Transcriptomics

Dataset Information

97

MiRNA high-throughput sequencing of follicular thyroid tumors


ABSTRACT: We report data obtaibed from high-throughput sequencing of small RNAs in 20 samples of follicular thyroid tumors. We analyzed a total of 4.7±1.5million reads per sample with 3 different pipelines. The main goal was to evaluate the usefulness of next generation sequencing in small RNA profiling and the concordance of its results with microarrays and qPCR. Additionally we verified published follicular thyroid tumor biomarkers in the set of our samples. Small RNA expression profiling with High Throughput Sequencing of 20 thyroid tumor samples, performed on an Illumina HiScan-SQ.

ORGANISM(S): Homo sapiens  

SUBMITTER: Michal Swierniak  Knut Krohn   Tomasz Stokowy    

PROVIDER: E-GEOD-39112 | ArrayExpress | 2014-09-06

SECONDARY ACCESSION(S): GSE39112SRP014020PRJNA170031

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

Analysis options for high-throughput sequencing in miRNA expression profiling.

Stokowy Tomasz T   Eszlinger Markus M   Świerniak Michał M   Fujarewicz Krzysztof K   Jarząb Barbara B   Paschke Ralf R   Krohn Knut K  

BMC research notes 20140313


BACKGROUND: Recently high-throughput sequencing (HTS) using next generation sequencing techniques became useful in digital gene expression profiling.Our study introduces analysis options for HTS data based on mapping to miRBase or counting and grouping of identical sequence reads. Those approaches allow a hypothesis free detection of miRNA differential expression. METHODS: We compare our results to microarray and qPCR data from one set of RNA samples. We use Illumina platforms for microarray ana  ...[more]

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