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Series GSE30688 Query DataSets for GSE30688
Status Public on Jul 15, 2011
Title Gene expression profiles of mouse sentinel lymph nodes (SLNs) in xenotransplanted and non tumor bearing CB17 SCID.
Organism Mus musculus
Experiment type Expression profiling by array
Summary Cutaneous melanoma first metastasizes into sentinel lymph nodes that control the lymphatic drain from the area of the primary tumor. This observation is used clinically for melanoma patients with primary melanomas thicker than 1mm (tumor stage ≥T2a), for these patients sentinel lymph node biopsy has become an important and routinely performed diagnostic procedure. The importance of sentinel node analysis is reflected by a significant better prognosis of melanoma patients with tumor free sentinel nodes compared to patients with metastatic sentinel nodes. Although intensively studied, not much is known about mechanisms responsible for the development of melanoma metastasis.To analyze gene expression in mouse SLNs of M24met tumor bearing animals as compared to tumor free control animals, SLNs were taken at different time points and analyzed for the presence of human M24met to classify SLNs into control, negative, macro metastatic SLN. After categorized SLNs were subjected to microarray analysis.
 
Overall design To analyze gene expression in mouse SLNs of human M24met tumor bearing animals as compared to tumor free control animals, SLNs were taken at different time points and analyzed for the presence of human M24met to classify SLNs into control, negative, macro metastatic SLN. Briefly, explanted SLNs were stored in RNA later (Ambion, Austin, TX) and DNA as well as RNA was extracted using AllPrep DNA/RNA Mini Kit and RNeasy Micro Kit (Qiagen, Valencia, CA) according to manufacturer’s instructions. To detect human cells in mouse SLNs we used a polymerase chain reaction method for the detection of a human-specific 850-bp fragment of the alpha-satellite DNA on human chromosome 17. For analysis of gene expression RNA from control SLN from tumor free animals (control), RNA from tumor negative SLN (negative), and RNA from macro metastatic SLN (positive) from tumor bearing animals was used to analyze gene expression on Mouse Genome 430A 2.0 Arrays (Affymetrix, Santa Clara, CA)
 
Contributor(s) Bracher A, Tauber S, Bilban M, Steele S, Loewe R
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Submission date Jul 14, 2011
Last update date Feb 11, 2019
Contact name Andreas Bracher
Organization name Medical University of Vienna
Department General Dermatology
Lab SERD - Skin and Endothelium Research Division
Street address Lazarettgasse 14, Floor 4, Lab 6
City Vienna
State/province Vienna
ZIP/Postal code 1090
Country Austria
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (9)
GSM761200 Ca
GSM761201 Cb
GSM761202 Cc
Relations
BioProject PRJNA144401

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
GSE30688_RAW.tar 23.8 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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