis would be on tradeoffs and sensor modifications required for such designs to work.

    Latest News

    2011

    Undergraduate student Leah Yingling has been awarded a CMU Summer Undergraduate Research Fellowship (SURF).
       
    Graduate student Mike McCann has been selected to receive the 2011 National Science Foundation (NSF) Graduate Research Fellowship Program (GRFP) Fellowship.
       
    Jelena Kovacevic receives 2010 CIT Philip L. Dowd Fellowship Award from the College of Engineering. The Dowd Fellowship is awarded to a faculty member in engineering to recognize educational contributions and to encourage the undertaking of an educational project such as textbook writing, educational technology development, laboratory experience improvement, educational software, or course and curriculum development.

    Jelena was recognized for her "profound contributions to BME education through your leadership as Chair of the BME Graduate Affairs Committee, your publication of highly influential textbooks, your efforts in developing new courses to enhance BME graduate programs, and your success as an instructor."
       
    Nature Biotechnology recently asked leading computational biology researchers to nominate papers of particular interest published in 2010 that influenced the direction of their research. Work from Bob Murphy's group was chosen as one of four papers highlighted in the resulting article. The featured work, originally described in papers in the Proceedings of the National Academy of Sciences, U.S.A. and Bioinformatics, was the first to provide an automated means of estimating from microscope images how much of a protein (or other marker) is present in different subcellular organelles. The research involved a collaboration with scientists Ghislain Bonamy, Daniel R. Rines, and Sumit K. Chanda from the Genomics Institute of the Novartis Research Foundation in San Diego, and was carried out by graduate students Tao Peng and Luis Pedro Coelho and postdoctoral fellow Estelle Glory-Afshar.
       
    Professor Jelena Kovacevic delivered a plenary lecture at IS&T/SPIE Electronic Imaging 2011, held in San Francisco, CA January 23-27, 2011. The meeting gathered 23 technical conferences with researchers covering all aspects of electronic imaging. Professor Kovacevic talked about challenges in biomedical imaging and opportunities for researchers working in signal processing.
       
    Graduate student Tao Peng receives Bertucci Graduate Fellowship. Created through the generosity of John and Claire Bertucci, this highly competitive fellowship was established to provide merit fellowships to graduate students pursuing doctoral degrees in the College of Engineering. Congratulations to Tao and his advisor, Robert Murphy!
       

    2010

    CBI hosted the Bioimage Informatics Conference in September of 2010. See the conference page for more details.

       
     

    CBI was well represented at the last BMES conference:

    • Ryan Kellogg , Daniel Delubac , Amina Chebira , Jonathan S. Minden, Jelena Kovacevic, and Stefan F. Zappe, “Imaging technologies for high-throughput Drosophila functional genomics screens”.

    • Chris Highley , Sasha Bakhru , Stefan Zappe, “Hyaluronic acid derivatives or complex coacervation and cellular encapsulation”.

    • Usha Kuppuswamy , Sasha Bakhru , Daniel Delubac , Stefan Zappe, “Perfusion microbioreactor for human adult neural stem cell expansion”.

     
    Stefan Zappe, Assistant Professor of Biomedical Engineering and core CBI member, was one of three Carnegie Mellon University researchers to receive the National Science Foundation's Faculty Early Career Development (CAREER) Award, NSF's most prestigious award for junior faculty. Stefan won a $400,000, five-year award to develop MEMS-based fruit fly injection technologies for high-throughput RNAi screens to enable studies of gene function and disease development.
       
    Jelena Kovacevic was appointed regular member of the NIH Microscopic Imaging Study Section.