E-MTAB-1516 - Transcription profiling by array of serum mRNA in patients with head and neck squamous cell carcinoma

Status
Released on 20 February 2014, last updated on 9 December 2015
Organism
Homo sapiens
Samples (36)
Array (1)
Protocols (7)
Description
With the increasing demand for non-invasive approaches in monitoring of head and neck cancer, circulating nucleic acids have been shown to be a promising tool. We focused on the global transcriptome of serum samples of HNSCC patients in comparison to healthy individuals. We compared gene expression patterns of thirty-five samples. Twenty-four participants including 16 HNSCC patients (from 11 patients we obtained blood samples 1 year after treatment) and 8 control subjects were recruited. The Illumina Human-6 v 3 Expression BeadChip were used to profile and identify the differences in serum mRNA transcriptomes between cancer patients and healthy controls as well as the differences in serum mRNA transcriptomes between patient???s serum from the same donor obtained before surgery and then one year after treatment.
Experiment types
transcription profiling by array, clinical history, co-expression, disease state, in vivo, replicate, sex, time series
Contacts
Cestmir Vlcek, Hynek Strnad <strnad@img.cas.cz>, Jan Plzak <Jan.Plzak@lf1.cuni.cz>, Jana Sachova, Jaroslav Valach, Karel Jr Smetana <karel.smetana@lf1.cuni.cz>, Marketa Capkova, Martin Chovanec, Martin Steffl, Michal Kolar <kolarmi@img.cas.cz>, Miluse Hroudova, Zdenek Cada
Citations
Microarray analysis of serum mRNA in patients with head and neck squamous cell carcinoma at whole-genome scale. Čapková M, Šáchová J, Strnad H, Kolář M, Hroudová M, Chovanec M, Čada Z, Šteffl M, Valach J, Kastner J, Vlček Č, Smetana K, Plzák J. :408683 (2014), PMID:24864240
Microarray analysis of serum mRNA in patients with head and neck squamous cell carcinoma at whole genome scale. Capkova M., Sachova J., Strnad H., Kolar M., Hroudova M., Chovanec M., Cada Z., Steffl M., Valach J., Vlcek C., Smetana Jr K., Plzak J.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-MTAB-1516.idf.txt
Sample and data relationshipE-MTAB-1516.sdrf.txt
Raw data (1)E-MTAB-1516.raw.1.zip
Processed data (2)E-MTAB-1516.processed.1.zip, E-MTAB-1516.processed.2.zip
Additional data (1)E-MTAB-1516.additional.1.zip
Array designA-MEXP-1173.adf.txt