Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

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A.2 Classified Differential Expression Appendix Implicated in glioma Limited evidence in glioma Not implicated in glioma but other cancers Cancer type Not implicated in cancers CPAMD8 NXPH1 FCGR2B follicular lymphoma CHCHD10 CREB3L1 OAS3 FCRLA B cell lymphoma CHODL CTLA4 OLFM1 FERMT3 lung CHRDL1 CXCL1 OXTR FGF19 liver,lung,colon CMAH CXCL12 PCDHB3 FOXJ1 pancreatic COL21A1 CXCL14 PDE4B FOXQ1 colorectal,breast CPLX2 CXCL2 PERP FXYD5 gastric,pancreatic,esophageal,cervical CPNE2 CXCL3 PIGA GCNT1 prostate CPNE5 CXCL6 PITPNC1 GJB2 breast,head,neck,pancreatic,endometrial CRB2 DCN PKNOX2 GJC3 HeLa CRYBB1 DKK1 PMP2 GMPR Human promyelocytic leukemia-cells CSGALNACT1 DLK1 PNP GPC3 hepatocelluar carcinoma,liver CXorf38 DNER PPEF1 GRB14 breast,prostate CYB5R2 DRD2 PSPH HAND2 neuroblastoma DCHS1 DUSP5 PTPRR HLA-DPA1 pilocytic astrocytoma DDO EEF1D PXDN HLA-DQA1 breast, gastric,lung adenocarcinoma DIAPH2 EFEMP1 PYGL HLA-DRB4 childhood ALL DKFZp434H1419 EFNA5 RAD50 HOXA4 ovarian,AML DNM3 EGFR RARRES3 HTATIP2 medulloblastoma,neuroblastoma DPY19L1 ELMO1 RASGEF1C IFI27 skin,epithelial,breast DTX4 EPAS1 RRAD IFI6 hepatocellular,gastric,fibrosarcoma ECHDC2 EPB41L3 SALL1 IGSF11 hepatocellular,gastrointestinal EFHD2 ERBB4 SCN1B IL4I1 B-cell lymphoma ELMO2 ESRRG SCN5A INS colon,breast, ELMOD1 ETS1 SIX6 IRX2 s<strong>of</strong>t tissue sarcoma ELN F2RL1 SLC4A4 ITIH5 breast cancer ELOVL2 FAM38B SLITRK5 ITM2A alveolar rhabdomyosarcoma ELTD1 FCGR2A SNAP25 JPH1 colorectal carcinoma EML2 FGFBP2 SNX10 KANK1 renal cell carcinoma EPDR1 FGFR1 SORL1 KCNJ12 prostate,stomach,breast EVC2 FMNL1 SQRDL KIAA1217 non-small cell lung cancer FAM126A FOXG1 SRGAP3 L3MBTL4 breast cancer FAM129A FXYD3 SRPX LEMD1 prostate,colorectal FAM134B GAL STAMBPL1 LMO2 gastrointestinal,hepatocellular,BLL,T-ALL FAM150B GALR1 SULF2 LMO4 squamous cell carcinoma,breast,pancreatic FAM176A GAS7 SYT1 LOXL4 head/neck carcinoma,bladder FAM181A GDF15 TAGLN LPHN2 breast cancer FAM184B GFAP TM4SF1 LRAT colon,colorectal,renal,mammary FAM189A1 GGH TMEM71 LRP4 CLL FAM196A GJA1 TNFAIP6 LRRC55 pancreatic FAM5B GPNMB TUSC3 LUM cervical,colorectal FAM69A GRIA1 LXN prostate,gastric,colon,melanoma,medulloblastoma FAM70A GRIA3 MAF cervical squamous FBXO27 GRM3 MALL oligodendrogliomas FBXO32 HEPACAM MAN1C1 malignant fibrous histiocytomas FCGR2C HIF3A MAP7 colon FEZF2 HLA-A MARVELD3 pancreatic FXYD7 HLA-DPB1 MEIS2 ovarian,embryonal carcinoma,myeloid leukemia FZD3 HLA-DQB1 MGLL breast GABBR2 HLA-DRA MICB cervical,osteosarcoma,squamous cell carcinoma GABRQ HLA-DRB1 MIPOL1 nasopharyngeal carcinoma,prostate GALNT5 HLA-DRB3 MLPH lung,breast GBP3 HMGA2 MMRN1 non-small cell lung cancer GBP4 252
A.2 Classified Differential Expression Appendix Implicated in glioma Limited evidence in glioma Not implicated in glioma but other cancers Cancer type Not implicated in cancers HOMER1 MN1 meningioma,ALL GBP5 HOXA1 MT1A breast GDPD2 HOXA10 MXRA5 ovarian,colon GEM HOXB7 MYBL1 leukemias GLYATL2 HOXD10 MYH3 adenocarcinoma GNG11 HOXD13 NBL1 pancreatic,colon GPR158 HOXD3 NDE1 AML GPR98 HOXD9 NFE2L3 pancreatic,T-cell lymphoblastic lymphoma GRIK3 HPRT1 NID1 colon,gastric GYG2 HPSE NOP16 murine breast H1F0 ICAM1 NPFFR2 Primary CNS lymphoma HCP5 ID4 NR0B1 lung adenocarcinoma,sarcoma HLA-DQA2 IFI30 NR1D1 breast HRCT1 IGF2 NTN1 colorectal,neuroblastoma IFITM8P IGFBP5 OAS2 prostate,breast IGLON5 IKBKE ODZ2 lymphoma IL33 IL13RA2 OGN hepatocarcinoma INS-IGF2 IL1B PARP3 breast cancer ISYNA1 IL1R1 PARP12 breast cancer ITGBL1 IL6 PCDH20 non-small-cell lung cancer KALRN IL8 PHACTR3 non-small-cell lung cancer KCNG1 INHBA PITX1 breast,lung,adenocarcinoma KCNK12 INHBB PKI55 cancer KCTD12 INPP5D PLD3 breast LINGO1 IRAK1 PLS1 lung adenocarcinoma LOC100127888 JAM2 PLS3 HeLa LOC285141 KCNA2 PLSCR1 ovarian,colorectal LRRC2 KCNK1 PMEPA1 renal cell carcinoma LYST KLF6 PNMA2 gastrointestinal neuroendocrine carcinomas MACROD2 LAMA4 PPAP2C MAP6 LGALS3 PPL esophageal MARCH1 LIF PPP4R1 breast,gastric MID1IP1 LIFR PRIMA1 thyroid,non small cell lung cancer cells,prostate MOCOS LMO3 PROCR breast MYL1 LNX1 PTPRD gastrointestinal MYL9 LPAR6 PTPRH stomach,colorectal MYO1B LRRN2 RAB11FIP1 breast NKX6-2 LTF RAB38 melanoma NRBF2 LY96 RAB6B breast,neuroendocrine OASL MAL RARRES1 melanoma,nasopharyngeal carcinoma,prostate OTOR MARS RARRES3 ovarian,breast PCDHB12 MATN2 REC8 gastrointestinal stromal tumour,lymphoma PCDHB4 MBP RGS17 lung,prostate,ovarian PCOLCE2 MET RGS5 gastric,renal cell carcinoma PDE1C MIA RHOBTB3 ganglioglioma PDE1C MICA RNASEH1 prostate PDZRN3 MKI67 RNF175 pediatric AML,non-Hodgkinslymphoma PION MLC1 RTN1 neuroblastoma PLA2G4A MMP7 SALL2 synovial sarcoma PLAC9 MT2A SEMA4G colorectal PLCH1 MTTP SEZ6L lung PLCH1 MYC SHOX2 lung PLEKHA6 NAMPT SIX3 Chondrosarcomas PPCS 253
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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 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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