Transcriptional Characterization of Glioma Neural Stem Cells Diva ...

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Appendix "TAPBPL", "MEST", "EEF1A2", "C1orf187", "CALM1", "CREB3L1", "CCNY", "MGC87042", "TCF7L2", "ZNF710", "JAM2", "SCN5A", "SLC46A1", "TMSL1", "C20orf103", "HOXA5", "FMNL1", "CACNG7", "TF", "RNASEH1", "UNC80", "EGFR", "PTGS1", "ASPN", "SEMA4G", "ASNS", "FGFR1", "CHODL", "IRX1", "INPP5D", "PLSCR1", "NCALD", "CLDN3", "COL1A2", "GGH", "MICB", "FNDC5", "RAB11FIP1", "DKFZp434H1419", "AC012513.4", "CGREF1", "RP5-955M13.1", "KCNG1", "GFPT2", "IGFBP5", "CCDC8", "RADIL", "BID", "PPL", "RGS20", "BMP7"} Dim dbUrls() As String = {"www.gbmbase.org", "www.ncbi.nlm.nih.gov/pubmed", "www.ihop- net.org/UniPub/iHOP/", "biograph.be/", "scholar.google.com/scholar", "www.google.com"} Dim pageLoadTimes, nDB, ngene As Integer Public Event nextGene() Public Event nextDB() Private Sub ButtonStart_Click(sender As Object, e As EventArgs) Handles ButtonStart.Click ngene = -1 RaiseEvent nextGene() End Sub Private Sub nextGene_() Handles Me.nextGene ngene += 1 If ngene < genes.Count Then nDB = 4 ’0 ’-1+ TextBox3.Text = genes(ngene) RaiseEvent nextDB() Else ’ End data collection End If End Sub Private Sub nextDB_() Handles Me.nextDB nDB += 1 If nDB < dbUrls.Count Then pageLoadTimes = 0 Select Case nDB Case 0, 3 : WebBrowser1.Navigate(dbUrls(nDB)) Case 1 : WebBrowser1.Navigate(dbUrls(nDB) & "?term=" & genes(ngene) & " glioblastoma") Case 2 : WebBrowser1.Navigate(dbUrls(nDB) & "?search=" & genes(ngene) & " &field=all &ncbi_tax_id=9606&organism_syn=") Case 4 : WebBrowser1.Navigate(dbUrls(nDB) & "?as_vis=0&q=" & genes(ngene) & " +glioblastoma&hl=en&as_sdt=0,5") Case 5 : WebBrowser1.Navigate(dbUrls(nDB) & "#hl=en&gs_nf=1&cp=10&gs_id=r&xhr=t &q=" & genes(ngene) & "+NEAR+glioblastoma&fp=1") 268
End Select End If End Sub Appendix Private Sub WebBrowser1_DocumentCompleted(sender As Object, e As WebBrowserDoc- umentCompletedEventArgs) Handles WebBrowser1.DocumentCompleted If nDB = 0 Then ’ GMBbase Select Case pageLoadTimes Case 0 ’ Search and fill the "search textbox" For Each elem As HtmlElement In WebBrowser1.Document.All Dim NameStr As String = elem.GetAttribute("name") If ((NameStr IsNot Nothing) AndAlso (NameStr.Length 0)) Then If NameStr.ToLower().Equals("search") Then elem.InnerText = genes(ngene) End If End If Next WebBrowser1.Document.GetElementById("title_submit").InvokeMember("click") Case 1 ’ Search the link to Gene name For Each elem As HtmlElement In WebBrowser1.Document.Links Dim NameStr As String = elem.InnerText If ((NameStr IsNot Nothing) AndAlso (NameStr.Length 0)) Then If Trim(elem.InnerText) = genes(ngene) Then elem.InvokeMember("Click") Exit Select End If End If Next Case 2 ’ Get the results from page Dim st As String = WebBrowser1.DocumentText.ToString Dim st1 As Integer = st.IndexOf("Glioblastoma multiforme Gene Publications:") If st1 > 0 Then TextBox3.Text = Convert.ToInt32(Trim(st.Substring(st1 + 49, 5))) If TextBox3.Text "0" Then RaiseEvent nextGene() Else RaiseEvent nextDB() Exit Sub End If End Select ElseIf nDB = 1 Then ’ PubMed 269
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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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8.1 Principles Results say, this is
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8.3 Databases Results Figure 8.1: O
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8.3 Databases Results Figure 8.3: W
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8.4 Filters Results Bayesian method
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8.5 Target Prediction Ensemble Anal
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Page 323 and 324: Bibliography [1] Cell signaling tec
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[78] S. Bustin, V. Benes, J. Garson
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[523] T. Watanabe, A. Takeda, T. Ts
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