1 2019 STAT115 Lect2.1 Microarrays
2 2019 STAT115 Lect2.2 Quantile Normalization
3 2019 STAT115 Lect2.3 RMA
4 2019 STAT115 Lect2.4 RMA Demo
5 2019 STAT115 Lect4.1 Hierarchical Clustering
6 2019 STAT115 Lect4.2 K-means Clustering
7 2019 STAT115 Lect4.3 Batch Effect Correction
8 2019 STAT115 Lect4.4 Gene Ontology
9 2019 STAT115 Lect4.5 Gene Set Enrichment Analyses
10 2019 STAT115 Lect5.1 Unsupervised Learning
11 2019 STAT115 Lect5.2 Principal Component Analysis
12 2019 STAT115 Lect5.3 Logistic Regression
13 2019 STAT115 Lect5.4 Supervised Learning
14 2019 STAT115 Lect6.1 Sequencing
15 2019 STAT115 Lect6.2 FASTQC
16 2019 STAT115 Lect6.3 Blast and Suffix Tree / Array
17 2019 STAT115 Lect6.4 Burrows-Wheeler Alignment
18 2019 STAT115 Lect6.5 SAM, BAM, and BED Files
19 2019 STAT115 Lect7.1 Intro to RNA-seq
20 2019 STAT115 Lect7.2 RNA-seq QC
21 2019 STAT115 Lect7.3 RNA-seq Expression Index
22 2019 STAT115 Lect7.4 DESeq2
23 2019 STAT115 Lect8.1 Intro to scRNA-seq
24 2019 STAT115 Lect8.2 QC and Visualize scRNA-seq
25 2019 STAT115 Lect8.3 Cluster and Annotate scRNA-seq
26 2019 STAT115 Lect8.4 Differential Expression on scRNA-seq
27 2019 STAT115 Lect9.1 scRNA-seq Continued
28 2019 STAT115 Lect9.2 Gene Expression Module Summary
29 2019 STAT115 Lect9.3 Expression Analyses Case Studies
30 2019 STAT115 Lect10.1 Transcription regulation
31 2019 STAT115 Lect10.2 Motif Finding Using Expectation Maximization
32 2019 STAT115 Lect10.4 Gibbs Sampler Intuitions
33 STAT115 Chapter 10.5 Motif Conservation and Modules
34 2019 STAT115 Lect11.1 ChIP-seq
35 2019 STAT115 Lect11.2 ChIP-seq Peak Calling and QC
36 2019 STAT115 Lect11.3 ChIP-seq Motif Finding and Collaborating TFs
37 2019 STAT115 Lect11.4 ChIP-seq Target Identification
38 2019 STAT115 Lect12.1 Intro to Epigenetics
39 2019 STAT115 Lect12.2 DNA Methylation
40 2019 STAT115 Lect12.3 Analyses of DNA Methylome
41 2019 STAT115 Lect12.4 Nucleosome Positioning
42 2019 STAT115 Lect14.1 Chromatin Interaction HiC
43 2019 STAT115 Lect14.2 3D Genome Structure
44 2019 STAT115 Lect14.3 3D Genome Dynamics
45 2019 STAT115 Lect14.4 Gene Regulatory Network
46 2019 STAT115 Lect15.1 SNPs, LD and Haplotypes
47 2019 STAT115 Lect15.2 Association Studies
48 2019 STAT115 Lect15.3 Issues on GWAS Studies
49 2019 STAT115 Lect15.4 eQTL Analyses
50 2019 STAT115 Lect16.1 EWAS Annotate RSNPs
51 2019 STAT115 Lect16.2 Module II Summary
52 2019 STAT115 Lect16.3 Gene Regulation Case Studies
53 2019 STAT115 Lect17.1 Intro to Hidden Markov Model
54 2019 STAT115 Lect17.2 HMM Forward and Backward Procedures
55 2019 STAT115 Lect17.3 HMM Viterbi Algorithm
56 2019 STAT115 Lect18.1 Overview of Cancer Genetics
57 2019 STAT115 Lect18.2 Tumor Mutation Calling
58 2019 STAT115 Lect18.3 Annotating Tumor Mutations
59 2019 STAT115 Lect18.4 Test Driver Mutations
60 2019 STAT115 Lect19.1 Cancer Subtyping
61 2019 STAT115 Lect19.1 Cancer Subtyping
62 2019 STAT115 Lect19.2 Basic Survival Analysis
63 2019 STAT115 Lect19.3 Cancer Mutation Types and Distributions
64 2019 STAT115 Lect19.4 Cancer Genomics Resources
65 2019 STAT115 Lect20.1 Cancer Targeted Therapy
66 2019 STAT115 Lect20.2 Cancer Drug Resistance
67 2019 STAT115 Lect20.3 Overcome Drug Resistance
68 2019 STAT115 Lect20.4 Synthetic Lethality
69 2019 STAT115 Lect21.1 Introduction of Cancer Immunotherapy
70 2019 STAT115 Lect21.2 Neoantigen Presentation
71 2019 STAT115 Lect21.3 Tumor Immune Infiltration
72 2019 STAT115 Lect21.4 Tumor Immune Repertoires
73 2019 STAT115 Lect22.1 Tumor Immune Cell Activation
74 2019 STAT115 Lect22.3 CRISPR Screens
75 2019 STAT115 Lect23.1 CRISPR Screen Analyses
76 2019 STAT115 Lect23.2 Cancer Epigenetics and CIMP
77 2019 STAT115 Lect23.3 HDAC and 5-AZA in Cancer
78 2019 STAT115 Lect23.4 CRISPR Screen and Epigenetic Regulators of Cancer Drug Response
79 2019 STAT115 Lect23.5 Personalized Combination Cancer Therapy
80 2019 STAT115 Lect24.1 Module III Review
81 2019 STAT115 Lect24.2 Course Summary
82 2019 STAT115 Lect24.3 Final Review