Position:

Doctoral student at Computer Science Department at The Graduate Center, CUNY

Email:

Address:

The Graduate Center, CUNY

Computer Science Department, Room 4319

365 5th Avenue

NY, NY 10016


I am currently working with Distinguished Professor Gabor Herman in Discrete Imaging and Graphics Group. My general research interest are in image reconstrction from projections and its applications in biomedical imaging. More specifically, I am working on reconstructions in electron microscopy. We are interested in developing reconstruction methods that take into account and correct for the distance-dependent blurring that occurs during imaging process of a molecule by electron microscope.

In December 1959, Richard Feynman said in his famous speach "There’s Plenty of Room at the Bottom":

"The electron microscope is not quite good enough, with the greatest care and effort, it can only resolve about 10 angstroms. I would like to try and impress upon you while I am talking about all of these things on a small scale, the importance of improving the electron microscope by a hundred times. It is not impossible; it is not against the laws of diffraction of the electron. The wave length of the electron in such a microscope is only 1/20 of an angstrom. So it should be possible to see the individual atoms. What good would it be to see individual atoms distinctly? ..."

Today the resolution of some electron microscopes reached 0.5 of an Angstrom. As the technology of electron microscopy improves and the need for imaging larger specimens emerges, an imperfection of electron microscopes that has not been considered important is likely to become an essential limitation. This imperfection is due to the fact that the way electron microscopy blurs the object to be imaged is not uniform, but changes with the distance of a specimen layer from the electron source. Variation in blurring that occurs within a single specimen can be ignored when the imaged structures are of a small size and when the desired resolution in the reconstructed structure is not high. Recent advances in electron microscopy technology provide us with the potential of achieving atomic resolution, but reconstruction algorithms developed under the assumption of uniform blurring throughout the entire structure applied to real electron microscopic data will fail to achieve this (except possibly in the case of smaller molecules). This limitation can be removed if the images obtained by electron microscopes are corrected for the variable blurring before the reconstruction process, or if such correction takes place during the reconstruction process.

Read more about 3D electron tomography reconstructions and some of its applications:

EDUCATION

Ph.D., Computer Science

Graduate Center of CUNY

 September 2005 - present
 -  first qualification exam passed 6/6/2006
 -  second qualification exam passed 7/30/2008

B.A., Computer Science

Hunter College of CUNY

September 2000 - January, 2005

EXPERIENCE

Time:

Position:

Place:

Description:

02/2007 - present

Research Assistant

Graduate Center, CUNY

advisor: Distinguished Professor Gabor Herman

supported by National Institute of Health (09/2007 - present), (Image Processing in Biological 3D Electron Microscopy,  National Institutes of Health, HL070472, 2001-2009)

supported by National Science Foundation  (06/2007 - 08/2007)

04/2006 - 05/2007

Research Assistant

Graduate Center, CUNY

advisor: Professor Amotz Bar-Noy

supported by National Science Foundation (09/2006 - 05/2007)

supported by PSC-CUNY (04/2006 - 06/2006)

09/2005 - 05/2006

Adjunct Lecturer

Computer Science Department, Hunter College

Courses taught:

  • CSCI 135 Software Analysis and Design I - The course is intended for prospective computer science majors and minors. It concentrates on problem-solving techniques using a high-level programming language. The course includes a brief overview of computer systems.

  • CSCI 120 Introduction to Computers - Intended for non-majors. Basic concepts of computer technology. Principles of hardware operation, software and networking. Roles of computers in society, including ethical and legal issues.

06/2003 - 08/2005

Computer Technician Assistant

Dolciani Math Learning Center, Hunter College

  • setting up the new computers

  • installing software and hardware

  • maintaining of the existing computers on the network (Novell, Windows Server 2003)

  • setting up and maintaining student accounts

  • developing the applications for use in the office

08/2000 - 08/2005

Math tutor

Dolciani Math Learning Center, Hunter College

  • tutoring for college algebra, pre-calculus and calculus levels

  • experience in working with groups as well as individual students

  • tutoring Mathematica software at pre-calculus level math

10/2000 - 06/2005

Private math tutor

 

  • individual math tutoring for students ranging from elementary school to introductory college math courses

 

PUBLICATIONS

Refereed

Amotz Bar-Noy, Joanna Klukowska. Finding Mobile Data: Efficiency vs. Location Inaccuracy, 15th Annual European Symposium on Algorithms, Eilat, Israel, October 8-10, 2007

Unrefereed

Joanna Klukowska.  Contrast Transfer Function Correction in Electron Microscopy, presentation of the second qualification exam

R. Davidi, G.T. Herman, Joanna Klukowska.  SNARK09: A Programming System for the Reconstruction of 2D Images from 1D Projections. Technical report, The CUNY Institute for Software Design and Development, http://www.snark09.com/SNARK09.pdf, 2009.

 

GRANTS and AWARDS

 

GRADUATE COURSES TAKEN

Course Number

Course Title

Professor

Math 645 (Hunter College)

Mathematical Analysis 2

Burton Randol

C SC 83200

Seminar in Image Processing and Computation

Gabor Herman

Math 641 (Hunter College)

Mathematical Analysis 1

Burton Randol

C SC 83200

Seminar in Image Processing and Computation

Robert Haralick

C SC 86005

Statistical Techniques and Probability Models in Computer Science

Gabor Herman

C SC 80200

Seminar in New Developments in Discrete Algorithms

Amotz Bar-Noy

N/A

Image Processing Seminar

Gabor Herman

C SC 83020

3-D Computer Vision

Ioannis Stamos

C SC 78000

Numerical Methods

Ann Smith-Thompson

MATH 84530

Combinatorics

Janos Pach

C SC 87100

Research at CUNY

Theodore Brown

C SC 83050

Discrete Tomography & Applications

Gabor Herman

C SC 80000

Graph and Network Algorithms

Amotz Bar-Noy

C SC 74010

Logical Fndtns Artfcl Intllgnc

Rohit Parikh

C SC 72010

Parallel/Dist Cmputing and Advanced Operating Systems

Nancy Griffeth

C SC 75010

Theoretical Computer Science

Nason Yanofsky

C SC 71010

Prgrmmng Lang & Implmntation

Jean Yeves

C SC 70010

Analysis of Algorithms

Amotz Bar-Noy

Discrete Imaging and Graphics Group (DIG)     The Graduate Center, CS Department     Hunter College, CS Department     III LO im Gen. Sowinskiego

Last revised:     Page designed by Joanna Klukowska