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Lecture feedback
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L1 Intro: Biology, Algorithms, Machine Learning, Course Overview
L2 Alignment 1: Dynamic Programming, Global and local alignment
L3 Alignment 2: Database search, Rapid string matching, BLAST, BLOSUM
L4 Whole-Genome Comparative genomics: Evolutionary signatures, Duplication
L5 Genome Assembly: Consensus-alignment-overlap, Graph-based assembly
L6 Hidden Markov Models Part 1: Evaluation / Parsing, Viterbi/Forward algorithms
L7 Hidden Markov Models Part 2: PosteriorDecoding / Learning Baum Welch
L8 Structural RNAs: Fold prediction, genome-wide annotation
L9 Transcript structure analysis, Differential Expression, Significance Testing
L10 Expression analysis: Clustering and Classification, K-means, Naïve-Bayes
L11 Epigenomics: ChIP-Seq, Burrows-Wheeler alignment, Chromatin States
L12 Regulatory Motifs: Discovery, Representation, PBMs, Gibbs Sampling, EM
L13 Network Inference: Physical and functional networks, information integration
L14 The ENCODE Project: Systematic experimentation and integrative genomics
L15 Variation 1: Disease association mapping, GWAS, organismal phenotypes
L16 Variation 2: Quantitative trait mapping, eQTLs, molecular trait variation
L17 Phylogenetics: Molecular Evolution, Tree Building, Phylogenetic inference
L18 Phylogenomics: Gene/species trees, reconciliation, recombination graphs
L19 Missing Heritability, Complex Traits, Interpret GWAS, Rank-based enrichment
L20 Recent human evolution: Human history, human selection
L22 Personal Genomics, Disease Epigenomics: Systems approaches to disease
L23 Three-dimentional chromatin interactions: 3C, 5C, HiC, ChIA-Pet
L24 Pharmacogenomics: Network-based systems biology of drug response
L25 Synthetic Biology: Reading and writing genomes and cellular circuits
(0) General Comments
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(1) Topic
What's your interest level in the topic of the lecture (based mostly on the title of the lecture, regardless of the material actually presented)
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(1) Additional comments on the topic
Would you like to see it covered in future terms? Other related topics you'd like to see covered too / instead?
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(2) Material: Please rate your interest in the material actually presented on the topic
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(2) Please comment on the material presented
Do you feel that your interests in the topic were satisfied? What concept do you think was most/least interesting/useful/novel. What new knowledge / skills have you gained from the lecture?
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(3) Presentation: Please rate the quality with which the material was presented
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Quality of slides
Clarity of explanations
Usefulness of lecture notes
Were questions adequeately answered
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Quality of slides
Clarity of explanations
Usefulness of lecture notes
Were questions adequeately answered
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(3) Please comment on the presentation quality
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(4) Pace: Was the lecture appropriately paced
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3 = just right
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5 = too much
Difficulty of the material (1=too easy, 3=just right, 5=too hard)
Amount of material covered (1=too little, 3=just right, 5=too much)
Pace of the lecture (1=too slow, 3=perfect, 5=too fast)
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3 = just right
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5 = too much
Difficulty of the material (1=too easy, 3=just right, 5=too hard)
Amount of material covered (1=too little, 3=just right, 5=too much)
Pace of the lecture (1=too slow, 3=perfect, 5=too fast)
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(5) Comprehension
For each of the topics in the lecture outline, rate your overall comprehension level
<20%
20-40%
40-60%
60-80%
>80%
1st topic (see outline)
2nd topic (see outline)
3rd topic (see outline)
4th topic (if applicable)
5th topic (if applicable)
<20%
20-40%
40-60%
60-80%
>80%
1st topic (see outline)
2nd topic (see outline)
3rd topic (see outline)
4th topic (if applicable)
5th topic (if applicable)
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(5) Comprehension
What were the best and worst part of the lecture. What topics do you want to cover in recitation. Please provide any feedback
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