Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

More documents

Recommendations

Info

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 NCAM1 SKAP2 pancreatic PPHLN1 NDN SLC16A3 bladder cancer PPM1K NFASC SLC26A2 gastric,colon carcinoma PRSS12 NFIA SLC2A5 breast,adenocarcinoma,colon,liver,lymphomas PRSS12 NKX2-1 SLCO2A1 colorectal PSORS1C1 NKX6-2 SMAGP metastatic cell lines RAB7L1 NMU SPAG4 various cancers RADIL NNAT SPARCL1 colorectal,pancreatic,lung RGAG4 NNMT SPINK2 lymphomas RGL3 NOTCH3 SPINT1 colorectal,gastric,breast,stomach,ovarian RGS20 NOV SPRED1 juvenile myelomonocytic leukemia, RHBDF2 NPTX2 SRP9 colorectal RHPN1 NR4A2 ST6GALNAC3 renal cancer RIPK4 NRG1 ST6GALNAC5 breast RP11-473I1.1 NRP2 STC2 esophageal,squamous-cell carcinoma,ovarian RP9 NTRK2 STEAP1 breast,prostate RPSAP52 OAS1 STEAP2 prostate RRS1 OTX2 STRA6 colorectal RTP4 P2RX7 SULF1 colorectal,ovarian,hepatocellular,gastric SCN11A PAX8 SULF2 lung adenocarcinoma,squamous cell carcinoma SDK2 PDGFA SYTL4 breast SEMA6A PDGFRA SYTL5 breast SFTA3 PDGFRB TBC1D8 pancreatic SGCD PDPN TCEAL2 ovarian SH3BGR PEA15 TCF7 colon cancer,acanthoma SHISA2 PHLPP1 TM4SF1 pancreatic SHROOM3 PI15 TNFAIP2 nasopharyngeal carcinoma SLC38A5 PLA2G2A TNFRSF14 pancreatic SLC46A1 PLCB1 TNFSF4 Hodgkin’s lymphoma,breast SLC4A11 PTEN TPMT acute and lymphoblastic leukemia SMOC2 PTGS1 TRIB2 lung,AML,melanoma SNHG12 PTPRD TRIB3 breast,colorectal cancer SNX22 RASGRP3 TSHZ3 breast,prostate SORCS2 S100A6 TSPAN13 prostate,breast SORCS3 S100B TSPAN7 neuroblastoma,ALL SPTBN5 S1PR3 TSPAN9 ovarian STEAP1B SDC2 TTN melanoma STX3 SELENBP1 ZIC3 meningioma STXBP5L SEMA3D ZIC5 meningioma SYNGR1 SERPINE2 ZNF423 neuroblastoma,CML TAPBPL SFRP1 TBC1D8 SHC4 TECRL SLC15A2 TESC SLC38A1 TMCO4 SLCO1C1 TMEM100 SLITRK5 TMEM132D SNCAIP TMEM158 SOD2 TMEM176B SOD3 TMEM200B SOX10 TMEM38A SOX3 TMSB15A SPP1 TMSL1 ST6GAL1 TNNC2 254
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 ST6GALNAC5 TNNI1 SYNM TNNI2 TCF7L2 TOX TES TRAM1L1 TF TRIM14 TFAP2A TRIM48 TFCP2 TSTD1 TGFA TTF2 TGM2 TUBB4 THBS2 TUSC3 THY1 UNC5D TNC UNC80 TNFAIP3 VAX1 TPM1 VIPR2 TRAF1 VIT TRIM47 WBSCR17 TRPM8 XYLT1 TSLP ZNF281 TTYH1 ZNF454 TUBA4A ZNF536 UGT8 ZNF710 VCAM1 ZNF714 VIPR1 ZNF747 255 VSNL1 ZEB1 ZIC2 ZIC4
Page 1 and 2:
Transcriptional Characterization of
Page 3 and 4:
This dissertation is my own work an
Page 5 and 6:
Acknowledgements I would like to th
Page 7 and 8:
5.9 External Dataset Expression Cor
Page 9 and 10:
Introduction 1
Page 11 and 12:
1.1 Glial Cells in the Central Nerv
Page 13 and 14:
1.2 Glioblastoma Multiforme Introdu
Page 15 and 16:
Page 17 and 18:
Page 19 and 20:
1.3 Primary and Secondary Glioblast
Page 21 and 22:
Page 23 and 24:
Page 25 and 26:
Page 27 and 28:
Page 29 and 30:
1.4 Pathways Involved in Glioblasto
Page 31 and 32:
Page 33 and 34:
Page 35 and 36:
Page 37 and 38:
Page 39 and 40:
1.5 Pathway Crosstalk Introduction
Page 41 and 42:
Chapter 2 Neurogenesis Contents 2.1
Page 43 and 44:
2.1 Radial Glia Introduction VZ adj
Page 45 and 46:
2.2 Neural Stem Cells Introduction
Page 47 and 48:
Page 49 and 50:
Page 51 and 52:
Page 53 and 54:
Page 55 and 56:
Page 57 and 58:
Page 59 and 60:
Page 61 and 62:
Page 63 and 64:
Page 65 and 66:
Chapter 3 Brain Cancer Stem Cells C
Page 67 and 68:
3.1 The Cancer Stem Cell Hypothesis
Page 69 and 70:
3.1 The Cancer Stem Cell Hypothesis
Page 71 and 72:
3.2 Brain Cancer Stem Cells Introdu
Page 73 and 74:
Page 75 and 76:
Page 77 and 78:
Page 79 and 80:
Page 81 and 82:
3.3 Glioma Culture Systems Introduc
Page 83 and 84:
Page 85 and 86:
Page 87 and 88:
Page 89 and 90:
Page 91 and 92:
Page 93 and 94:
Chapter 4 The Non-Coding RNA World
Page 95 and 96:
4.1 MicroRNA regulation Introductio
Page 97 and 98:
4.1 MicroRNA regulation Introductio
Page 99 and 100:
4.2 Target Prediction and Validatio
Page 101 and 102:
Methods 93
Page 103 and 104:
5.1 Tag-sequencing Data Processing
Page 105 and 106:
5.1 Tag-sequencing Data Processing
Page 107 and 108:
5.2 Array Comparative Genomic Hybri
Page 109 and 110:
5.4 Quantitative Real Time-PCR Vali
Page 111 and 112:
Page 113 and 114:
Page 115 and 116:
5.5 Literature Mining Methods Figur
Page 117 and 118:
5.5 Literature Mining Methods How m
Page 119 and 120:
5.6 Differential Isoform Expression
Page 121 and 122:
5.9 External Dataset Expression Cor
Page 123 and 124:
5.10 Glioblastoma Pathway Construct
Page 125 and 126:
5.11 MicroRNA Target Prediction Ana
Page 127 and 128:
Results 119
Page 129 and 130:
6.2 Tag mapping Results Table 6.1:
Page 131 and 132:
6.2 Tag mapping Results 123 Figure
Page 133 and 134:
6.3 Copy Number Aberrations Results
Page 135 and 136:
6.3 Copy Number Aberrations Results
Page 137 and 138:
6.4 Core Differentially Expressed G
Page 139 and 140:
Page 141 and 142:
Page 143 and 144:
Page 145 and 146:
6.5 Large-scale qRT-PCR Validation
Page 147 and 148:
Page 149 and 150:
Page 151 and 152:
6.6 Literature Mining for Different
Page 153 and 154:
6.7 Isoform Differential Expression
Page 155 and 156:
Page 157 and 158:
Page 159 and 160:
Page 161 and 162:
Page 163 and 164:
Page 165 and 166:
6.8 Long ncRNA Differential Express
Page 167 and 168:
6.8 Long ncRNA Differential Express
Page 169 and 170:
Chapter 7 Dataset Correlation Analy
Page 171 and 172:
7.1 Enrichment Analysis Results Tab
Page 173 and 174:
7.1 Enrichment Analysis Results Fig
Page 175 and 176:
7.1 Enrichment Analysis Results Tab
Page 177 and 178:
7.2 Glioblastoma Expression Signatu
Page 179 and 180:
7.3 Tumour Expression Correlation R
Page 181 and 182:
Page 183 and 184:
Page 185 and 186:
Page 187 and 188:
Page 189 and 190:
Page 191 and 192:
7.4 Survival Analysis Results Table
Page 193 and 194:
7.4 Survival Analysis Results 867 g
Page 195 and 196:
7.5 Glioblastoma Pathway Analysis R
Page 197 and 198:
Page 199 and 200:
Page 201 and 202:
Page 203 and 204:
Page 205 and 206:
Page 207 and 208:
Page 209 and 210:
Page 211 and 212: 8.1 Principles Results say, this is
Page 213 and 214: 8.3 Databases Results Figure 8.1: O
Page 215 and 216: 8.3 Databases Results Figure 8.3: W
Page 217 and 218: 8.4 Filters Results Bayesian method
Page 219 and 220: 8.5 Target Prediction Ensemble Anal
Page 229 and 230: 9.1. Digital Profiling of GNS Cell
Page 239 and 240: 9.2. MicroRNA Target Prediction Ana
Page 241 and 242: 9.3. Concluding Remarks Appendix pr
Page 243 and 244: A.1 Differential Expression Appendi
Page 259 and 260: A.2 Classified Differential Express
Page 261: A.2 Classified Differential Express
Page 265 and 266: A.3 Quantitative RT-PCR Appendix Ta
Page 267 and 268: A.3 Quantitative RT-PCR Appendix We
Page 269 and 270: A.3 Quantitative RT-PCR Appendix Ta
Page 271 and 272: A.3 Quantitative RT-PCR Appendix We
Page 273 and 274: A.4 Tag-seq vs qRT-PCR Correlation
Page 275 and 276: Appendix "BEX5", "DIAPH2", "GBP3",
Page 277 and 278: End Select End If End Sub Appendix
Page 279 and 280: If NameStr.ToLower().Equals("query"
Page 281 and 282: Appendix C Long ncRNAs We detected
Page 283 and 284: C. Long ncRNAs Appendix Tag Accessi
Page 285 and 286: D.1 Pathway Interactions Appendix F
Page 291 and 292: D.2 Pathway Images Appendix Figure
Page 293 and 294: D.2 Pathway Images Appendix Figure
Page 295 and 296: E. Exon Array Data Appendix Average
Page 309 and 310: F. MicroRNA Array Data Appendix Tab
Page 311 and 312: F. MicroRNA Array Data Appendix GNS
Page 313 and 314:
F. MicroRNA Array Data Appendix GNS
Page 315 and 316:
Ln Natural logarithm LOH Loss of He
Page 317 and 318:
3.3 Schematisation of cell cycle ph
Page 319 and 320:
8.3 Workflows at the core of the pr
Page 321 and 322:
7.1 Selected Gene Ontology terms an
Page 323 and 324:
Bibliography [1] Cell signaling tec
Page 325 and 326:
[38] G. Bain, D. Kitchens, M. Yao,
Page 327 and 328:
[78] S. Bustin, V. Benes, J. Garson
Page 329 and 330:
[112] M. Czystowska, J. Han, M. Szc
Page 331 and 332:
[153] T. Fujiwara, M. Bandi, M. Nit
Page 333 and 334:
[192] M. Hernandez, M. Nieto, and M
Page 335 and 336:
[231] T.-M. Kim, W. Huang, R. Park,
Page 337 and 338:
[268] H. Lemjabbar-Alaoui, A. van Z
Page 339 and 340:
[305] K. MAEDA, S. MATSUHASHI, K. T
Page 341 and 342:
[342] H. Moon, M. Ahn, J. Park, K.
Page 343 and 344:
[379] D. Park and J. Rich. Biology
Page 345 and 346:
[417] P. Rakic. Guidance of neurons
Page 347 and 348:
[456] T. Shima, N. Okumura, T. Taka
Page 349 and 350:
[490] P. A. C. t’Hoen, Y. Ariyure
Page 351 and 352:
[523] T. Watanabe, A. Takeda, T. Ts
show all

Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

Create successful ePaper yourself

Delete template?

Save as template?