Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

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8.5 Target Prediction Ensemble Analysis Results Table 8.3: All combinations <strong>of</strong> prediction algorithms in descending order <strong>of</strong> E-score. The Escores for the single algorithms are also present and highlighted along the list in bold characters. Prediction algorithms involved in the combination set E-score ElMMo 0.3181 ElMMo PicTar6 0.3173 ElMMo PicTar5 0.3162 ElMMo miRBase 0.3160 Diana-microT ElMMo 0.3159 Diana-microT ElMMo PicTar6 0.3155 ElMMo PicTar5 PicTar6 0.3155 ElMMo miRBase PicTar6 0.3154 Diana-microT ElMMo PicTar5 0.3148 Diana-microT ElMMo miRBase 0.3147 ElMMo miRBase PicTar5 0.3145 Diana-microT ElMMo PicTar5 PicTar6 0.3144 ElMMo TargetscanS 0.3144 Diana-microT ElMMo miRBase PicTar6 0.3143 ElMMo miRBase PicTar5 PicTar6 0.3139 ElMMo PicTar6 TargetscanS 0.3139 Diana-microT ElMMo TargetscanS 0.3138 Diana-microT ElMMo miRBase PicTar5 0.3137 Diana-microT ElMMo PicTar6 TargetscanS 0.3135 Diana-microT ElMMo miRBase PicTar5 PicTar6 0.3134 ElMMo PicTar5 TargetscanS 0.3133 ElMMo miRBase TargetscanS 0.3132 Diana-microT ElMMo miRBase TargetscanS 0.3130 Diana-microT ElMMo PicTar5 TargetscanS 0.3130 ElMMo miRBase PicTar6 TargetscanS 0.3129 ElMMo PicTar5 PicTar6 TargetscanS 0.3129 Diana-microT ElMMo miRBase PicTar6 TargetscanS 0.3127 Diana-microT ElMMo PicTar5 PicTar6 TargetscanS 0.3127 ElMMo miRBase PicTar5 TargetscanS 0.3123 Diana-microT ElMMo miRBase PicTar5 TargetscanS 0.3123 Diana-microT 0.3122 ElMMo PITA 0.3122 Diana-microT ElMMo PITA 0.3122 Diana-microT ElMMo miRBase PicTar5 PicTar6 TargetscanS 0.3121 ElMMo PITA PicTar6 0.3120 Diana-microT ElMMo PITA PicTar6 0.3120 ElMMo miRBase PicTar5 PicTar6 TargetscanS 0.3120 Diana-microT ElMMo miRBase PITA 0.3118 Diana-microT ElMMo PITA PicTar5 0.3118 ElMMo miRBase PITA 0.3117 ElMMo PITA PicTar5 0.3117 Diana-microT ElMMo miRBase PITA PicTar6 0.3116 Diana-microT ElMMo PITA PicTar5 PicTar6 0.3116 ElMMo miRBase PITA PicTar6 0.3115 ElMMo PITA PicTar5 PicTar6 0.3115 Diana-microT ElMMo PITA TargetscanS 0.3115 ElMMo PITA TargetscanS 0.3114 Diana-microT ElMMo PITA PicTar6 TargetscanS 0.3114 Diana-microT ElMMo miRBase PITA PicTar5 0.3113 Diana-microT PicTar6 0.3113 ElMMo PITA PicTar6 TargetscanS 0.3113 ElMMo miRBase PITA PicTar5 0.3112 Diana-microT ElMMo miRBase PITA PicTar5 PicTar6 0.3112 Diana-microT ElMMo miRBase PITA TargetscanS 0.3112 Diana-microT ElMMo PITA PicTar5 TargetscanS 0.3112 ElMMo miRBase PITA PicTar5 PicTar6 0.3110 ElMMo miRBase PITA TargetscanS 0.3110 ElMMo PITA PicTar5 TargetscanS 0.3110 Diana-microT ElMMo miRBase PITA PicTar6 TargetscanS 0.3110 Diana-microT ElMMo PITA PicTar5 PicTar6 TargetscanS 0.3110 ElMMo PITA PicTar5 PicTar6 TargetscanS 0.3109 Diana-microT ElMMo miRBase PITA PicTar5 TargetscanS 0.3108 ElMMo miRBase PITA PicTar6 TargetscanS 0.3108 Diana-microT ElMMo miRBase PITA PicTar5 PicTar6 TargetscanS 0.3107 Diana-microT ElMMo miRanda 0.3106 ElMMo miRBase PITA PicTar5 TargetscanS 0.3106 ElMMo miRBase PITA PicTar5 PicTar6 TargetscanS 0.3105 Diana-microT ElMMo miRanda PicTar6 0.3104 Diana-microT miRBase 0.3100 ElMMo miRanda 0.3100 Diana-microT ElMMo miRBase miRanda 0.3100 Diana-microT PicTar5 0.3100 216
8.5 Target Prediction Ensemble Analysis Results Prediction algorithms involved in the combination set E-score Diana-microT ElMMo miRanda PicTar5 0.3100 Diana-microT ElMMo miRanda TargetscanS 0.3099 Diana-microT ElMMo miRanda PITA 0.3098 Diana-microT ElMMo miRBase miRanda PicTar6 0.3098 Diana-microT ElMMo miRanda PicTar5 PicTar6 0.3098 Diana-microT TargetscanS 0.3098 Diana-microT ElMMo miRanda PicTar6 TargetscanS 0.3098 Diana-microT PITA 0.3097 ElMMo miRanda PicTar6 0.3097 Diana-microT ElMMo miRanda PITA PicTar6 0.3097 Diana-microT ElMMo miRBase miRanda PITA 0.3095 Diana-microT ElMMo miRBase miRanda PicTar5 0.3095 Diana-microT ElMMo miRanda PITA PicTar5 0.3095 Diana-microT PITA PicTar6 0.3095 Diana-microT ElMMo miRBase miRanda TargetscanS 0.3095 Diana-microT ElMMo miRanda PITA TargetscanS 0.3095 Diana-microT ElMMo miRanda PicTar5 TargetscanS 0.3095 Diana-microT PicTar6 TargetscanS 0.3095 ElMMo miRanda PITA 0.3094 Diana-microT miRBase PicTar6 0.3094 Diana-microT ElMMo miRBase miRanda PITA PicTar6 0.3094 Diana-microT PicTar5 PicTar6 0.3094 Diana-microT ElMMo miRanda PITA PicTar5 PicTar6 0.3094 Diana-microT ElMMo miRBase miRanda PicTar6 TargetscanS 0.3094 Diana-microT ElMMo miRanda PITA PicTar6 TargetscanS 0.3094 Diana-microT ElMMo miRanda PicTar5 PicTar6 TargetscanS 0.3094 ElMMo miRBase miRanda 0.3093 ElMMo miRanda PicTar5 0.3093 ElMMo miRanda PITA PicTar6 0.3093 Diana-microT ElMMo miRBase miRanda PicTar5 PicTar6 0.3093 ElMMo miRanda TargetscanS 0.3093 Diana-microT miRBase PITA 0.3092 Diana-microT PITA PicTar5 0.3092 Diana-microT ElMMo miRBase miRanda PITA PicTar5 0.3092 Diana-microT PITA TargetscanS 0.3092 Diana-microT ElMMo miRBase miRanda PITA TargetscanS 0.3092 Diana-microT ElMMo miRanda PITA PicTar5 TargetscanS 0.3092 ElMMo miRanda PicTar6 TargetscanS 0.3092 Diana-microT ElMMo miRBase miRanda PITA PicTar6 TargetscanS 0.3092 Diana-microT ElMMo miRanda PITA PicTar5 PicTar6 TargetscanS 0.3092 ElMMo miRBase miRanda PITA 0.3091 ElMMo miRanda PITA PicTar5 0.3091 ElMMo miRBase miRanda PicTar6 0.3091 ElMMo miRanda PicTar5 PicTar6 0.3091 Diana-microT ElMMo miRBase miRanda PITA PicTar5 PicTar6 0.3091 ElMMo miRanda PITA TargetscanS 0.3091 Diana-microT ElMMo miRBase miRanda PicTar5 TargetscanS 0.3091 Diana-microT PITA PicTar6 TargetscanS 0.3091 Diana-microT miRBase PITA PicTar6 0.3090 ElMMo miRBase miRanda PITA PicTar6 0.3090 Diana-microT PITA PicTar5 PicTar6 0.3090 ElMMo miRanda PITA PicTar5 PicTar6 0.3090 Diana-microT ElMMo miRBase miRanda PITA PicTar5 TargetscanS 0.3090 ElMMo miRanda PITA PicTar6 TargetscanS 0.3090 Diana-microT ElMMo miRBase miRanda PicTar5 PicTar6 TargetscanS 0.3090 Diana-microT ElMMo miRBase miRanda PITA PicTar5 PicTar6 TargetscanS 0.3089 PITA 0.3088 ElMMo miRBase miRanda PITA PicTar5 0.3088 Diana-microT miRBase TargetscanS 0.3088 ElMMo miRBase miRanda TargetscanS 0.3088 Diana-microT miRBase PITA TargetscanS 0.3088 ElMMo miRBase miRanda PITA TargetscanS 0.3088 Diana-microT PicTar5 TargetscanS 0.3088 ElMMo miRanda PicTar5 TargetscanS 0.3088 Diana-microT PITA PicTar5 TargetscanS 0.3088 ElMMo miRanda PITA PicTar5 TargetscanS 0.3088 ElMMo miRBase miRanda PicTar5 0.3087 Diana-microT miRBase PITA PicTar5 0.3087 ElMMo miRBase miRanda PITA PicTar5 PicTar6 0.3087 ElMMo miRBase miRanda PicTar6 TargetscanS 0.3087 Diana-microT miRBase PITA PicTar6 TargetscanS 0.3087 ElMMo miRBase miRanda PITA PicTar6 TargetscanS 0.3087 ElMMo miRanda PicTar5 PicTar6 TargetscanS 0.3087 Diana-microT PITA PicTar5 PicTar6 TargetscanS 0.3087 217
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Transcriptional Characterization of
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This dissertation is my own work an
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Acknowledgements I would like to th
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5.9 External Dataset Expression Cor
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Introduction 1
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1.1 Glial Cells in the Central Nerv
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1.2 Glioblastoma Multiforme Introdu
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1.3 Primary and Secondary Glioblast
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1.4 Pathways Involved in Glioblasto
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1.5 Pathway Crosstalk Introduction
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Chapter 2 Neurogenesis Contents 2.1
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2.1 Radial Glia Introduction VZ adj
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2.2 Neural Stem Cells Introduction
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Chapter 3 Brain Cancer Stem Cells C
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3.1 The Cancer Stem Cell Hypothesis
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3.1 The Cancer Stem Cell Hypothesis
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3.2 Brain Cancer Stem Cells Introdu
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3.3 Glioma Culture Systems Introduc
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Chapter 4 The Non-Coding RNA World
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4.1 MicroRNA regulation Introductio
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4.1 MicroRNA regulation Introductio
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4.2 Target Prediction and Validatio
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Methods 93
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5.1 Tag-sequencing Data Processing
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5.1 Tag-sequencing Data Processing
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5.2 Array Comparative Genomic Hybri
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5.4 Quantitative Real Time-PCR Vali
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5.5 Literature Mining Methods Figur
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5.5 Literature Mining Methods How m
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5.6 Differential Isoform Expression
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5.9 External Dataset Expression Cor
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5.10 Glioblastoma Pathway Construct
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5.11 MicroRNA Target Prediction Ana
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Results 119
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6.2 Tag mapping Results Table 6.1:
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6.2 Tag mapping Results 123 Figure
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6.3 Copy Number Aberrations Results
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6.3 Copy Number Aberrations Results
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6.4 Core Differentially Expressed G
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6.5 Large-scale qRT-PCR Validation
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6.6 Literature Mining for Different
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6.7 Isoform Differential Expression
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6.8 Long ncRNA Differential Express
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6.8 Long ncRNA Differential Express
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Chapter 7 Dataset Correlation Analy
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7.1 Enrichment Analysis Results Tab
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Appendix "BEX5", "DIAPH2", "GBP3",
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End Select End If End Sub Appendix
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If NameStr.ToLower().Equals("query"
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Appendix C Long ncRNAs We detected
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C. Long ncRNAs Appendix Tag Accessi
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D.1 Pathway Interactions Appendix F
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D.2 Pathway Images Appendix Figure
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D.2 Pathway Images Appendix Figure
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E. Exon Array Data Appendix Average
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F. MicroRNA Array Data Appendix Tab
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F. MicroRNA Array Data Appendix GNS
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F. MicroRNA Array Data Appendix GNS
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Ln Natural logarithm LOH Loss of He
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3.3 Schematisation of cell cycle ph
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8.3 Workflows at the core of the pr
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7.1 Selected Gene Ontology terms an
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