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CSCI-4969/6969: Computational Biology, Spring 2019

Class: 10-11:50AM, TF, Low 4040
Instructor Office Hours: 12-1PM, TF


  • Feb 16: Assign3 posted. Due date 22nd Feb, before midnight.
  • Feb 7: Assign2 posted. Due date 15th Feb, before midnight.
  • Jan 18: Assign1 posted. Due date 25th Jan, before midnight.
  • Jan 3: Signup on Piazza for class discussion and Q&A.
  • Jan 3: Course website is up, with the calendar and syllabus.

Calendar & Readings

A tentative sequence of topics to be covered in the classes; changes are likely as the course progresses.

Day: Date Topic Readings Lecture Notes
F: Jan 11 Introduction I R1 Attach:intro.pptx
T: Jan 15 Introduction II & Sequence Alignment R1 Attach:lecture2.pdf
F: Jan 18 Sequence Alignment R2 Attach:lecture3.pdf
T: Jan 22 More Alignment R2 Attach:lecture4.pdf
F: Jan 25 Scoring Matrices & Multiple Sequence Alignment R3, R4 Attach:lecture5.pdf
T: Jan 29 Database Search R5 Attach:lecture6.pdf
F: Feb 1 Suffix Trees R6 Attach:lecture7.pdf
T: Feb 5 Genome Alignment, Suffix Arrays R7, R8 Attach:lecture8.pdf
F: Feb 8 Suffix Arrays and BWT R9 Attach:lecture9.pdf
T: Feb 12 BTW & Approximate Matching R10 Attach:lecture10.pdf
F: Feb 15 Motif Discovery R11 Attach:lecture11.pdf
T: Feb 19 NO CLASS (Monday Schedule)
F: Feb 22 HMMs
T: Feb 26 EXAM I
F: Mar 1 HMMs II
T: Mar 5 NO CLASS (spring break)
F: Mar 8 NO CLASS (spring break)
T: Mar 12 Neural Networks
F: Mar 15 Deep Learning
T: Mar 19 RNNs
F: Mar 22 LSTMs
T: Mar 26 CNNs
F: Mar 29 Phylogenetic Trees
T: Apr 2 Phylogenetic Trees II
F: Apr 5 Genome Rearrangements
T: Apr 9 Protein Structure
F: Apr 12 Protein Structure Prediction
T: Apr 16 Protein Structure Alignment
F: Apr 19 EXAM II
T: Apr 23 Project Presentations
F: Apr 26 Project Presentations
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Page last modified on February 16, 2019, at 01:09 PM