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Network-Based Discovery: Seeing the Forest for the Trees - Adventures with 82,000 Phenotypes
Published on Sep 21, 20161020 Views
Biological organisms are complex systems that are composed of pleiotropic functional networks of interacting molecules and macro-molecules. Complex phenotypes are the result of orchestrated, hierarchi
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Chapter list
Network-Based Discovery: Seeing the Forest for the Trees00:00
Experimental Data Types00:22
Results02:37
Populus: Linking genes to complex phenotypes02:58
Vectors across Two Different Types of Matrices03:41
Manhattan Plot03:55
Populus: Linking genes to complex phenotypes04:32
Network Theory: The Practical04:47
Co-evolution Networks: SNP Correlations05:57
Big data and high performance computing reveals the underlying biological signatures - 106:45
Big data and high performance computing reveals the underlying biological signatures - 207:15
Big data and high performance computing reveals the underlying biological signatures - 307:32
Targets of Interest: Gene Co-evolution Networks08:38
Gene Co-evolution Networks09:00
Big data and high performance computing reveals the underlying biological signatures - 410:16
Infrastructure10:52
GWAS Networks12:25
The use of GWAS networks13:01
Preliminary: GWAS-Profile Correlation13:18
GWAS-Profile Correlation Methods - 113:38
GWAS-Profile Correlation Methods - 213:54
GWAS-Profile Correlation Methods - 314:03
GWAS-Profile Correlation Methods - 414:04
GWAS-Profile Correlation Methods - 514:08
GWAS-Profile Correlation Methods - 614:09
GWAS-Profile Correlation Methods - 714:09
GWAS-Profile Correlation Methods - 814:09
GWAS Profile Network - 114:10
GWAS Profile Network - 214:32
GWAS Profile Network - 314:51
GWAS Profile Network - 415:02
GWAS Profile Network - 515:05
GWAS Profile Network - 615:30
GWAS Profile Network - 715:34
Lignin Focused Network16:52
Seed Subnetwork Creation - 117:28
Seed Subnetwork Creation - 218:03
Seed Subnetwork Creation - 318:20
Seed Subnetwork Creation - 418:23
Seed Subnetwork Creation - 518:24
Seed Subnetwork Creation - 618:24
Seed Subnetwork Creation - 718:27
Seed Subnetwork Creation - 918:47
Seed Subnetwork Creation - 1019:09
Seed Subnetwork Creation - 1120:04
Seed Subnetwork Creation - 1220:33
Seed Subnetwork Creation - 1320:46
Seed Subnetwork Creation - 1421:30
Seed Subnetwork Creation - 1522:10
Seed Subnetwork Creation - 1622:17
Seed Subnetwork Creation - 1722:24
Seed Subnetwork Creation - 1822:53
Seed Subnetwork Creation - 1923:12
Seed Subnetwork Creation - 2023:18
Seed Subnetwork Creation - 2123:23
Seed Subnetwork Creation - 2223:56
Seed Subnetwork Creation - 2324:46
Seed Subnetwork Creation - 2424:50
Seed Subnetwork Creation - 2525:11
Seed Subnetwork Creation - 2625:29
Seed Subnetwork Creation - 2725:45
Seed Subnetwork Creation - 2825:51
Seed Subnetwork Creation - 1925:59
Seed Subnetwork Creation - 3026:43
Seed Subnetwork Creation - 3127:34
Seed Subnetwork Creation - 3227:40
Seed Subnetwork Creation - 3327:49
Seed Subnetwork Creation - 3428:09
Gene Projection29:18
GAUT Integrated Phenotypes - 130:27
Creating new, expanded hypotheses Galacturonosyltransferase (GAUTs)30:39
GAUT Integrated Phenotypes - 230:54
GAUT11 pyMBMS Cluster - 131:01
pyMBMS Annotations31:20
GAUT11 pyMBMS Cluster - 231:55
Gene Annotations Associated with pyMBMS Cluster32:02
What about our friend DUF1118?32:34
GAUT11 pyMBMS Cluster - 332:39
GAUT11 pyMBMS Cluster - 432:44
Plant-Microbial Interfaces - 133:13
Plant-Microbial Interfaces - 233:29
Plant-Microbial Interfaces - 335:08
Testable hypotheses: Putative models unfold - 135:41
Testable hypotheses: Putative models unfold - 236:04
Testable hypotheses: Putative models unfold - 336:29
Background on Viruses36:43
Aim 1: Develop tools - 137:43
Aim 1: Develop tools - 237:56
Aim 1: Develop tools - 338:19
Microbes and Viruses Across the GWAS Population - 138:54
Microbes and Viruses Across the GWAS Population - 239:30
Receptor- Centric Network39:57
Virus and Bacteria Receptor Intersection40:12
Virus and Bacteria Intersection - 140:29
Virus and Bacteria Intersection - 240:57
Virus and Bacteria Intersection - 341:18
Endophytic Microbiome / Viriome Community Structure42:45
Focused Integrated Networks43:10
Future Work44:18
Phenologs - 144:31
Phenologs - 244:44
Phenologs - 345:01
Mining for Phenologous Patterns47:28
Neuroblastoma - 148:10
Human: Neuroblastoma Phenotype - 148:25
Human: Neuroblastoma Phenotype - 248:29
Poplar: Growth Phenotypes48:37
Poplar: Budflush, Developmental Phenotype48:42
Neuroblastoma - 248:55
Questions to explore50:41
3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics50:55
Scaling up Computational Biology to Address Biological Complexity: High Performance Computing52:20
Exascale Computing: 3-way Networks52:33
Exascale Computing: 4-way Networks52:43
CASBA Platform53:14
ORNL Supercomputing54:00
System-wide understanding of Complex Biological Systems54:18
Acknowledgements - 154:40
Acknowledgements - 254:55
Acknowledgements - 355:11
Funding55:27
Expanding55:32
Thank You55:44