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| Status |
Public on Nov 01, 2011 |
| Title |
MicroRNA Expression Profiling of Carcinoma In Situ (CIS) Cells of the Testis. |
| Organism |
Homo sapiens |
| Experiment type |
Non-coding RNA profiling by array
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| Summary |
Testicular germ cell tumours (TGCTs) of young adult men, seminoma (SEM) and nonseminoma (NSEM), develop from a precursor cell, carcinoma in situ (CIS), which resembles foetal gonocytes and retains embryonic pluripotency. We used microarrays to analyse microRNA (miRNA) expression in 12 human testis samples with CIS cells and compared it to the miRNA expression profiles of normal adult testis, testis with Sertoli-cell-only (SCO) that lack germ cells, testis tumours (SEM and embryonal carcinoma, EC; an undifferentiated component of NSEM) and foetal male and female gonads. Principal component analysis revealed distinct miRNA expression profiles characteristic for each of the different tissue types. We identified several miRNAs that were unique to testis with CIS cells, foetal gonads, and testis tumours. These included miRNAs from the hsa-miR-371~373 and -302~367 clusters that have previously been reported in germ cell tumours and three miRNAs (hsa-miR-96, -141 and -200c) that were also expressed in human epididymis. We found several miRNAs that were upregulated in testis tumours: hsa-miR-9, -105 and the hsa-miR-182~183~96 cluster were highly expressed in SEM, while the hsa-miR-515~526 cluster was high in EC. We conclude that miRNA expression profile changes during testis development and that the miRNA profile of adult testis with CIS cells shares characteristic similarities with the expression in foetal gonocytes.
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| Overall design |
We used Agilent microarrays to determine the expression of microRNAs in samples from testis. We first used Agilent-016436 Human miRNA Microarray 1.0 G4472A (GPL9081; miRNA ID version) on 4 samples: normal testis, testis with 30% carcinoma in situ (CIS) tubules, testis with 50% CIS tubules and testis with 99-100% CIS tubules. This allowed us to determine the correlation between miRNA expressiona and the content of CIS cells in the samples. This is the file with data from those four arrays. Next, we used Agilent-019118 Human miRNA Microarray 2.0 G4470B (GPL8936; Probe Name version) on 24 samples that included normal testis, testis with the precursor for testis cancer carcinoma in situ (CIS), Sertoli-cell-only testis (contains the somatic testis cells but no germ cells), seminom and non-seminom tumours, and foetal gonads. This constitute the main part of the experiment and the publication, but the data was submitted to GEO in an independent file.
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| Contributor(s) |
Novotny GW, Belling KC, Bramsen JB, Nielsen JE, Bork-Jensen J, Almstrup K, Sonne SB, Kjems J, Rajpert-De Meyts E, Leffers H |
| Citation(s) |
22420006 |
| Submission date |
Sep 01, 2011 |
| Last update date |
May 07, 2014 |
| Contact name |
Henrik Leffers |
| E-mail(s) |
henrik.leffers@biobase.dk
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| Phone |
+45 23371771
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| Organization name |
Dept. of Biology, Copenhagen University
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| Department |
August Krogh Building
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| Street address |
Universitetsparken 13
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| City |
Copenhagen |
| ZIP/Postal code |
dk-2100 |
| Country |
Denmark |
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| Platforms (2) |
| GPL8227 |
Agilent-019118 Human miRNA Microarray 2.0 G4470B (miRNA ID version) |
| GPL9081 |
Agilent-016436 Human miRNA Microarray 1.0 G4472A (miRNA ID version) |
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| Samples (28)
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| GSM789293 |
SF6220V CIS100 |
| GSM789294 |
Normal spermatogenesis, patient 15 |
| GSM789295 |
Normal spermatogenesis, patient 16 |
| GSM789296 |
SCO, patient 12 |
| GSM789297 |
SCO, patient 13 |
| GSM789298 |
SCO, patient 14 |
| GSM789299 |
CIS, patient 3 |
| GSM789300 |
SEM patient 3 |
| GSM789301 |
SEM patient 4 |
| GSM789302 |
CIS, patient 5 |
| GSM789303 |
SEM patient 5 |
| GSM789304 |
EC, patient 1 |
| GSM789305 |
CIS, patient 2 |
| GSM789306 |
EC, patient 2 |
| GSM789307 |
CIS, patient 7 |
| GSM789308 |
CIS, patient 8 |
| GSM789309 |
CIS, patient 6 |
| GSM789310 |
CIS, patient 9 |
| GSM789311 |
CIS, patient 10 |
| GSM789312 |
CIS, patient 11 |
| GSM789313 |
Testis RNA, Ambion |
| GSM789314 |
Testis RNA, Biochain |
| GSM789315 |
Foetal Gonad Male 1 |
| GSM789316 |
Foetal Gonad Male 2 |
| GSM789317 |
Foetal Gonad Female 1 |
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| Relations |
| BioProject |
PRJNA145143 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE31824_RAW.tar |
51.1 Mb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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