Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

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A.2 Classified Differential Expression Appendix A.2 Classified Differential Expression The differentially expressed genes generated by the Bioconductor R package DESeq at a FDR
A.2 Classified Differential Expression Appendix Table A.2: Classification <strong>of</strong> differentially expressed genes based on literature mining analysis. Implicated in glioma Limited evidence in glioma Not implicated in glioma but other cancers Cancer type Not implicated in cancers ACIN1 ABAT ADAMTS1 non-small lung carcinoma AC012354.2 ACTC1 ADCYAP1R1 ADAMTS10 glaucoma AC026410.6 ADAMTS4 ADD2 AKR1B10 cervical, endometrial AC034102.1 AGT ADRA1B AMMECR1 renal cell carcinoma AC067930.1 ALDH1A3 BGN ANGPTL2 ovarian cancer AC068399.1 APLN BST2 ARC breast cancer AC092296.1 APOD CNTN6 ARHGAP20 breast, BCLL ACTA2 AQP4 DDAH2 ARHGAP8 colorectal ADRA2A ASNS DDIT3 ARHGEF7 gastric AFAP1L2 ASPN FCGR2B ATAD3C lung adenocarcinoma AGPAT9 ATOH8 FUT8 AZGP1 breast, pancreatic AIDA ATP10B FXYD1 BACE2 breast ANGPTL1 ATP1B2 GABRA5 BEX5 breast ATP1A2 BAMBI GBP1 BTBD11 neuroblastoma B3GNT9 BID GBP2 BTG1 ovarian B4GALNT1 BIRC3 GFPT2 C5orf13 esophageal BATF3 BMP7 GJB2 C6orf15 blood BMP8B BTC HAND2 C8orf4 thyroid BMPER C1S HAPLN1 CAPN6 HeLa C10orf11 C2 HLA-DMA CARD17 head, neck C10orf116 C3 HLA-DPA1 CDH19 head, neck C10orf81 CA12 HLA-DRB5 CDH6 renal cell carcinoma C10orf90 CALM1 HOXA5 CILP breast C14orf143 CAMK2B HOXA7 CLDN10 hepatocelluar carcinoma C1orf133 CASP1 HOXB6 CLDN11 gastric cancer C1orf187 CBLC HOXB9 CMPK2 chronic myelogenous leukemia and CLL C1orf94 CCKBR HOXC10 CMTM5 prostate,pancreas,carcinoma C20orf103 CCL2 HOXC13 CMTM8 HeLa C21orf62 CCL26 IFITM2 CNKSR2 HL60 leukemia cells C2orf80 CCL7 IGSF3 COL8A1 hepatocarcinoma C3orf58 CCND2 IL17RD CRIP2 nasopharyngeal epithelial cell line C4orf32 CCNY IL1RAPL1 CRYBB2 rhabdoid tumour (kidney) C5orf38 CCR1 INSIG1 CRYM prostate C5orf41 CD248 IRX1 CTNNA2 endometrial C6orf138 CD55 ITGA4 CTSC esophageal cancer C7orf16 CD58 KCNMB2 CXXC4 renal carcinoma C7orf40 CD68 LAMA2 DCBLD2 gastric,lung C9orf125 CD70 LFNG DDIT4L melanoma C9orf64 CD74 LHFPL3 DHRS3 neuroblastoma C9orf95 CD9 MAP3K5 DOCK10 melanoma CABP7 CD97 MEST DOCK5 osteosarcoma CACNA1A CDH13 MFAP2 DUSP16 Burkitt’s lymphoma CACNA1C CDKN2A MMP17 DYNC1I1 myeloma CACNG7 CDKN2C MOSC2 EDA2R colorectal CACNG8 CEBPB MX1 EEF1A2 ovarian, pancreatic, lung CAMK1D CFB NCALD EPDR1 colorectal CARD16 CITED4 NEFM EPHB3 non small cell lung cancer, colon CCDC129 CLDN3 NELL2 ETS2 prostate,colon,breast CCDC48 CNTN1 NFATC2 F12 small cell lung CCDC64 COL1A2 NFKBIZ FAM84A colon CCNO COL3A1 NR0B1 FBLN2 breast CDHR1 COL4A6 NRN1 FBN2 squamous cell carcinoma CGREF1 251
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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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7.1 Enrichment Analysis Results Fig
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7.1 Enrichment Analysis Results Tab
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7.2 Glioblastoma Expression Signatu
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7.3 Tumour Expression Correlation R
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7.4 Survival Analysis Results Table
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7.4 Survival Analysis Results 867 g
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7.5 Glioblastoma Pathway Analysis R
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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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Bibliography [1] Cell signaling tec
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