Sudha Gopalakrishnan Brain Centre

Indian Institute of Technology Madras

Journals

Predictive modeling of Alzheimer's disease progression: Integrating temporal clinical factors and outcomes in time series forecasting

    K.H. Aqil , Prashanth Dumpuri , Keerthi Ram, Mohanasankar Sivaprakasam

     Intelligence-Based Medicine Volume 10, 2024, 100159 doi: 10.1016/j.ibmed.2024.100159

Systematic development of immunohistochemistry protocol for large cryosections-specific to non-perfused fetal brain

     Karthika Pandurangan , Jaikishan Jayakumar , Stephen Savoia , Reetuparna Nanda , S. Lata , E. Harish Kumar , Suresh S. , Sudha Vasudevan , Chitra Srinivasan , Jayaraj Joseph, Mohanasankar Sivaprakasam, Richa Verma

     J Neurosci Methods. 2024 May:405:110085. doi: 10.1016/j.jneumeth.2024.110085.

Histological characterization and development of mesial surface sulci in the human brain at 13–15 gestational weeks through high-resolution histology

    Richa Verma, Jaikishan Jayakumar, Rebecca Folkerth, Paul R. Manger, Mihail Bota, Moitrayee Majumder, Karthika Pandurangan, Stephen Savoia, Srinivasa Karthik, Ramdayalan Kumarasami, Jayaraj Joseph, G. Rohini, Sudha Vasudevan, Chitra Srinivasan, S. Lata, E. Harish Kumar, Rajeswaran Rangasami, Jayaraman Kumutha, S. Suresh, Goran Šimić, Partha P Mitra, Mohanasankar Sivaprakasam

     J Comp Neurol. 2024 Apr;532(4):e25612. doi: 10.1002/cne.25612.

Publications

Ano-swinMAE: Unsupervised Anomaly Detection in Brain MRI using swin Transformer based Masked Auto Encoder

    Kumari Rashmi, Ayantika Das, Naga Gayathri Matcha, Keerthi Ram, Mohanasankar Sivaprakasam

     MIDL 2024

Registration Quality Evaluation Metric with Self-Supervised Siamese Networks

    Tanvi Kulkarni, Sriprabha Ramanarayanan, Keerthi Ram , Mohanasankar Sivaprakasam

     MIDL 2024

Optimization of Freezing Method to Facilitate Cryosectioning of Large Brain Tissues

     Ramdayalan Kumarasami, Sathish Pandidurai, Srinivasa Karthik, Mohanasankar Sivaprakasam, Jayaraj Joseph

     2024 IEEE International Symposium on Medical Measurements and Applications (MeMeA) doi: 10.1109/MeMeA60663.2024.10596795

Blogs

Advancing Neuroscience Research with Visual Question Answering and Multimodal Retrieval

     Pralaypati Ta, Sriram Venkatesaperumal, Mohanasankar Sivaprakasam, Amit Kumar and Vega Shah

     Technical Blog , nvidia.Developer

Patents

Automated Coverslipper for Large Format Slides with Switchable Compatibility to Handle Multi Format Slides.

     Jayaraj Joseph, Mohanasankar Sivaprakasam, Jayaraman Kiruthi Vasan, Ramdayalan K, Rahul Manoj, and Sudhan Chandrasekaran

     WO 2023/275894, Jan. 5, 2023, Assigned to Indian Institute of Technology (IIT Madras).

Journals

A Standardized Protocol for the Safe Retrieval of Infectious Postmortem Human Brain for Studying Whole-Brain Pathology

    James RI, Verma R, Johnson LR, Manesh A, Jayakumar J, Sen M, Joseph J, Kumarasami R, Mitra PP, Sivaprakasam M, Varghese GM

     Am J Forensic Med Pathol. 2023 Jul 25. doi: 10.1097/PAF.0000000000000871. Epub ahead of print. PMID: 37490584.

A technology platform for standardized cryoprotection and freezing of large-volume brain tissues for high-resolution histology

     Ramdayalan Kumarasami , Richa Verma , Karthika Pandurangan , Jivitha Jyothi Ramesh, Sathish Pandidurai, Stephen Savoia, Jaikishan Jayakumar , Mihail Bota , Partha Mitra, Jayaraj Joseph , Mohanasankar Sivaprakasam

     Front. Neuroanat., 02 November 2023 Volume 17 - 2023 doi: 10.3389/fnana.2023.1292655

Wide field block face imaging using deep ultraviolet induced autofluorescence of the human brain

     Karthik, S., Joseph, J., Jayakumar, J., Manoj, R., Shetty, M., Bota, M., Verma, R., Mitra, P., & Sivaprakasam, M. (2023)

     Journal of Neuroscience Methods, 109921. https://doi.org/10.1016/j.jneumeth.2023.109921

Publications

Automation of slide staining for large tissue sections

     Prabhakar Sithambaram, Ramdayalan Kumarasami, Sathish Pandidurai, Selvadurai Sekar, Jayaraman Kiruthi Vasan, Mohanasankar Sivaprakasam, Jayaraj Joseph,

     2023 45th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC).

Automation of slide coverslipping for large tissue sections

     Hari Narayanan, Sudhan Chandrasekaran, Jayaraman Kiruthi Vasan, Ramdayalan Kumarasami, Mohansankar Sivaprakasam, Jayaraj Joseph

     Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC).

Image Quality Assessment of Large Tissue Samples Stained using a Customized Automated Slide Stainer

     P. Sithambaram, R. Kumarasami, M. Sivaprakasam and J. Joseph

     2023 IEEE International Symposium on Medical Measurements and Applications (MeMeA), Jeju, Korea, Republic of, 2023, pp. 1-6, doi: 10.1109/MeMeA57477.2023.10171900

Cover slip handling and mounting media dispensation for reliable automated cover slipping of large tissue sections

     H. Narayanan, S. Chandrasekaran, J. K. Vasan, R. Kumarasami, M. Sivaprakasam and J. Joseph

     2023 IEEE International Symposium on Medical Measurements and Applications (MeMeA), Jeju, Korea, Republic of, 2023, pp. 1-6, doi: 10.1109/MeMeA57477.2023.10171950.

Learning to atlas register for rapid segmentation of brain structures in fetal MRI

    Tanvi Kulkarni, Aqil K. H., Jaikishan Jayakumar, Keerthi Ram, Mohanasankar Sivaprakasam

     Volume 12464, Medical Imaging 2023: Image Processing; 124643V (2023) doi: 10.1117/12.2653953

A Study of Representational Properties of Unsupervised Anomaly Detection in Brain MRI

    Ayantika Das, Arun Palla, Keerthi Ram, Mohanasankar Sivaprakasam

     MICCAI 2023 workshop - Medical applications with disentanglements doi: 10.1007/978-3-031-25046-0_9

Confounding Factors Mitigation in Brain Age Prediction Using MRI with Deformation Fields

    K. H. Aqil, Tanvi Kulkarni, Jaikishan Jayakumar, Keerthi Ram, Mohanasankar Sivaprakasam

     MICCAI 2023 workshop - International Workshop on PRedictive Intelligence In MEdicine

Blogs

Whole Human Brain Neuro-Mapping at Cellular Resolution on NVIDIA DGX

     Keerthi Ram, Mohanasankar Sivaprakasam and Amit Kumar

     Technical Blog , nvidia.Developer

Publications

Semantic segmentation of microscopic neuroanatomical data by combining topological priors with encoder–decoder deep networks.

    Samik Banerjee, Lucas Magee, Dingkang Wang, Xu Li, Bing-Xing Huo, Jaikishan Jayakumar, Katherine Matho, Meng-Kuan Lin, Keerthi Ram, Mohanasankar Sivaprakasam, Josh Huang, Yusu Wang, Partha P Mitra

     A reusable neural network pipeline for unidirectional fiber segmentation. Fioravante de Siqueira A, Ushizima DM, van der Walt SJ. Sci Data. 2022 Feb 2;9(1):32. doi: 10.1038/s41597-022-01119-6.