BMI 633_S21

Date

Title

Lecturer

Memo

Jan 25

What is bioinformatics?

Jin Chen

Term project announcement

Jan 27

Essentials of molecular biology

JC Jeong

Guest lecture

Feb 1

Sequence alignment 1: string matching, global alignment

Jin Chen

Feb 3

Sequence alignment 2: local alignment, BLAST 

Jin Chen

Feb 8

NGS 1: DNA-seq analysis pipeline

JC Jeong

Guest lecture

Feb 10

NGS 2: Burrows-Wheeler transform; BWA 

Jin Chen

Coursework 1 announcement

Feb 15

Metagenomics, DIAMOND; R tutorial Part 1

Jin Chen

Feb 17

Genome-wide association study; R tutorial Part 2

Jin Chen

Coursework 1 due

Feb 22

Genome-wide association study; PLINK lab-type application; R tutorial Part 3

Jin Chen

Feb 24

Genomics applications; R tutorial Part 4

Jin Chen

Mar 1

Essentials of molecular biology (RNA)

Jin Chen

Mar 3

Differential expression analysis 1: RSEM 

Jin Chen

Coursework 2 announcement

Mar 8

Differential expression analysis 2: Deseq2

Jin Chen

Mar 10

Differential expression analysis 3: Galaxy

Jin Chen 

Coursework 2 due

Mar 15

Gene set enrichment analysis; GSEA

JC Jeong

Guest lecture

Mar 17

Test prep review 

Jin Chen

Mar 22

Mid-term exam

Mid-term exam 

Mar 24

Differential expression analysis 4: non-coding RNA; miRDeep

Jin Chen

Term project explained

Mar 29

Single-cell RNAseq 1: cell type detection; Seurat

Jin Chen

Mar 31

Production NGS for clinical diagnostics

Cody Bumgardner

Coursework 3 announcement, Guest lecture

Apr 5

Single-cell RNAseq 2: cell trajectory; Monocle 

Jin Chen

Apr 7

Translational bioinformatics and precision medicine

TBD 

Coursework 3 due; Guest lecture

Apr 12

Single-cell RNAseq 3: reduce dimension and cell alignment

Jin Chen

Apr 14

Systems biology & Epigenetics

Jin Chen

Apr 19

Cancer genomics infrastructure

Eric Durbin

Guest lecture

Apr 21

Biological networks

Jin Chen

Coursework 4 announcement

Apr 26

Phenomics & exposome

Jin Chen

Apr 28

Cancer Genomics

Chi Wang

Guest lecture; Coursework 4 due on Nov 19

May 3

Radiogenomics

Jin Chen

May 5

Final project presentation

Write-up, presentation, and demonstration