Work Experience

2022-Present Senior Machine Learning Engineer, Datarock Pty Ltd, Melbourne, Australia

• Developed an inpainting model for geophysical imagery.
• Developed a self-supervised learning for multi-band electromagnetic images.
• Developed image registration, graph neural networks and open-set recognition algorithms for a wide range of projects.
• Gained considerable experience in working with Amazon Web Service (AWS)
• Gained great familiarity with geoscience python libraries such as Geopandas, Rasterio, Folium, GDAL, and more to come.

2020-2022 Senior Postdoctoral Research Fellow, Bioinformatics Institute (BII), ASTAR, Singapore

• Led multiple DL projects and have two papers one accepted at Neurocomputing journal and one under review
• Wrote multiple grant proposals and received the AI3 HTPO grant which will sponsor our project for 2 years
• Initiated and led a project with the Baker Heart and Diabetes Institute, Australia
• Was BII’s representative for organizing courses in collaboration with other ASTAR research institutes and NTU on AI and biomedical image processing
• Trained half a dozen trainees and interns

2018-2020 Postdoctoral Research Fellow, Bioinformatics Institute (BII), ASTAR, Singapore

• Led DL and ML projects and had two publications at BMC bioinformatics and Plos One journals
• Trained a course in collaboration with other AI experts at ASTAR on Data science
• Trained multiple interns.

Mar 2017-Dec 2017 Intern at School of Electrical and Electronic Engineering, University of Melbourne, Australia

• Developed a 3D left ventricular model with imposed tags on the left ventricular muscles and simulated tag fading and cardiac motion for the generated 3D model using VTK.
• The developed model can be used to assess tagged CMR image registration algorithms.

Nov 2012-Jan 2013 Intern at Hafez Institute of Higher Education, Shiraz, Iran

• As a network administrator, I was responsible for maintaining the network, troubleshooting network problems, ensuring security of the network as well as installing and configuring new host machines.

Academic Qualifications

2013-2018 PhD in Computer Science, National University of Singapore, Singapore

Thesis: Towards Automatic and Consistent Cardiac MRI Analysis

2011-2013 M.Eng in IT Engineering, Shiraz University of Technology, Iran

Thesis: Implementing Cloud Computing on Content-centric Networks Selected courses: Data Analysis, Distributed Systems, Advanced Computer Networks, Advanced Computer Architecture

GPA:18.80/20

2007-2011 B.Eng in IT Engineering, Shiraz University of Technology, Iran

Selected courses: Data Structure, Artificial Intelligence, Image processing, Java programming, Software Engineering, Database, Computer Graphics, Computer Networks, Computer Architecture, Web design

Top student for 3 consecutive years GPA: 18.13/20

Research Experience

Adversarial Robustness in Deep Learning: We hypothesized that adversarial vulnerability of DL models stems from two factors: 1) data sparsity in a high dimensional input data space and 2) existence of many redundant parameters in DL models. We developed a training framework in PyTorch to analyse our hypotheses. The analysis results confirmed our hypotheses. Our results were submitted and were recently accepted at the Neurocomputing journal.

Image Classification of 3D RSOM Images: We developed an automatic algorithm using 3D images of the micro-vascular structure and tissue layers under the skin as well as other clinical data to predict eczema and severity of the eczema condition. We developed a 3D neural network using Tensorflow library and a ML model in python. Our model can differentiate healthy from eczema tissue with 97% accuracy.

Image classification of 3D OCT Images: We analyzed 3D OCT images of the patient's cornea to identify any potential cardiovascular diseases. The proposed algorithm consists of a 3D neural network developed using Tensorflow library. The developed model is currently part of an ensemble network with models developed for other modalities such as Fundus images, genomics and clinical data by our research partners.

Image Registration of Immunohistochemistry Images: We developed a linear image registration algorithm in C++ that registers a user-specified region in hundreds of immunohistochemistry image slices. We used the VTK library for visualization of the blood vessels and showed the reconstructed blood vessels before and after registration. The proposed algorithm outperforms state-of-the-art nonlinear and patch-based registration algorithms.

Image Segmentation of Tagged MR Images: We developed a ML algorithm to use segmentation of the LV walls in high quality cineMR images for low quality tagged MR images. The proposed algorithm was developed in Matlab and C++. Visualization and image processing was performed using ITK and VTK libraries. The calculated regional strain for healthy subjects using the output segmentation were more similar to the expected strain plots for healthy subjects than a state-of-the-art method.

Accurate Left Ventricular Volume Measurement from MR Images: Developed a model-free and a model-based ML algorithm for accurate detection of the MRI slice under the mitral valve. Developed the algorithms in C++, Matlab. Deployed ITK and VTK image processing and visualization libraries. The proposed algorithms were accepted at the MICCAI conference and JMI journal.

Skills

Programming languages

Python, C++, MATLAB, JAVA

Libraries

Tensorflow, Pytorch, Matplotlib, Scikit-Learn, Openslide, OpenCV, PIL, SciPy, FoolboxAttack, ITK, VTK

Tools

Visual Studio C++, Segment, Paraview, MedInria, ImageJ, Eclipse, WEKA, Photoshop, Dreamweaver

Awards

2021 Receiver of AI3 HTPO seed fund grant, ASTAR

2016 Medical Image Processing and Computer Assisted Intervention Travel Award

2013 ASTAR Singapore International Graduate Award for PhD

2010 Member of the Office of Talented Students, Shiraz University of Technology

2009 Top Student Award, Shiraz University of Technology

2009 Member of the Office of Talented Students, Shiraz University of Technology

2008 Top Student Award, Shiraz University of Technology

2008 Member of the Office of Talented Students, Shiraz University of Technology

2007 Top Student Award, Shiraz University of Technology