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How to use GEO

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How to use GEO Ka-Lok Ng Department of Bioinformatics Asia University Taiwan GEO datasets Go to http://www.ncbi.nlm.nih.gov/ Select GEO datasets Keyword ... – PowerPoint PPT presentation

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Title: How to use GEO


1
How to use GEO
  • Ka-Lok Ng
  • Department of Bioinformatics
  • Asia University
  • Taiwan

2
GEO datasets
  • Go to http//www.ncbi.nlm.nih.gov/
  • Select GEO datasets
  • Keyword Hepatoma cell lines, homo

3
GSE8351
4
GSE, GPL, GSM
GPL
GSM
5
GPL5452 view full table
6
67 samples - mainly HCC samples
7
Sample GSM206985
8
  • G000002 0.065540587
  • G000003 0.053925988
  • G000004 0.031904168

9
  • Search GEO datasets for GSE3536
  • Title Hepatoma cell lines vs. Universal control
    3

10
GSE3536
11
GPL2913 view full table
12
36 samples
13
GSM81024 HepG2 vs. Universal control 5
14
GEO Profiles - http//www.ncbi.nlm.nih.gov/
Step2?????????????? GATA6 (gene name ) AND
"Homo Sapiens" ORGN AND GDS596 (Accession )

Step1??GEO Profiles
15
Search result
?????tissue??
???,????????,?user????????,???????NM?????
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