IBSE is very pleased to introduce you all to our guest speaker Dr. Anshu Bhardwaj who gave IBSE Seminar on Tuesday, 11th February 2020 in BT Seminar Hall (Biotechnology Dept. Block 1, Ground Floor), at 03:30 pm. The title of her presentation was: “Data-driven approaches to address Antimicrobial Resistance (AMR)”. Anshu Bhardwaj obtained her Ph.D. in understanding genotype-to-phenotype correlations in human mitochondrial diseases. She then joined CSIR as one of the founding PIs of the Open Source Drug Discovery Project in 2008.
About the India-EMBO Symposium Richard Feynman once famously remarked, “What I cannot create, I do not understand”. As engineers strive to create complex systems, biologists have strived to understand the evolved complexities of biological systems. This Symposium will bring together biologists, engineers, and theoreticians to discuss exciting advancements and exchange ideas and challenges in the field of synthetic biology. The invited speakers are leaders in the fields of synthetic biology, metabolic engineering, and microbial communities.
We are happy to announce 5th IBSE Colloquium, by Prof. Radhakrishnan Mahadevan, Department of Chemical Engineering and Applied Chemistry, University of Toronto. The title of the talk is “Design Principles for Engineering Metabolism”. Radhakrishnan (Krishna) Mahadevan is a Professor in the Departments of Chemical Engineering & Applied Chemistry, and Institute of Biomaterials and Biomedical Engineering at the University of Toronto. He obtained his B. Tech from Indian Institute of Technology, Madras in Chemical Engineering in 1997 and then obtained his Ph.
The four days workshop will train researchers from life science and mathematics to communicate and work together to learn to build and analyse computer models using user-friendly open-source software. Date: Monday 2 - Thursday 5 December 2019 Venue: Indian Institute of Technology Madras - IIT P.O.Chennai, Tamil Nadu, 600 036, India Application opens: Wednesday 25 September 2019 Application deadline: Thursday 31 October 2019 Participation: Open application with selection Registration fee: Student/Postdoc ₹2,500 / Faculty ₹5,000 / Industry ₹10,000
Happy to announce that Dr. Nathan Bachmann from Center for Infectious Diseases and Microbiology (CIDM) will be presenting an overview of his work in Mycobacteria species and developing metagenomics. The title of his talk is “Key transitions in the evolution of rapid and slow growing Mycobacteria identified by comparative genomics”. Nathan has completed a Ph.D. in microbial genomics and bioinformatics at the University of Queensland. He then worked as a post-doc at the University of the Sunshine Coast on culture-independent genome sequencing of Chlamydia pecorum from swab samples collected from koalas.
Happy to announce that Dr. Ranjeeta Menon from Univ. of Sydney will be presenting an overview of her work in pathogen genomics coming Monday. She will be presenting along with Nilesh Subramanian, IBSE Postbac working with Dr. Manikandan Narayanan who will talk about using bioinformatics and machine learning to guide Tuberculosis drug predictions. The title of her talk will be “Aspects of Whole Genome Sequencing application in translational research – Pathogen genomics”.
IBSE is very pleased to introduce you all to our guest speaker Dr. Akash Gulyani who will give IBSE Seminar on Friday, 8th November 2019 in BT Seminar Hall (Biotechnology Dept. Block 1, Ground Floor), at 12:00 pm. The title of his presentation will be: “Natural and engineered biological sensors: visualizing cellular dynamics and discoveries in natural light sensing”. Dr. Akash Gulyani received his Ph.D. in Chemical Sciences from the Indian Institute of Science, Bangalore and post-doctoral training at The Scripps Research Institute, San Diego and the Department of Pharmacology, University of North Carolina, Chapel Hill, US.
IBSE In-house workshop to be held on 7 November 2019 from 2.30 pm.
|1430 - 1500||Analysis of complex reaction networks: Theory to Practice||Nirav Bhatt, IBSE Faculty|
|1500 - 1515||Analysis of differential gene expression of Ribosomal Protein genes in different cancers||Sakshi Agrawal, IBSE|
|1515 - 1530||MinReact: An efficient method to identify minimal metabolic networks||Gayathri S, IBSE|
|1530 - 1600||Coffee break|
|1600 - 1615||Tuning Functional Modes via DNA-Driven Population Re-Distribution in both Disordered and Ordered Proteins||Soundhara Rajan G, IBSE|
|1615 - 1630||Two-species community design of Lactobacilli for production of D-Lactate||Maziya Ibrahim, IBSE|
|1630 - 1645||Centrality in multilayer networks||Tarun Kumar, IBSE|
|1645 - 1700||Inferring spatial correlation of Alzheimer’s disease from multi-tissue gene expression data||B P Kailash, IBSE|
IBSE is very pleased to introduce you all to our guest speaker Dr. Anjali Krishnan who will give IBSE Seminar on Wednesday, 7th August 2019 in BT Seminar Hall (Biotechnology Dept. Block 1, Ground Floor), at 12:00 pm. The title of her presentation will be: “Multivariate approaches to examine cognitive brain function”. Dr. Anjali Krishnan is an Assistant Professor of Quantitative Methods in the Psychology Department at Brooklyn College of the City University of New York http://www.
Given the rich expertise in data science at IBSE & RBC-DSAI, IIT Madras, this initiative will be catalytic in developing strong collaborations with University of Heidelberg in frontier areas of biological data analysis, and to train future leaders in these emerging areas. The Indian Express, India Today, NDTV
The Fourth Colloquium of the IBSE will be held on 7th March 2019. Dr. John S. Tsang, Chief, Systems Genomics and Bioinformatics Unit, Laboratory of Immune System Biology and Co-Director, NIH Center for Human Immunology (CHI) has kindly agreed to be our guest speaker. His lab works on developing and applying systems biology approaches— combining computation, modeling, and experiments—to study the immune system at both the organismal and cellular levels. He will discuss work on developing predictive models and uncovering correlates of immune responsiveness in humans and on evaluating human immune states across health and diseases.
IBSE, IIT Madras is going to collaborate on applying advanced analytical approaches for predicting pregnancy outcomes with Translational Health Science and Technology Institute (THSTI) in Faridabad, Haryana. A Research Collaboration Agreement between the two Institutes was signed on February 22, 2019 during the IITM-THSTI Conclave on ‘Transforming Maternal and Child Healthcare Using Data Science.’ The broad objectives of this Collaboration include: Ø Bringing physician-scientists, biologists, engineers and data scientists together to solve public health problems related to maternal and child health,
The Third Colloquium of the IBSE will be held on 14th February 2019. Prof. Michael Knop, Group leader at the Zentrum für Molekulare Biologie der Universität Heidelberg (ZMBH) and German Cancer Research Institute (DKFZ) Heidelberg, Germany has kindly agreed to be our guest speaker. His laboratory develops software and advanced microscopy methods in biology, and methods for genome engineering in model organisms. He also investigates processes that regulate cellular morphogenesis, cell signalling and protein homeostasis.
by Aarthi Ravikrishnan and Karthik Raman Systems-Level Modelling of Microbial Communities: Theory and Practice introduces various aspects of modelling microbial communities and presents a detailed overview of the computational methods which have been developed in this area. This book is aimed at researchers in the field of computational/systems biology as well as biologists/experimentalists studying microbial communities, who are keen on embracing the concepts of computational modelling. The primary focus of this book is on methods for modelling interactions between micro-organisms in a community, with special emphasis on constraint-based and network-based modelling techniques.
Grand Challenges India and the Program Management Unit at BIRAC (PMU-BIRAC) are pleased to announce the launch of a call on ‘ki Data Challenge for Maternal and Child Health’, a program directed at addressing key knowledge gaps in our understanding of how nutrition, prenatal and antenatal care, maternal support, and environmental and social factors contribute to an elevated risk of poor maternal and childhood health outcomes. Grand Challenges India is a partnership of Department of Biotechnology, Government of India, BIRAC and the Bill & Melinda Gates Foundation.
The second seminar of the IBSE Seminar Series will be held on 29th June, 2018. Dr. Anurag Agrawal has kindly agreed to be your guest speaker of this seminar series. Dr. Anurag Agrawal is interested in experimental and computational approaches for understanding biological and clinical aspects of respiratory diseases, especially asthma.
IBSE is pleased to announce “The Wellcome Trust/DBT India Alliance Research Fellowship in Biomedical Research schemes” to Dr. Manikandan Narayanan. We are extremely proud to inform you all that Dr. Manikandan will be joining IBSE soon.
The first IBSE International Symposium was organised from 22-24th January 2018, at the IC&SR Auditorium, IIT Madras. Preceding the symposium, student participants were trained and challenged to perform next-generation sequence analyses as part of a day long workshop conducted by Rohit Gupta (MedGenome Labs). The symposium was inaugurated by Prof. Bhaskar Ramamurthi (Director, IITM) who pointed out the importance of this symposium to not only usher in a transition from genotype to phenotype but eventually also to actionable prototypes, and Prof.
Open Positions Applications are invited for two Junior Research Fellow (JRF) positions in a project funded by the Department of Biotechnology at the Computational Systems Biology Lab, IIT Madras. PhD applications are also welcome Apply at https://research.iitm.ac.in/ to one of the following departments: (a) Interdisciplinary Stream on “Data Science and Artificial Intelligence” (b) Biotechnology © Chemical Engineering (d) Computer Science Project The burgeoning amounts of cancer genome data have opened several avenues for computational analysis of these sequences to gain insights into disease associations of genes, as well as the molecular bases of diseases.
The first talk of the IBSE seminar series will be delivered by Prof. Victor de Lorenzo. The title of the talk is “What transcriptional noise tells us about the cell inside”. Prof. Victor de Lorenzo currently works at Systems Biology Program, Centro Nacional de Biotecnologia, CSIC, C/ Darwin, 3 (Campus de Cantoblanco), Madrid 28049, Spain. Abstract Transcriptional noise is a necessary consequence of the molecular events that drive gene expression in prokaryotes.
Recent work from IBSE was featured in The Hindu Business Line. This article refers to the recent paper published by Karthik Raman and Sayan Ranu, in Bioinformatics.
IBSE in-house workshop to be held on 9-September-2017.
|0930 - 1015||Role of gut microbiota in autism||Swagatika Sahoo|
|1015 - 1030||Coffee break|
|1030 - 1045||Mining evolutionary gene expression patterns in mammalian tissues||Gaurav Bilolikar|
|1045 - 1100||Quantifying Microscopic Pathway Heterogeneity in Protein Folding||Soundhara Rajan G|
|1100 - 1115||Understanding the evolutionary design principles underlying metabolism||Gayathri S|
|1115 - 1130||Rational development of microbial consortia for metabolic engineering||Aarthi Ravikrishnan|
|1130 - 1145||Mapping microRNA gene regulatory network to understand its role in cervical cancer||Ashley Xavier|
|1145 - 1200||Disease Module Identification in Biological Networks||Beethika Tripathi|
|1200 - 1215||Understanding redundancies in metabolic networks through synthetic lethals||Omkar Mohite|
|1215 - 1230||Novel sequence-based and network-based approaches to predict essential genes across diverse organisms||Karthik Azhagesan|
|1230 - 1245||Binning of genes using optimisation||Malvika Sudhakar|
The first lecture of the IBSE Colloquium Series will be held on 3rd November, 2017. Prof. Victor de Lorenzo has kindly agreed to be the first speaker of this seminar series. Prof. de Lorenzo is an eminent scientist in the area of synthetic biology / environmental engineering, and his group has pioneered research using Pseudomonas putida for several biotechnological applications.
Robert Bosch Engineering and Business Solutions (RBEI) and IIT Madras today signed an MoU for establishing the Robert Bosch Centre for Data Science and Artificial Intelligence (RBC-DSAI). RBC-DSAI will undertake foundational research in various areas of AI and Data Science. IBSE / systems biology research has been a strong vertical at the erstwhile Interdisciplinary Laboratory for Data Sciences (ILDS); we hope this will give further fillip to IBSE activities!
The DBT award comprises two projects: Karthik Raman, B Ravindran and Raghunathan Rengaswamy: A computational pipeline for Identifying the Context of Key Mutations in Cancer Genomes Michael Gromiha and Suresh Rayala: Development of computational tools for analysis and prediction of disease-causing mutations
Venue: ICSR Hall IBSE Posters Predicting the Role of Diet and Gut Microbiota in Autism Identification of Disease Modules using Integrated Biological Networks A Graph-Theoretic Algorithm to Design Microbial Communities for Metabolic Engineering Understanding Cancer Expression Profiles using I-COMIC Pipeline
The 1st IBSE workshop will happen as part of the ILDS Workshop on Data Analytics on 5-Mar-2016. The IBSE session is from 11 am onwards, till 1 pm.
|0915 - 0930||Introduction to ILDS-IBSE activities||Dr. B Ravindran (CSE)|
|0930 - 1000||Bridge Correlational Neural Networks for Multilingual Multimodal Representation Learning||Janarthanan R (CSE)|
|1000 - 1030||Phase and Topology Identification in Smart Distribution Networks||Jayadev Satya P (EE)|
|1030 - 1100||Coffee Break|
|1100 - 1200||Integration and analysis of multi-omics data within metabolic network context||Dr. Swagatika Sahoo (ChE/IBSE)|
|1200 - 1230||Understanding cancer mutations in the context of their neighbourhoods||Abhishek Sivaram (ChE), Pallavi Gudipati (CSE)|
|1230 - 1300||Classification of genes as tumour suppressors and oncogenes||Maharishi R B (ED)|
|1300 - 1430||Lunch Break|