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BT504 : Genomics and Proteomics

Course Overview

Course Synopsis

It is an introductory course where students get a basic knowledge on genomics and proteomics

Course Learning Outcomes

After complection of this course students will be able to

  • learn how genomics and proteomics application in biological research can benefit in solving the complex biological and biochemical processes regardless of the type of organism which is the model for the research.

Course Calendar

1Study of OmicsPPT
2Genomics, Proteomics and metabolomicsPPT
3Structure of RNAPPT
4DNA TranscriptionPPT
5Protein TranslationPPT
6Introduction to genomicsPPT
7Anatomy and organization of genomePPT
8Gene anatomyPPT
9Prokaryotic gene and eukaryotic genePPT
10Prokaryotic and Eukaryotic Expression differencePPT
11Gene families and Gene clustersPPT
12Types of Proteins and familiesPPT
13Genome InformaticsPPT
14Prokaryotic GenomePPT
15Eukaryotic GenomesPPT
16Epichromosomal elements (EEs)PPT
17Genome repeatsPPT
18Transposable Elements (TEs)PPT
19Eukaryotic Gene StructurePPT
20Comparative GenomicsPPT
Asignment 1
21Functional GenomicsPPT
22Structural genomicsPPT
23Comparative genomicsPPT
24Population GenomicsPPT
26Why sequence genomesPPT
27Genome characterization-technique usedPPT
28Genome analysis stepsPPT
29Benefits of Genomes researchPPT
30Genes and Sizes of GenomesPPT
31Viral GenomesPPT
32Bacterial genomesPPT
33Yeast genomePPT
34Mitochondrial genomePPT
35Genomes ComparisonPPT
36Comparing distantly and closely related speciesPPT
37Genome mappingPPT
38Genetic mapping of the GenomesPPT
39Physical mapping of the genomePPT
40Cytogenic mappingPPT
41FISH mappingPPT
42Restriction mapping of the genoomePPT
43Radiation hybrid mapping of the genomePPT
44Clone contig mapping of the genomePPT
45Generating Sequence of the genomesPPT
Graded Discussion Board (GDB)
46Human Genome ProjectPPT
47Human Genome Project- Hierarchical Short Gun sequencing approachPPT
48Human Genome Project- Whole Genome Short Gun sequencing approachPPT
49Characteristics of our Genome part 1PPT
50Characteristics of our Genome part 2PPT
51Genome Browsers UCSCPPT
52Genome Browsers ENSEMBLEPPT
53HGP ethical and legal issuesPPT
54Genome annotations Protein coding genesPPT
55genome annotations : transcription factorsPPT
56Arabidopsis GenomePPT
57Mouse genomePPT
58Comparison between mouse and human genomePPT
59Mapping of disease genesPPT
61Types of microarrayPPT
62Microarray FormatsPPT
65Microarray – ApplicationsPPT
66Types of RNA and RNomicsPPT
67Non coding DNAPPT
68Non coding RNAsPPT
70Biogenesis of miRNAPPT
71Functions of miRNAPPT
72Mode of action miRNAPPT
73Non coding RNA and X chromosome SilencingPPT
74RNA Induced Silencing ComplexPPT
Special Assignment (In lieu of Midterm examination)
76Dicer and DroshaPPT
77Design of siRNAPPT
78Applications of siRNAPPT
80Sequencing TechniquesPPT
81Automated SequencingPPT
82Shot Gun SequencingPPT
83Next Generation sequencing (NGS)PPT
84NGS PlatformsPPT
85454 PyrosequencingPPT
86Illumina SequencingPPT
87Ion Semiconductor sequencingPPT
883rd Generation SequencingPPT
89Helicose SequencingPPT
90Pacbio SequencingPPT
91Oxford Nanopore SequencingPPT
92Comparison of NGS methodsPPT
93Defining GenesPPT
94Finding GenesPPT
95Gene PredictionPPT
Assignment 2
96Genes predictions in prokaryotesPPT
97Gene Predictions in EukaryotesPPT
98GO functional AnalysisPPT
99Gene NetworksPPT
100ORF PredictionPPT
101ORF FindersPPT
102TSS PredictionPPT
103Prediction of Splice JunctionsPPT
104Prediction of ExonsPPT
105Genome AssemblyPPT
106Genome Assembly OverviewPPT
107Genome Assembly PlanningPPT
108Effect of RepeatsPPT
109Related species AssembledPPT
110Greedy Graph AlgorithmPPT
112Lander Waterman CurvePPT
113Assembly Pipeline1PPT
114Assembly Pipeline2PPT
115Quality of Assembled GenomePPT
117Overlap Layout ConsensusPPT
118De Bruijn GraphPPT
119De Bruijn Graph ExamplePPT
120Assembly IssuesPPT
Quiz 1
121Introduction to ProteomicsPPT
122Comparative ProteomicsPPT
123Between proteome comparisonPPT
124Proteomics Types and TechniquesPPT
125Characteristics of Human ProteomePPT
126Why is Proteomics importantPPT
127Importance of ProteinsPPT
128Chemical composition of proteinsPPT
129Primary structure of proteinsPPT
130Secondary structure of proteinsPPT
131alfa HelixPPT
132ß- Pleated SheetsPPT
133Tertiary Structure of ProteinsPPT
134Quaternary Structure of ProteinsPPT
135Life and Death of a ProteinPPT
136Proteins as Modular StructuresPPT
137Functional Protein FamiliesPPT
138Overview of Analytical ProteomicsPPT
139Extracting Proteins from Biological SamplesPPT
140Protein Separations Before DigestionPPT
141One-Dimensional SDS-PAGEPPT
142Two-Dimensional SDS-PAGEPPT
143Problems of 2D SDS-PAGEPPT
144Isoelectric FocusingPPT
145High-Performance Liquid ChromatographyPPT
146Protein Separations After DigestionPPT
147Tandem LC Approaches for Peptide AnalysisPPT
148Capillary Electrophoresis (CE)PPT
Final Examination
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