A New Kind of Computational Biology

· The book is a self contained introduction of Cellular Automata (CA) and its applications on modeling of biological strings, proposing a 'New Kind of Computational Biology'. Book readership will cover students, academic researchers and industry practitioners of Computer Science and Computational Biology exploring new and innovative ways to address the challenges in Computational Biology. The methods and results reported are compilation of academic and industry challenges currently facing the world of Bioinformatics. Emphasis has been directed to the plethora of applications in the drug design and bio-molecule industry, the authors have been exposed to with their startup, CARLBio besides the academic and research flavour for this book. The algorithms are presented to ensure that a reader with basic knowledge of Computer programming and Biology can implement the steps in a 'Do It Yourself" approach. Executable programs for major modules will be hosted in Springer's Web Site. It will enable students to develop their own research projects. Even though the book is focused on CA based Computational Biology, the authors with multidisciplinary domain exposure have ensured that readers can employ CA methodologies and models for the study of different application domains of their interest. As the book proposes a new kind of computational biology, efforts have been directed to report the methods in a descriptive fashion, to ensure that the readership expands to cover the researchers and practitioners interested to advance and explore beyond what is presented in the book.

Proposes a New Kind of Computational Biology Takes us through A detailed journey and history of creating models of physical world systems in Physics, Chemistry and Biology Proposes Cellular Automata models of DNA, different types of RNAs, the translation and transcription processes Addresses the most challenging task to design a system for imprecise data with limited quality training set which is commonly seen in the biological world

Auteur

Prof Parimal Pal Chaudhuri is the Chief Scientific Officer and Founder of CARLBio. He is a renowned academician and researcher on Cellular Automata for over 30 years. He started his career at IBM back in the early 60's and shifted to academia in the mid 70's where he founded the Computer Science Department of Indian Institute of Technology (IIT) Kharagpur. He was the Head of Department for several years where he pioneered industry-academia research in India and initiated the research in Cellular Automata. He was a Visiting Research Professor at Intel Research Labs, Oregon, USA where his CA research was applied in testing of asynchronous circuits of Intel chips. On his return to India, he joined his alma mater, Bengal Engineering and Science University where he continued his CA research focusing on end applications in partnership with several MNCs. He held several assignments on sabbaticals - as a consultant to Cadence Design Systems and as a Visiting Professor at University of Illinois, Urbana Champaign, USA. He has supervised research of 20 Ph D students, authored 2 books and over 200 research publications. He is a Fellow of National Academy of Engineers (India) and was awarded the Thomas Ward Memorial Gold Medal by Institution of Engineers (India).

Soumyabrata Ghosh is the Founder & Director of Research at CARLBio. He received his PhD degree from IIEST (Indian Institute of Engineering Science and Technology, Shibpur, formerly Bengal Engineering and Science University ). He did his MSc in Biophysics and Bioinformatics from University of Calcutta. He has more than 10 years of industrial experience in the field of data analytics, machine learning, and computational biology. His research interest includes predictive analytics, cognitive computing and AI.

Adip Dutta is a Senior Researcher at CARLBio. For more than thirty-three years, Adip Dutta has worked in diverse domains - developing algorithms, smart devices,sensor networks, power conversion, automation, motion control and instrumentation. Adip was DRDO (Defence Research and Development Organization) Scientist for several years working on high power LASER systems, thermal Imaging and optimal control algorithms. He worked with Raman Research Institute and ISRO (Indian Space Research Organization). Adip was the chief of R&D division in National Instruments and was Senior architect in the advanced technology division of Portalplayer, the designer of the first SOC used in Apple's iPOD. He was the Chief Knowledge Officer of Hamilton Research and was a Research Consultant to nComputing Inc. USA. Since 2012 he is associated with the development of CA applications in biology pioneered by CARLBio. He completed his graduation in Physics in 1982 and B Tech (1985) in Electronics.

Somshubhro (Som) Pal Choudhury is an investor, advisor and director at CARLBio. He is a Partner at Bharat Innovations Fund, a $100M fund focused on building disruptive and innovation led startups out of India. He is a thought leader in Internet of Things (IoT) space, formerly a board and executive council member of India Electronics and Semiconductor Association (IESA), co-founder and co-chair of India's premier IoT event, IoTNext and ecosystem building initiative, IoTForum. Som was previously the Managing Director for Analog Devices India, wholly owned subsidiary of a US based $3.5B semiconductor MNC, Analog Devices. He was based for almost 2 decades in Silicon Valley in various roles: Global Director of Product Mgmt and Marketing of Consumer Business Unit at NETGEAR, first employee of an early M2M/IoT company in the energy management and Smart grid space, American Grid and held several management and engineering roles at Cadence Design Systems. He is a Wharton-UPenn MBA, and engineering degrees from Indian Institute of Technology (IIT) Kharagpur and North Carolina State University.

Contenu

Chapter 1. Introduction to Biological Strings and Cellular Automata Preliminaries.- Chapter 2. Cellular Automata Modelling for Biological Strings.- Chapter 3. Codon String of mRNA Modelled with Cellular Automata.- Chapter 4. Developing the Cellular Automata Model for a Peptide Chain of Amino Acids.- Chapter 5. In-silico Protein Structure Synthesis and its Relevance in Biological Functions.- Chapter 6. Analysis of DNA String with Cellular Automata Framework.