Ординатура / Хирургия / Библиотека им академика М.И. Перельмана / Книга_5529_Библиотеки_им_академика_М_И_Перельмана

Bioinformatics of Autoimmune Diseases

Autoimmune diseases arise when the immune system misidenties the body’s own tissues as threats, a catastrophic failure of self-recognition that leads to chronic inammation, tissue damage, and long-term disability. Bioinformatics of Autoimmune Diseases is a timely and comprehensive guide that explores not only the immunological basis of these disorders but also the cutting-edge bioinformatics approaches used to analyze the genomic, transcriptomic, and epigenomic data driv­ing modern discovery.

Structured to bridge foundational immunology with advanced computational analysis, this book offers readers a progression from the molecular mechanisms of immune function and dysfunction to the bioinformatics pipelines used to investigate them. Early chapters provide a thorough ground­ing in immune cell biology, immune checkpoints, and disease pathogenesis. Subsequent chapters guide readers through practical analyses of autoimmune disease data, covering RNA-Seq, variant analysis, microbiome proling, ATAC-Seq, ChIP-Seq, single-cell sequencing, and gene therapy and autoimmune diseases. Bioinformatics tools are introduced using Python with step-by-step work­ows, enabling hands-on engagement with real datasets.

Written by a professor of bioinformatics and developer of bioinformatics tools, the book draws from over a decade of broad experience in computational biology. With detailed illustrations, curated datasets, and a clear emphasis on reproducibility, it serves as a foundational resource for graduate students, clinicians, biomedical researchers, and anyone seeking to decode the bioinformatics foun­dations and mechanisms driving autoimmune disease.

Hamid D. Ismail is a bioinformatics scholar and research high-performance computing center administrator. His research bridges biology and computation, focusing on bioinformatics tools, dis­ease genomics, and machine learning. He is the author of several acclaimed textbooks that advance education and research in computational biology and genomics.

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Chapter 1 Immune Mechanisms and Major Autoimmune Diseases ............................................1

Chapter 2 Genetic Markers in Autoimmunity ............................................................................ 45

Chapter 3 Bioinformatics Design for Autoimmune Research ....................................................65

Chapter 4 Bioinformatics Databases........................................................................................... 98

Chapter 5 RNA Sequencing...................................................................................................... 164

This book, Bioinformatics of Autoimmune Diseases, is the culmination of that enduring ques­tion, a question that continues to shape my scientic path. Autoimmune diseases represent one of the most perplexing frontiers in biomedical science. They exist in the margins of immunology, genetics, and system biology, and defy easy explanations. Why does the immune system, so intri­cately evolved to protect us, turn against the body it is meant to defend? What determines who is aficted and who is spared? What are the genetic underpinnings, and can they be deciphered?

The inspiration to write this book also stems from the impact of my previous works—

This book is written for biologists who are new to programming, for medical researchers navi­gating the world of big data, for pharmacologists searching for new targets, and for data scientists exploring the genomic frontier. It is also written for those, like myself, who remain captivated by the mystery of life’s code and are driven by the thrill of its unraveling.