2dSpAn: 2D Spine Analysis Software

2dSpAn Source code, sample Input/Output images and the Help files are available here

Development History

This 2D Spine Analysis (2dSpAn) software is being developed as an opensource collaboration between Jadavpur University, India, Nencki

Institute of Experimental Biology, Poland and University of Warsaw, Poland. Major components of this project are led by three

investigators from the three institutes:

Dr. Subhadip Basu Dr.Jakub Wlodarczyk Dr. Dariusz Plewczynski

Jadavpur University,INDIA. Nencki Institute of Experimental Biology,POLAND. University of Warsaw,POLAND.

email: subhadip@cse.jdvu.ac.in email: j.wlodarczyk@nencki.gov.pl email: d.plewczynski@cent.uw.edu.pl

The project was initiated in Nov-Dec.2012, during the EMMA post-doctoral visit of Dr. Basu to the laboratories of Dr. Plewczynski and

Dr. Wlodarczyk, and got momentum during his two subsequent visits in June-Aug 2013 and June-Aug 2014.

Other key members of the project:

Dr. Satadal Saha, MCKV Institute of Engineering, INDIA
Ms. Matylda Roszkowska, Nencki Institute of Experimental Biology, POLAND
Ms. Marta Magnowska, Nencki Institute of Experimental Biology, POLAND
Ms. Ewa Baczynska, Nencki Institute of Experimental Biology, POLAND
Mr. Nirmal Das, Dept. of CSE, Jadavpur University

Technical Insight

2dSpAn is a cross-platform utility and is primarily developed using the C++ libraries of the Qt SDK.

Code license: Apache License 2.0

Windows 32-bit/64-bit compatible installer for 2dSpAn tool is now available HERE.

Citation

2dSpAn: semiautomated 2-d segmentation, classification and analysis of hippocampal dendritic spine plasticity

Subhadip Basu; Dariusz Plewczynski; Satadal Saha; Matylda Roszkowska; Marta Magnowska; Ewa Baczynska; Jakub Wlodarczyk

Bioinformatics 2016;

doi: 10.1093/bioinformatics/btw172

Abstract:

http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btw172?

ijkey=HPda0EUMzXOj3nn&keytype=ref

PDF:

http://bioinformatics.oxfordjournals.org/cgi/reprint/btw172?

ijkey=HPda0EUMzXOj3nn&keytype=ref

Funding/Acknowledgement

S.B. and SS were supported by EMMA-West grant from E.U. S.B. was also supported by FASTTRACK grant(SR/FTP/ETA04/2012) by DST, Government of India. D. P. was supported by the Polish National Science Centre (Grant number 2014/15/B/ST6/05082) and COST BM1405 and BM1408 EU actions. J.W., M.R., M.M. and E.B. were supported by the National Science Centre grant number DEC2012/06/M/NZ3/00163.

We also acknowledge the contribution of Mr. Anup K. Das, former student, Dept. of CSE, Jadavpur University, in development of the Windows 32-bit/64-bit compatible installer for 2dSpAn tool and the design and maintenance of this website.