BIOL 620 Spring 2023 (4 credit), Fundamentals of Bioinformatics I & II, BIOL 620-Spring-2023 (4 credit) (2 students) *Graduate Class (Masters & Ph.D. Level) https://www.claflin.edu/ Claflin University, Orangeburg, South Carolina, United States of America. https://www.claflin.edu/academics-research/schools-departments/school-of-natural-sciences-and-mathematics/department-of-mathematics-computer-science/computer-science
January 19, 2023. Class Location: James S. Thomas (JST) Building 225, 400 Magnolia St, Claflin University, South Carolina, USA; Timings: Monday-Friday, 10AM-5PM.
This is the class content for BIOL 620. The GitHub link is Here
Bioinformatics:
Phylogenetic Analysis: https://youtu.be/IMIP4la-K84
https://youtu.be/UEsXMfE_7Rg Student Evaluations (2021-2026).
Semester class review: https://youtu.be/Pju8ecWWRAw
Github: https://github.com/spawar2/BTEC-620-Spring-2023
Bioinformatics (topics including Introduction to genomics/proteomics/bioinformatics, pairwise sequence alignment algorithms, scoring matrices, microarray analysis, phylogenetic analysis, bootstrapping, tree building, secondary & tertiary structure prediction, homology modeling, and protein folding)], visualization: heat maps, volcano plots, pie charts, Sequence alignments (Margaret Dayhoff, PAM, blossom scoring matrices, Data Visualization (BoxPlots, Scatter Plots), global & local alignment). Gene Expression Omnibus (GEO) datasets mining, Gene expression Microarray data analysis: Read, Pre-processing/Normalization (Affy, Oligo, Limma-RMA, Quantile, Mas5.0), Visualization: Heat maps, box plots, Fold change expression analysis, Gene Set Enrichment Analysis (GSEA), Pathways and protein downstream interactome analysis. Message-Digest Algorithm 5. File formats (Fasta, etc.). National Center for Biotechnology Information (NCBI) Basic Local Alignment Search Tool (BLAST) techniques, Sequence alignments (Margaret Dayhoff, PAM, Blossom scoring matrices, global & local alignment): https://youtu.be/Lx1jkr3UKwA
https://campuspress.yale.edu/shrikantpawar/files/2025/04/Phylogenetic-Analysis-300x217.png
https://campuspress.yale.edu/shrikantpawar/files/2025/04/Phylogenetic-tree.pdf
https://campuspress.yale.edu/shrikantpawar/files/2025/04/unrooted.pdf
https://campuspress.yale.edu/shrikantpawar/files/2025/04/sample.fasta_-300x69.png
All Videos
All Videos
WorldS4 2023
Madhuhas-Stanford-Testimonial
K-Fold Semi-Supervised-Video
