Dersin Adı Dersin Seviyesi Dersin Kodu Dersin Tipi Dersin Dönemi Yerel Kredi AKTS Kredisi Ders Bilgileri
FUNDAMENTALS OF IMMUNOLOGY İkinci Düzey BIOL 627 1 7.50 7.50 Yazdır
   
Dersin Tanımı
Ön Koşul Dersleri Non
Eğitimin Dili English
Koordinatör PROF. DR. ABDURRAHMAN AYVAZ
Dersi Veren Öğretim Eleman(lar)ı PROF. DR. ABDURRAHMAN AYVAZ
Yardımcı Öğretim Eleman(lar)ı -
Dersin Veriliş Şekli The pedagogical approach for this theoretical PhD-level course will heavily emphasize critical analysis and seminar-style discussion over conventional lectures, aiming to cultivate students'' research and intellectual autonomy. The core method will be the Paper-Driven Discussion, where each weekly topic requires students to critically read and present a seminal or high-impact research article. Presentations must transcend simple summarization, focusing instead on analyzing the underlying hypotheses, evaluating the experimental design and techniques (e.g., flow cytometry, bulk/single-cell sequencing) used to obtain the data, and assessing the results'' impact on the field of immunology. To sharpen critical thinking, sessions will incorporate the "Devil''s Advocate" technique, challenging widely accepted findings and forcing students to defend immunological concepts using only scientific evidence and data. Finally, to bridge theory and application, the course culminates in a Grant Proposal Exercise, where students will utilize their accumulated theoretical knowledge to design and write a mock research proposal on a cutting-edge immunological question, directly preparing them for future academic or industry research careers.
Dersin Amacı The overarching goal of the "Fundamentals of Immunology" course is to furnish doctoral candidates with an advanced, comprehensive, and critically informed understanding of the immune system''s intricate molecular and cellular mechanisms. Upon successful completion, students will be equipped to analyze complex mechanisms, developing a deep understanding of the interplay between innate and adaptive immunity, including signaling pathways, receptor-ligand interactions, and the genetic underpinnings of immunological diversity (e.g., V(D)J recombination). A primary objective is to empower students to critically evaluate primary research literature, enabling them to dissect high-impact articles, assess experimental rigor, and interpret data within the broader scientific context. Furthermore, the course aims to foster the ability to connect theory to human pathophysiology, relating fundamental concepts to the pathogenesis of infectious diseases, autoimmunity, and cancer. Ultimately, this course is designed to transition students from knowledge consumers to independent researchers by challenging them to formulate novel, testable research hypotheses and experimental strategies, as demonstrated through the culminating Grant Proposal exercise.
Dersin Tanımı This PhD-level course, "Fundamentals of Immunology," offers an intensive, theoretically grounded exploration into the molecular and cellular foundations of the immune system. The curriculum is structured to dissect the intricate mechanisms governing innate and adaptive immunity, covering topics from pathogen recognition receptors, MHC structure , T and B cell development, and immunological tolerance, to the immunopathology of hypersensitivity, autoimmunity, and cancer, including modern immunotherapies like CAR T-cell therapy . The methodology is centered on critical evaluation and seminar-style discussion of seminal research literature, moving beyond basic textbook knowledge. Students will develop advanced analytical skills to interpret complex experimental data and are required to apply their knowledge by preparing a culminating research-oriented Grant Proposal, ensuring they transition from passive knowledge consumers to active, critically-thinking researchers ready to engage with the forefront of immunological science.

Dersin İçeriği
1 Introduction to the Immune System: This week establishes the foundational principles of immunology, tracing its historical context and differentiating between the two pillars of defense: the Innate and Adaptive immune systems. The core focus is on identifying the essential cells (e.g., lymphocytes, phagocytes), tissues, and organs that constitute the immune architecture, setting the stage for subsequent deep dives into molecular mechanisms.
2 Innate Immunity I (Cellular Components): The focus shifts to the immediate, non-specific line of defense, exploring the critical roles of cellular components. We will study the mechanisms of phagocytosis by macrophages and neutrophils, and the functions of Dendritic Cells and Natural Killer (NK) cells. A major emphasis is placed on how these cells utilize Pattern Recognition Receptors (PRRs), such as Toll-Like Receptors (TLRs), to recognize conserved microbial structures (PAMPs/DAMPs).
3 Innate Immunity II (Molecular Components & Inflammation): Building on the cellular mechanisms, this session analyzes the soluble components of innate immunity. Key attention is given to the Complement system (classical, lectin, and alternative pathways) and its biological effects, alongside an in-depth study of cytokines and chemokines—their classification, receptor signaling, and their central role in regulating the acute inflammatory response.
4 Antigens and Antigen Presentation: This week is crucial for understanding the transition to adaptive immunity, defining the characteristics of antigens (immunogenicity vs. antigenicity). The primary topic is the structure, function, and importance of the Major Histocompatibility Complex (MHC) I and MHC II molecules in processing and presenting peptide fragments to T lymphocytes, highlighting the constraint of T-cell recognition.
5 T-Cell Development and TCR Structure: We explore the fascinating process of T-lymphocyte development in the thymus, including the selection mechanisms (positive and negative selection) that shape the T-cell repertoire. Detailed analysis is given to the structure of the T-Cell Receptor (TCR) and the complex genetic process of V(D)J recombination that generates immense diversity.
6 B-Cell Development and Antibody Structure: This session focuses on B-lymphocyte development in the bone marrow and the creation of the humoral immune response. Students will dissect the structure of Immunoglobulins (Antibodies), their diverse functions, and the mechanisms of V(D)J recombination, somatic hypermutation, and class switching that produce highly specific and diverse antibody isotypes.
7 T-Cell Activation and Differentiation: The activation of T-cells is examined through the three-signal model (TCR engagement, co-stimulation, and cytokine environment). The main focus is on the differentiation pathways of Helper T (T H ​ ) cells into distinct subsets (T H ​ 1,T H ​ 2,T H ​ 17,T reg ​ ), and the mechanisms employed by Cytotoxic T Lymphocytes (CTLs) to induce target cell death.
8 B-Cell Activation and Humoral Immunity: This week covers the full spectrum of B-cell activation, contrasting T-dependent and T-independent responses. The lecture will detail the dynamics of germinal center reactions, including affinity maturation and the formation of long-lived memory B cells and antibody-secreting plasma cells, cementing the concept of humoral memory.
9 Immunological Tolerance and Regulation: A critical topic, this session explores how the immune system avoids attacking self-tissues. We examine the mechanisms of central and peripheral tolerance, emphasizing the essential regulatory role of T reg ​ cells. The molecular underpinnings of immune system dampening, including Immune Checkpoints and inhibitory receptors, will be discussed.
10 Immunity to Pathogens (Infection Immunology): This session applies acquired knowledge to real-world threats, detailing the distinct immune responses required to control viruses, bacteria, fungi, and parasites. Crucial attention is paid to the sophisticated immune evasion mechanisms utilized by pathogens and the immunological principles guiding successful vaccine development and efficacy.
11 Immunopathology: Autoimmunity and Immunodeficiency: This week covers dysregulated immune function, examining the genetic and environmental factors contributing to autoimmunity and reviewing key autoimmune disorders (e.g., Lupus, Type 1 Diabetes). The session also analyzes the causes and consequences of primary and secondary immunodeficiencies (e.g., AIDS).
12 Hypersensitivity and Allergy: We delve into the concept of pathological immune responses, classifying the four types of Hypersensitivity reactions (Type I, II, III, IV) and their molecular basis. The focus includes the immunopathology of allergy, examining the role of mast cells, IgE, and therapeutic immunological approaches.
13 Tumor Immunology and Immunotherapy: The dynamic relationship between the immune system and cancer is explored, focusing on immunosurveillance and the suppressive nature of the tumor microenvironment. The scientific principles behind modern immunotherapy strategies are thoroughly examined, including Checkpoint Inhibitors and the development of CAR T-cell therapy
14 Transplantation Immunology and Future Directions: The final session focuses on the fundamentals of transplantation immunology, detailing types of graft rejection and the mechanisms of immunosuppressive therapies. The week concludes by exploring cutting-edge and emerging research areas, such as mucosal immunity, the interaction between the microbiota and the immune system, and technological advancements shaping the future of the field.
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Dersin Öğrenme Çıktıları
1 Upon successful completion of this PhD course, students will be able to demonstrate a mastery of advanced immunological concepts and critical analysis skills. Specifically, students will be able to: Differentiate and articulate the complex, collaborative signaling pathways between innate and adaptive immune components;
2 Analyze the molecular mechanisms, including V(D)J recombination, that underpin the vast diversity of the T-cell and B-cell receptor repertoires;
3 Critically evaluate the structural and functional differences between MHC Class I and II molecules and their roles in antigen presentation;
4 Evaluate the differentiation and regulatory functions of key T-cell subsets, notably T H1,T H2,TH17, and T reg cells, and their impact on pathology; (
5 Interpret complex data from seminal immunology publications, assessing the rigor of experimental design and the validity of scientific conclusions;
6 Explain the mechanisms of central and peripheral tolerance and how their failure leads to specific autoimmune diseases;
7 Identify and contrast the immune evasion strategies used by major classes of pathogens (viruses, bacteria, fungi) against host immunity;
8 Detail the immunopathology of hypersensitivity reactions and design rational immunological therapeutic approaches;
9 Analyze the principles behind modern cancer immunotherapy, including checkpoint blockade and the steps involved in CAR T-cell therapy
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*Dersin Program Yeterliliklerine Katkı Seviyesi
1 mesleki rol ve işlevlerini yerine getirmek için gerekli kuramsal ve uygulama bilgilerine sahiptir.
2 Mesleki etik ilke ve değerlere uygun davranır
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Yıldızların sayısı 1’den (en az) 5’e (en fazla) kadar katkı seviyesini ifade eder

Planlanan Öğretim Faaliyetleri, Öğretme Metodları ve AKTS İş Yükü
  Sayısı Süresi (saat) Sayı*Süre (saat)
Yüz yüze eğitim 14 3 42
Sınıf dışı ders çalışma süresi (ön çalışma, pekiştirme) 14 4 56
Ödevler 2 8 16
Sunum / Seminer hazırlama 0 0 0
Kısa sınavlar 2 4 8
Ara sınavlara hazırlık 1 10 10
Ara sınavlar 1 3 3
Proje (Yarıyıl ödevi) 1 20 20
Laboratuvar 0 0 0
Arazi çalışması 0 0 0
Yarıyıl sonu sınavına hazırlık 1 15 15
Yarıyıl sonu sınavı 1 3 3
Araştırma 1 15 15
Toplam iş yükü     188
AKTS     7.50

Değerlendirme yöntemleri ve kriterler
Yarıyıl içi değerlendirme Sayısı Katkı Yüzdesi
Ara sınav 1 30
Kısa sınav 2 40
Ödev 1 30
Yarıyıl içi toplam   100
Yarıyıl içi değerlendirmelerin başarıya katkı oranı   40
Yarıyıl sonu sınavının başarıya katkı oranı   60
Genel toplam   100

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