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Series GSE18155 Query DataSets for GSE18155
Status Public on Mar 15, 2010
Title Malignant Germ Cell Tumors Display Common microRNA Profiles Resulting in Global Changes in Expression of mRNA Targets
Platform organisms Homo sapiens; Human alphaherpesvirus 1; Human alphaherpesvirus 2; Human betaherpesvirus 5; Lymphocryptovirus; Rhadinovirus; JC polyomavirus; Human immunodeficiency virus 1; Merkel cell polyomavirus; Betapolyomavirus hominis; Betapolyomavirus macacae
Sample organism Homo sapiens
Experiment type Expression profiling by array
Non-coding RNA profiling by array
Third-party reanalysis
Summary Comparison of miRNA expression profiles in malignant germ cell tumors compared to non-malignant control group.
Use of bioinformatic algorithm Sylamer to interrogate mRNA expression profiles from malignant germ cell tumors for enrichment or depletion of binding sites for differentially expressed miRNAs.
Use of Gene Ontology (GO) analysis to demonstrate functional significance of differentially expressed miRNAs in malignant germ cell tumors.
 
Overall design mRNA profiling:
Analyzed global mRNA expresion profiles from 21 pediatric samples (17 malignant germ cell tumors, 1 benign germ cell tumor and 3 gonadal controls) using Sylamer (van Dongen et al, Nature Methods 2008, PMID 18978784) to study functional significance of differentially expressed miRNAs in malignant germ cell tumors. 16 of these files previously published - Palmer et al, Cancer Research 2008, PMID 18519683; GEO Accession Number GSE10615.
Similarly, re-analyzed published global mRNA expresion profiles from 25 adult samples (20 malignant germ cell tumors and 5 testis controls) using Sylamer (van Dongen et al, Nature Methods 2008, PMID 18978784) to study functional significance of differentially expressed miRNAs in malignant germ cell tumors. These files previously published - Korkola at al, Cancer Research 2006, PMID 16424014; GEO Accession Number GSE3218.

miRNA profiling:
Analyzed global miRNA expression files from 48 samples including 32 pediatric gonadal and extragonadal germ cell tumors, 2 adult testicular seminomas, 8 gonadal and developmental control samples and 6 germ cell tumor cell lines.
Re-analyzed published data (TaqMan MicroRNA Assays) from study of miRNA expression in adult gonadal germ cell tumors (Gillis et al, J Pathol 2007, PMID 17893849) and compared with pediatric findings. Re-analyzed data linked below as supplementary file.
 
Contributor(s) Murray MJ, Palmer RD, Saini HK, van Dongen S, Abreu-Goodger C, Muralidhar B, Pett MR, Thornton CM, Nicholson JC, Enright AJ, Coleman N
Citation(s) 20332240, 21059207, 37789102
Submission date Sep 17, 2009
Last update date Dec 05, 2023
Contact name Matthew Jonathan Murray
E-mail(s) mjm16@cam.ac.uk
Phone 07976413769
Organization name MRC Cancer Cell Unit
Department MRC/Hutchison Research Centre
Lab 2.5
Street address Box 197, Hills Road
City Cambridge
ZIP/Postal code CB2 0XZ
Country United Kingdom
 
Platforms (2)
GPL96 [HG-U133A] Affymetrix Human Genome U133A Array
GPL9957 miRCURY LNA microRNA Array, v. 9.2 - all organisms
Samples (94)
GSM453846 Malignant germ cell tumor_YST-1 [mRNA]
GSM453847 Malignant germ cell tumor_YST-2 [mRNA]
GSM453848 Malignant germ cell tumor_YST-3 [mRNA]
Relations
Reanalysis of GSM267500
Reanalysis of GSM267501
Reanalysis of GSM267503
Reanalysis of GSM267504
Reanalysis of GSM267505
Reanalysis of GSM267506
Reanalysis of GSM267508
Reanalysis of GSM267513
Reanalysis of GSM267514
Reanalysis of GSM267515
Reanalysis of GSM267518
Reanalysis of GSM267520
Reanalysis of GSM267521
Reanalysis of GSM267523
Reanalysis of GSM267524
Reanalysis of GSM267525
Reanalysis of GSM72398
Reanalysis of GSM72401
Reanalysis of GSM72404
Reanalysis of GSM72405
Reanalysis of GSM72416
Reanalysis of GSM72430
Reanalysis of GSM72431
Reanalysis of GSM72439
Reanalysis of GSM72447
Reanalysis of GSM72452
Reanalysis of GSM72453
Reanalysis of GSM72454
Reanalysis of GSM72456
Reanalysis of GSM72457
Reanalysis of GSM72467
Reanalysis of GSM72469
Reanalysis of GSM72473
Reanalysis of GSM72474
Reanalysis of GSM72477
Reanalysis of GSM72485
Reanalysis of GSM72495
Reanalysis of GSM72496
Reanalysis of GSM72497
Reanalysis of GSM72498
Reanalysis of GSM72499
BioProject PRJNA119493

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE18155_RAW.tar 243.7 Mb (http)(custom) TAR (of CEL, TXT)
GSE18155_TaqMan_data_reanalyzed.txt.gz 45.6 Kb (ftp)(http) TXT
Processed data included within Sample table

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