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Monday, 24 July 2023
Time Speaker Title Resources
09:30 to 09:45 Rajesh Gopakumar and Organizers (ICTS-TIFR, India) Welcome remarks
09:45 to 10:45 Saurabh Sinha (Online) (Georgia Institute of Technology, USA) Introduction to probability, statistics, statistical testing
11:10 to 12:00 Rahul Siddharthan (IMSc Chennai, India) Unsupervised ML: Clustering, dimensionality reduction, applications I
12:00 to 13:00 Tavpritesh Sethi (IIIT Delhi, India) Bayesian networks for causal reasoning
14:00 to 15:30 Tavpritesh Sethi (IIIT Delhi, India) Bayesian networks for causal reasoning
16:00 to 17:00 Tavpritesh Sethi (IIIT Delhi, India) Generative models in healthcare
17:00 to 18:00 Ponnusamy Saravanan (University of Warwick, UK) Gestational Diabetes: Cause for the epidemic of diabetes and cardiovascular disease?

Gestational diabetes (GDM), the most common medical disorder in pregnancy, is defined as glucose intolerance resulting in hyperglycaemia that begins or is first diagnosed in pregnancy. GDM is associated with increased pregnancy complications and long-term metabolic risks for the woman and the offspring. Current diagnostic and management strategies recommended by national and international guidelines are mainly focused on short-term risks during pregnancy and delivery. The evidence for long-term risk in women with gestational diabetes and their offspring will be presented. It will highlight why a shift is needed from the perception: 'GDM is a short-term condition causing increased risks of large babies' to 'a potentially modifiable long-term condition that contributes to the growing burden of childhood obesity and cardiometabolic disorders in women and the future generation'. The talk will also highlight the complexity of dealing with 'maternal-child health/disease transmission' and why innovative methods are needed to improve/solve these issues.

Tuesday, 25 July 2023
Time Speaker Title Resources
09:30 to 10:30 Saurabh Sinha (Georgia Institute of Technology, USA) Introduction to machine learning
11:00 to 12:00 Nicki Tiffin (SANBI, South Africa) Introduction to study design
12:00 to 13:00 Paramjit Gill (University of Warwick, UK) Oral Cancer Screening in India: a feasibility study

To describe the epidemiology of oral cancer in India and potential of screening it by community health workers using mobile technology.

14:00 to 15:30 Tavpritesh Sethi (IIIT Delhi, India) Bayesian networks for causal reasoning
16:00 to 17:00 Nicki Tiffin (South African National Bioinformatics Institute, South Africa) Data quality, coding data, ontologies and harmonisation
17:00 to 18:00 Hannah Mary Thomas (Online) (CMC Vellore, India) Exploring Artificial Intelligence in Healthcare: Insights from a Quantitative Imaging Study on Head and Neck Cancer.

" In recent years, the healthcare industry has shown increasing interest in developing inclusive and accessible artificial intelligence (AI) technologies. The objective is to ensure that AI-powered healthcare systems are accessible to everyone and inclusive of patients from diverse backgrounds. Ethical considerations such as privacy, security, and fairness also need to be taken into account during the design process. Head and Neck cancers (HNC) are classified as rare diseases, receiving less support compared to more prevalent cancers. However, HNC is a biologically complex and diverse group of rare malignancies, particularly burdensome in India. Diagnosis often occurs at advanced stages, resulting in poor prognosis and shorter lifespans. One of the major challenges after diagnosis is determining the most effective therapy for an individual tumor. Current decision-making relies on qualitative visual interpretations of radiological images, doctor-derived observations, and average statistics from clinical trials. However, advances in molecular biomarkers enable personalized cancer treatments based on specific genetic pathways. Radiological imaging remains crucial for diagnosis and decision-making, as it allows comprehensive analysis of the tumor. Despite these advancements, clinical outcomes in HNC remain unsatisfactory. Radiomics, a rapidly evolving field in oncology, uses AI-driven quantitative analysis of radiological imaging data. It converts qualitative images into numerical features for mining clinical insights using machine learning techniques. However, there are barriers to clinical adoption of radiomics in radiation oncology, including limited transparency, insufficient patient data for robust models, and a lack of randomized trials demonstrating added value. To address these limitations, our team at Christian Medical College, Vellore, India, funded by India Alliance DBT Wellcome, is working on better understanding imaging biomarkers in head and neck cancer through large-scale studies. We aim to overcome challenges and share our experiences with prospective imaging trials and multi-institutional radiomics studies. Integrating AI and quantitative imaging in healthcare has transformative potential, but addressing challenges is crucial for successful implementation and clinical impact."

Wednesday, 26 July 2023
Time Speaker Title Resources
09:30 to 10:30 Pranay Goel (IISER Pune, India) Training deep learning computer vision models in pytorch part I
11:00 to 12:00 Vaanathi Sundaresan (IISc, India) Artificial Intelligence in medical imaging for precision medicine

Artificial Intelligence (AI)-based tools applied to various medical imaging modalities (e.g., MRI, CT) can extract imaging biomarkers for several diseases for their precision diagnosis, their quantification and analysis of their clinical impact at the population-level. However, there are several challenges in clinical deployment of these AI tools - heavy requirements of data and expert annotations, variation in data characteristics across hospitals and the need for data-privacy. The talk will focus on the AI techniques for precision diagnosis and improving the robustness of the tools in various clinical applications.

12:00 to 13:00 Pranay Goel (IISER Pune, India) Training deep learning computer vision models in pytorch part II
14:00 to 15:30 Shakuntala Baichoo (University of Mauritius, Mauritius) Survival Analysis of cancer patients using ML technique
16:00 to 17:00 Sayan Mukherjee (Online) (University of Leipzig, Germany) Modeling Noisy Count Data I
17:00 to 18:00 Shakuntala Baichoo (University of Mauritius, Mauritius) Prediction of survival analysis for cancer patients taking into account the concepts of explainable AI.
Thursday, 27 July 2023
Time Speaker Title Resources
09:30 to 10:30 Sudeshna Sarkar (IITKGP, India) Biomedical text mining I
11:00 to 12:00 Sudha Sundar (Institute of Cancer and Genomic Sciences, UK) Cancer and clinical practice
12:00 to 13:00 Sudeshna Sarkar (IITKGP, India) Biomedical text mining II
14:00 to 15:30 Sayan Mukherjee (University of Leipzig, Germany) Modeling shapes and fields: a sheaf theoretic perspective
16:00 to 17:00 Sudeshna Sarkar (IITKGP, India) Literature Mining for Drug Repurposing
17:00 to 18:00 Sayan Mukherjee (University of Leipzig, Germany) Modeling Complex Phenotypes
Friday, 28 July 2023
Time Speaker Title Resources
09:30 to 10:30 Dilraj Grewal (Online) (Duke University, Durham, NC, USA) Retinal Imaging in Neurodegenerative Diseases

This talk reviews the current status of retinal imaging including wide field Fundus photography, OCT and OCT angiography in detection of neurodegenerative diseases including Alzheimer's Disease, Mild Cognitive Impairment and Parkinson Disease

11:00 to 12:00 Sudha Sundar (Institute of Cancer and Genomic Sciences, UK) Cancer diagnostics and surgery
12:00 to 13:00 Pranay Goel (IISER Pune, India) Automating bone age assessment from pediatric Xrays
14:00 to 15:30 Pranay Goel (IISER Pune, India) Tutorial based on bone age detection from hand x-rays using deep learning.
15:30 to 17:00 Posters Poster Session
17:00 to 18:00 Basky Tilaganathan (online) (Tommy’s National Centre for Maternity Improvement, UK) Obstetric risk assessment: the need for ML/AI

In the UK alone, around 3000 babies (0.4 %) are tragically stillborn every year and nearly 60,000 (8 %) are born prematurely. Of those babies born early, some may not survive and others may face a lifetime of health issues. Evidence points to a wide geographical variation in the quality of care, attributable in part to disparities in how guidelines are followed and the availability of local resources.

Current pregnancy risk assessment is around 50 years old. It is based on paper/digital notes and asks only for the presence of certain risk factors. It does not investigate the interaction of those risk factors. It does not provide a numerical risk, thereby precluding personalisation of care. This results in poor triage into care pathways, inefficient use of limited medical resources and worsens health inequalities for underserved groups. Furthermore, despite digitisation of records, there is limited continuity of care information and no access to decision support. Digital notes do not present relevant information and, with over 90 NICE guidelines for maternity care, practitioners need context-specific decision support.

Our solution is the Tommy’s App, an innovative digital CE marked medical device which more accurately assesses a woman’s chance of preterm birth or of developing complications during pregnancy that can lead to stillbirth, and in doing so supports healthcare professionals to offer the right care at the right time and supports women to make informed decisions about their care.

Monday, 31 July 2023
Time Speaker Title Resources
09:30 to 10:30 Anshul Kundaje (Online) (Stanford University, USA) Deep learning for regulatory genomics

The human genome sequence contains functional DNA words, syntax and grammar that regulate gene activity in a highly context-specific manner, thereby encoding identity, fate and function of all cells in the human body. To decode the regulatory language of the genome, we developed deep learning frameworks to learn predictive mappings from genomic sequences to diverse genome-wide regulatory molecular profiling experiments across 100s of cell types and tissues. We have developed powerful model interpretation frameworks to extract local and global predictive regulatory sequence syntax and understand genetic variants i.e. differences in DNA sequence between individuals are likely to affect molecular mechanisms associated with common and rare diseases. Our models enable optimized design of downstream validation experiments to decipher functional properties of DNA and variants, this serving as a powerful lens for genomic discovery.

11:00 to 12:00 Anurag Agrawal (Ashoka University, Haryana, India) Lung disease and AI applications: From cough sounds to CT scan
12:00 to 13:00 Rajiv Raman (Shankara Netralaya, India) Deep learning and diabetic retinopathy
14:00 to 15:00 V Mohan (Dr Mohan’s Diabetes Specialities Centre, Chennai) Heterogeneity of type-2 diabetes in India - I
16:00 to 17:00 Anand Rajendran ( Aravind Eye Hospital Chennai ) Macular Maladies - Degenerations, Detachments and Holes - Protean Pathologies and Predictive Potential for AI

The talk would encompass the varied pathologies afflicting the most visually critical part of the retina - the macula. The varied clinical manifestations of common, yet visually debilitating, macular pathologies such as age-related macular degeneration (ARMD), central serous chorioretinopathy (CSCR) and macular holes, a surgical condition, would be discussed. Insights regarding the underlying pathophysiology as well as imaging details would be shared too. Finally, a brief overview of AI predictive studies and models forecasting outcomes would be highlighted too.

17:00 to 18:00 Nicki TIffin (SANBI, South Africa) Equitable and Ethical Data Sharing: Navigating the Benefits and Challenges
Tuesday, 01 August 2023
Time Speaker Title Resources
09:30 to 10:30 Surag Nair (Stanford University, USA ) Deep learning for genomics

Hands on session for training and interpreting neural networks for genomics

11:00 to 12:00 Anurag Agrawal (Ashoka University, Haryana, India) Digital twins in Healthcare
12:00 to 13:00 Rajiv Raman (Shankara Netralaya, India) Use of big data analytics in healthcare research
14:00 to 15:30 Surag Nair (Stanford University, USA) -
16:00 to 17:00 Anurag Agrawal (Ashoka University, India) Ownership and governance of health data
17:00 to 18:00 Prabhdeep Kaur (National Institute of Epidemiology, India) Hypertension burden and interventions- Public health approach
Wednesday, 02 August 2023
Time Speaker Title Resources
09:30 to 10:30 Janani Ravi (University of Colorado, USA) ML for microbial genomics
11:00 to 12:00 Uma Ram (Seethapathy Clinic & Hospital, Chennai, India) ML and health care: an obgyn perspective
12:00 to 13:00 Prabhdeep Kaur (National Institute of Epidemiology, India) Public health data sources for machine learning and examples of research questions
14:30 to 15:30 Ewan Birney (online) (EMBI-EBI, UK) Big Data in Biology: How EMBL delivers big data for biology, and some highlights of its application to human disease biology

Molecular biology is now a leading example of a data intensive science, with both pragmatic and theoretical challenges being raised by data volumes and dimensionality of the data. These changes are present in both “large scale” consortia science and small scale science, and across now a broad range of applications – from human health, through to agriculture and ecosystems. All of molecular life science is feeling this effect. The European Molecular Biology Laboratory (EMBL) - Europe’s only intergovernmental research organisation in the life sciences is at the forefront of these developments performing both excellent research and providing world leading services to enable science across Europe.

This shift in modality is creating a wealth of new opportunities and has some accompanying challenges. In particular there is a continued need for a robust information infrastructure for molecular biology. This ranges from the physical aspects of dealing with data volume through to the more statistically challenging aspects of interpreting it. A particular problem is finding causal relationships in the high level of correlative data. Genetic data are particular useful in resolving these issues. I will present how EMBL pursues this science and give examples from my own research that spans human genetics research through to partnering for clinical application.

16:00 to 17:00 Janani Ravi (University of Colorado, USA) ML for microbial genomics
17:00 to 18:00 Nicki Tiffin (South African National Bioinformatics Institute, South Africa) Data governance framework
Thursday, 03 August 2023
Time Speaker Title Resources
09:30 to 10:30 Saurabh Sinha (Georgia Institute of Technology (Georgia tech), USA) Novel statistical and machine learning methods for single cell data analysis
11:00 to 12:00 Janani Ravi (University of Colorado, USA) Predicting microbial phenotypes with ML
12:00 to 13:00 Suresh Seshadri (Mediscan Systems, Chennai) TBA (ultrasound imaging)
14:00 to 15:00 Paul Ramesh Thangaraj (Apollo Hospitals, Chennai, India) Life and death in a modern ICU

1. What is death in the medical sense?
Case study 1-2
- problems with definition in the modern ICU
- what does it mean at a cellular/ tissue/ organ / organismal level

2. Limitations of risk scores?
- case study at the extremes of risk prediction

3. Hidden information
- basic science insights not applied at the bedside
- not available at bedside( genomic/ microbiomic information

4. The particular issues with sepsis and SIRS

5. How can interdisciplinary research help to refine prediction of death in critically ill patients and why is this important?

15:30 to 18:00 Shinjini Bhatnagar, Bapu Koundinya Desiraju (Remote), Ram Thiruvengadam, Himanshu Sinha Garbh-Ini project overview and discussion
Friday, 04 August 2023
Time Speaker Title Resources
09:30 to 10:30 Anshul Kundaje (Online) (Stanford University, Stanford, USA) Deciphering the cis regulatory code and disease associated genetic variation with base resolution deep learning models
11:00 to 12:00 Gagandeep Kang (CMC Vellore, India) Insight and inequity

While new technologies have the potential for insight, the quality of the output will be influenced by the quality and quantity of the input. Currently, in low- and middle-income countries, there are high expectations from machine learning and artificial intelligence, but investments in generating primary data remain limited. This both limits insight and lays the ground for inequity, compared to data-rich, quality controlled health environments.

12:00 to 13:00 K Kumaran (University of Southampton, UK and CSI Holdsworth Memorial Hospital, Mysore, India) The Healthy Life Trajectories Initiative: implementation, challenges and future potential
14:30 to 15:15 K VIjayRaghavan (NCBS-TIFR, India) Data: access, analysis and distillation
15:45 to 17:00 K VijayRaghavan (chair), Gagandeep Kang, Nicki Tiffin, Anurag Agrawal (remote), Shinjini Bhatnagar, Ewan Birney (remote) Panel discussion: Public good and the rapid scaling, and monetisation, of health-data