Transcriptomics,Genomics

Dataset Information

168

Next Generation Sequencing Facilitates Quantitative Analysis of miR-29b-1 and miR-29a targets in tamoxifen-sensitive and tamoxifen-resistant human breast cancer cells


ABSTRACT: The goal of this experiment was to identify the putative mRNA targets of miR-29b-1 and miR-29a in LCC9 tamoxifen-resistant breast cancer cell lines relative to parental MCF-7 tamoxifen-sensitive cells Overall design: Methods: MCF-7 and LCC9 cells were transfected, in three separate experiments, with pre-miR-29b-1, pre-miR-29a, or anti-miR-29a (which blocks both miR-29b-1 and miR-29a). RNA seq profiles were generated by deep sequencing, in triplicate, using Illumina Nextseq500. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks.

INSTRUMENT(S): Illumina NextSeq 500 (Homo sapiens)

SUBMITTER: Eric Christian Rouchka  

PROVIDER: GSE81620 | GEO | 2017-08-11

SECONDARY ACCESSION(S): PRJNA322129

REPOSITORIES: GEO

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Publications

The miR-29 transcriptome in endocrine-sensitive and resistant breast cancer cells.

Muluhngwi Penn P   Alizadeh-Rad Negin N   Vittitow Stephany L SL   Kalbfleisch Ted S TS   Klinge Carolyn M CM  

Scientific reports 20170712 1


Aberrant microRNA expression contributes to breast cancer progression and endocrine resistance. We reported that although tamoxifen stimulated miR-29b-1/a transcription in tamoxifen (TAM)-resistant breast cancer cells, ectopic expression of miR-29b-1/a did not drive TAM-resistance in MCF-7 breast cancer cells. However, miR-29b-1/a overexpression significantly repressed TAM-resistant LCC9 cell proliferation, suggesting that miR-29b-1/a is not mediating TAM resistance but acts as a tumor suppresso  ...[more]

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