1 |
9/3/15 |
Class overview |
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Lecture (pdf) |
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2 |
9/8/15 |
Introduction to Network Biology |
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Lecture (powerpoint) |
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|
9/10/15 |
Expression-based network inference |
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Lecture (pdf till slide 33) |
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3 |
9/15/15 |
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Lecture (pdf from slide 34) |
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|
9/17/15 |
Integrative network reconstruction |
Prior-based data integration |
slides Lecture/Discussion |
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4 |
9/22/15 |
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Physical module networks |
slides Lecture/Discussion |
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9/24/15 |
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MEDUSA MouseNET/BioPixie |
slides Discussion |
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5 |
9/29/15 |
Dynamics and context-specificity in networks |
Active subgraphs |
slides Discussion |
Critique 1 |
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10/1/15 |
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Dynamic Bayesian networks |
slides Discussion |
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6 |
10/6/15 |
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DREM/SDREM |
Guest lecture by Prof. Anthony Gitter |
Proposal due |
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10/8/15 |
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SMARTS |
slides Discussion |
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7 |
10/13/15 |
Network comparisons |
PathBlast |
slides Discussion |
Critique 2 |
|
10/15/15 |
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IsoRank |
slides Discussion |
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8 |
10/20/15 |
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LocalAli |
slides Discussion |
Final Proposal due |
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10/22/15 |
Data integration using networks |
Simultaneous clustering of multiple networks |
slides Discussion |
Critique 3 |
9 |
10/27/15 |
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Similarity Network Fusion |
slides Discussion |
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|
10/29/15 |
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Prize collecting Steiner tree |
slides Discussion |
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10 |
11/3/15 |
Clustering/Modules in networks |
MATISSE |
slides Discussion |
Critique 4 |
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11/5/15 |
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Hierarchical Agglomerative Clustering |
slides Discussion |
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11 |
11/10/15 |
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DICER |
slides Discussion |
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11/12/15 |
Perturbations in networks |
Nested Effect models |
slides Lecture/Discussion |
Critique 5 |
12 |
11/17/15 |
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Dendrix |
slides Discussion |
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|
11/19/15 |
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Dysregulated pathways |
slides Discussion |
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13 |
11/24/15 |
Networks for gene prioritization |
Random walk |
slides Lecture/Discussion |
Critique 6 |
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11/26/15 |
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Thanksgiving |
No class |
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14 |
12/1/15 |
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Active Learning |
slides Discussion |
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12/3/15 |
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GeneMania |
slides Discussion |
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15 |
12/8/15 |
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Project presentations |
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Critique 7 |
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12/10/15 |
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Project presentations |
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16 |
12/15/15 |
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Project presentations |
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12/18/15 |
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Final Report Due by Email |