BIOL 6900 - Advanced Bioinformatics
Fall 2026 Syllabus, Section 01, CRN 41029,
Credit hours: 3
Course Meeting Times
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Instructor
Xiangjia Min
Professional Qualifications:
Ph. D., Plant Science, University of Hawaii Master’s, Software Systems, University of British Columbia Master’s, Plant Science, China Agricultural University Bachelor’s, Plant Science, Qingdao Agricultural University
Professor
Email: xmin@ysu.edu
Office: Ward Beecher 3014
Office Phone: Ward Beecher 3014
Additional Contact Methods:
Preferred Contact Method: Email is preferred for communications
Preferred Contact Method: Email
Communication Expectations:
Typically respond to email within 24 hours.
How to Refer to me:
Dr. Min
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Course Description
Course Readings
| Group | Title | Author | ISBN |
|---|---|---|---|
| Optional | Bioinformatics and Functional Genomics | Jonathan Pevsner | 978-1-118-58178-0 |
A textbook is optional, available in the Bioinformatics Lab.
Bioinformatics and Functional Genomics
By Jonathan Pevsner, 3rd Edition, WILEY-LISS 2015
Extra readings from recent publications will be available on Blackboard.
The course readings are subject to change in the event of extenuating circumstances, research developments, current events, and/or to ensure better learning.
Assignments/Assessments
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Schedule of Topics and Assignments
| Week of | Reading(s) | Proposed Topic | Due/To Prepare for Class |
|---|---|---|---|
| 8/25 | Chapter 1, 2 | Introduction; NCBI databases | |
| 9/1 | Chapter 3 | Pairwise sequence alignment | |
| 9/8 | Chaper 4, 5 | BLAST | |
| 9/15 | Chapter 6 | Multiple sequence alignment | |
| 9/22 | Chapter 7 | Molecular phylogeny and evolution | |
| 9/29 | Chapter 7 contunued | Molecular phylogeny and evolution (continued) | |
| 10/6 | Test 1. Chapter 9 | RNA | |
| 10/13 | Chapter 10; 11 | Gene expression; RNA-seq data analysis | |
| 10/20 | Chapter 12 | Protein analysis | |
| 10/27 | Chapter 13 | Protein structure and function | |
| 11/3 | Chapter 14 | Pathways and systems biology | |
| 11/10 | Review section 2 | Complete Gene/Protein Family Analysis Project Report | |
| 11/17 | Test 2. Section 3: Genome analysis | Gene prediction and genome annotation | |
| 11/24 | Genome analysis | Specific papers will be assigned | |
| 12/1 | Genome analysis (continued) | Specific papers will be assigned | |
| 12/8 | Final exam | Research report due |
The course schedule, policies, procedures, and assignments in this course are subject to change in the event of extenuating circumstances, by mutual agreement, and/or to ensure better learning.