Kausik Basak, PhD


Kausik Basak, PhD

Faculties: Centre for Health Science Faculty

JIS Institute of Advanced Studies & research

Arch Waterfront, GP Block, Sector V, Bidhannagar, Kolkata, West Bengal 700091

Assistant Professor

Centre for Health Science & Technology

Email: kausik@jisiasr.org

Linked-In: https://www.linkedin.com/in/kausikbasak16/

Google Scholar: https://scholar.google.co.in/citations?user=urimOcEAAAAJ&hl=en

Postdoctoral Fellow, Multiscale Functional and Molecular Imaging Group, TUM School of Medicine, Germany

Ph.D., School of Medical Science and Technology, Indian Institute of Technology Kharagpur, India

Research Topics:

Medical imaging: Laser speckle contrast imaging, optoacoustic imaging, optical coherence tomography, multispectral imaging.

Image processing and computer vision: Spatiotemporal and adaptive filtering, transform domain processing, multiresolution analysis, image segmentation and morphological processing, image registration, object localization, object tracking – optical flow.

Machine learning: Supervised and unsupervised classifications, probabilistic graphical models, clustering, estimation techniques, neural networks.

Research Focus:
My research domain focuses on imaging of human and animal organs in superficial and deep-tissue at visible and near infra-red regime, aiming to non-invasive, in vivo and label-free assessment of various anatomical and functional parameters in health and pathology. It encompasses various imaging modalities like laser speckle imaging, multispectral imaging, optoacoustic imaging etc. to articulate characteristic response of tissue-photon interaction using computational algorithms. During the tenure of my research, I worked on developing imaging modalities through electro-optical system designs. It also combines a great deal in signal and image processing with significant thrust in de-noising, image reconstruction, segmentation, clustering and machine learning. With progressive applications of scientific deductions and engineering algorithms, it comes to my deep interest to implement and manifest resident knowledge to innovate newer technological solutions for various biomedical applications.

Awards & Achievements:

  • TUM University Foundation Fellowship (Mar 2018 – Feb 2019), TUM Germany.
  • Visiting Professor Program (June – July 2017), CentraleSupelec Paris, France.
  • Postdoc Mobility Grant (March 2017), TUM Germany.
  • Dean’s Travel Grant (April 2014), IIT Kharagpur, India.
  • Winner of GE Edison Challenge 2013 (December 2013), GE India.
  • MHRD Doctoral Scholarship (July 2010 – June 2014), MHRD, Govt. of India.
  • MHRD Post-graduate Scholarship (July 2008 – May 2010), MHRD, Govt. of India.
  • University medal for 3rd position in EIE (August 2008), WBUT, India.
  • All India Rank 59 (percentile 98.51) in GATE – 2008, India.

Synergistic Activities:


  • Computers in Medicine and Biology, Elsevier.
  • Biomedical Signal Processing and Control, Elsevier.
  • Frontiers in Digital Health, Frontiers.
  • Medical and Biological Engineering and Computing, Elsevier.
  • IEEE Photonics Technology Letters, IEEE.
  • Microvascular Research, Elsevier.
  • IEEE TechSym 2016 etc.
  • Fellow, TUFF, TU Munich (Since 2018).
  • Senior Member, IEEE (Since 2022).
  • Senior Member, IEEE Engineering in Medicine and Biology Community (Since 2022).
  • Member of Advisory Committee, IEEE TechSym 2016.
  • Member of Advisory Committee, IEEE Student Branch, IIT Kharagpur (Since 2013).
  • Chair, IEEE Student Branch, IIT Kharagpur (2012 – 2013).
  • Secretary, IEEE EMB Student Club, IIT Kharagpur (2011 – 2012).

1. Sheet D, Basak K, Ojha T, Karri SPK. Multispectral optical imaging device and computational techniques for contactless functional imaging. Patent No. IN201731022695, Date: 04-01-2019.

1. Basak K, Dutta PK, Mahadevappa M. In vivo speckle imaging of microvasculature and tissue perfusion, Lambert Academic Publishing, Germany, 2016.1.


  • 1. Chowdhury RR, Dhar J, Robinson SM, Lahiri A, Basak K, Paul S, Banerjee R. MACI: A machine learning-based approach to identify drug classes of antibiotic resistance genes from metagenomic data. Computers in Biology and Medicine. 2023 Dec 1;167:107629.
  • 2. Banerjee R, Basak K, Ghosh A, Rajachandran V, Sureka K, Ganguly D, Chattopadhyay S. Spike protein mutational landscape in India during the complete lockdown phase: Could Muller’s ratchet be a future game-changer for COVID-19?. Infection, Genetics and Evolution. 2021 Aug 1;92:104874.
  • 3. Basak K, Luís Deán-Ben X, Gottschalk S, Reiss M, Razansky D. Non-invasive determination of murine placental and foetal functional parameters with multispectral optoacoustic tomography. Nature Light: Science & Applications. 2019 Aug 14;8(1):71.
  • 4. Rangu S, Sreekar K, Annapureddy RR, Basak K, Bohra M, Chowdhury DR. Magnetic Metamaterials: A comparative study of resonator geometry and metal conductivity. IOP Journal of Physics. 2016 Oct 1;759(1):012044.
  • 5. Basak K, Dey G, Mahadevappa M, Mandal M, Sheet D, Dutta PK. Learning of speckle statistics for in vivo and noninvasive characterization of cutaneous wound regions using laser speckle contrast imaging. Microvascular research. 2016 Sep 1;107:6-16.
  • 6. Basak K, Dey G, Mahadevappa M, Mandal M, Dutta PK. In vivo laser speckle imaging by adaptive contrast computation for microvasculature assessment. Optics and Lasers in Engineering. 2014 Nov 1;62:87-94.
  • 7. Basak K, Manjunatha M, Dutta PK. Review of laser speckle-based analysis in medical imaging. Medical & biological engineering & computing. 2012 Jun;50:547-58.
  • 8. Basak K, Manjunatha M, Dutta PK. Pyramidal Refinement of Lucas-Kanade Optical Flow based Tracking of Peripheral Air Embolism in OCT Contrast Imaging. International Journal of Computer Applications. 2012 Jan 1;52(12).
  • 9. Mandal S, Basak K, Mandana KM, Ray AK, Chatterjee J, Mahadevappa M. Development of cardiac prescreening device for rural population using ultralow-power embedded system. IEEE transactions on biomedical engineering. 2010 Oct 21;58(3):745-9.


  • 1. Basak K, Dey G, Sheet D, Mahadevappa M, Mandal M, Dutta PK. Probabilistic graphical modeling of speckle statistics in laser speckle contrast imaging for noninvasive and label-free retinal angiography. Proc. Int. Conf. IEEE Engg. Med. Bio. Soc. (EMBC), 2015.
  • 2. Basak K, Sheet D, Karri SPK, Mahadevappa M, Chatterjee J, Dutta PK. Learning of Tissue Photon Interaction in Laser Speckle Contrast Imaging for Label-free Retinal Angiography. Int. Symp. Biomed. Img. (ISBI), 2014.
  • 3. Basak K, Mahadevappa M, Dutta PK. Multiscale Noise-Adaptive Homomorphic Filtering based Speckle Denoising in Laser Speckle Imaging. Proc. Nat. Conf. Comp. Vis. Patt. Recog. Img. Proces. Graph. (NCVPRIPG), 2013.
  • 4. Basak K, Patra R, Mahadevappa M, Dutta PK. Automated Detection of Air Embolism in OCT Contrast Imaging: Anisotropic Diffusion and Active Contour based Approach. Proc. Int. Conf. Emerg. App. Inf. Tech. (EAIT), 2012.
  • 5. Mandal S, Martis RJ, Acharya UR, Basak K, Chakraborty C, Mandana KM, Ray AK. A Framework for Early Automated Diagnosis of Coronary Artery Disease using Data Fusion of Electrocardiogram and Phonocardiogram Signals. Proc. IEEE EMBS Spl. Topic Conf. Point-of-Care Healthcare Tech. (PoCHT), 2012.
  • 6. Basak K, Mandal S, Mahadevappa M, Chatterjee J, Ray AK. A Comparative Study of Phonocardiogram Analysis Techniques based on Mixed Signal Processor. Proc. INDICON, 2010.
  • 7. Basak K, Mandal S, Mahadevappa M, Chatterjee J, Ray AK. Phonocardiogram Signal Analysis using Adaptive Line Enhancer Methods on Mixed Signal Processor. Proc. Int. Conf. Sig. Proces. Comm. (SPCOM), 2010.
  • 8. Mandal S, Basak K, Mahadevappa M, Chatterjee J, Ray AK. A Wavelet Based Approach to Heart Sound De-noising and Segmentation. Proc. Int. Conf. Elect. Desig. Sig. Proces. (ICEDSP), 2009.
  • 9. Patra R, Basak K, Chakraborty C. CADLID: Pattern Classification Approach to Computer Aided Diagnosis of Liver Disease. Proc. Innov. Conf. Emb. Sys. Mob. Comm. Comp. 2010.
  • 10. Basak K, Mondal S, Hajzra S, Das A, Bera MK. Rapid Software Prototyping and Verification of Railway Interlocking System using State chart. Proc. Nat. Conf. Emerg. Tech. Tech. Edu. (ET & TE), 2008.

Sponsored Projects and Grants

1. Clonotyping of Shigella spp. – a novel machine learning based approach to combat shigellosis. Status: Ongoing. Funding Agency: WBDSTBT.

2. Development of a co-occurrence-based network topology analysis pipeline for understanding of microbial community level structural and functional diversity linked with human disease. Status: Ongoing. Funding Agency: SERB-CRG.

3. Development of a deep learning-based pipeline for detection of nosocomial pathogens from metagenomic data. Status: Ongoing. Funding Agency: SERB-SURE.

4. Evolution of virulence and antibiotic resistance in pathogens causing urinary tract infections: designing a machine learning-based pipeline to track uropathogenic potential of adaptive mutations. Status: Ongoing. Funding Agency: ICMR.

5. Automated comprehensive characterization of antibiotic resistance genes from clinical and environmental communities of microbial metagenomes. Status: Completed. Funding Agency: ICMR India.

6. Accelerating the identification of antimicrobial resistance of human pathogens using artificial intelligence. Status: Completed. Funding Agency: SERB Accelerate Vigyan.

7. In vivo and noninvasive functional imaging of murine embryo using multispectral optoacoustic tomography and computational approaches. Status: Completed. Funding Agency: TU Munich, Germany.

8. Multispectral optical imaging and computing technologies for real-time, in situ functional characterization and monitoring of cutaneous wound healing progression. Status: Completed. Funding Agency: BIRAC India.